Methods and compounds for identifying glycosyltransferase inhibitors

Abstract

The present invention provides moenomycin-based probe compounds of Formula (I) for use in screening inhibitors of bacterial glycosyltransferases. The present invention also provides bacterial glycosyltransferase screening assays using compounds of Formula (I).

Claims

1. A compound of Formula (I): ##STR00131## or a salt thereof, wherein R.sup.1 is -L-R.sup.P, C(O)NH-L-R.sup.P, CH.sub.2O-L-R.sup.P, or C(O)O-L-R.sup.P; R.sup.2 and R.sup.3 are independently hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8; R.sup.4 is hydrogen or WR.sup.4a; W is O or NH; R.sup.4a is hydrogen, a hydroxyl protecting group, optionally substituted aliphatic, C(O)R.sup.10, C(O)NHR.sup.8, C(NR.sup.8)NHR.sup.8, or C(O)OR.sup.9; R.sup.5 is hydrogen or NHR.sup.8; R.sup.6 is hydrogen, CH.sub.3, CH.sub.2OR.sup.9, or CH.sub.2OR.sup.CX; wherein R.sup.CX is a carbohydrate moiety; R.sup.7 is hydrogen, OR.sup.9, or N(R.sup.8).sub.2; each R.sup.8 is independently hydrogen, an amino protecting group, C(O)R.sup.10, optionally substituted aliphatic, optionally substituted aryl, optionally substituted heterocyclyl, or optionally substituted heteroaryl, or two R.sup.8 groups on the same nitrogen may be taken together to form an optionally substituted heterocyclyl; each R.sup.9 is independently hydrogen, a hydroxyl protecting group, C(O)R.sup.10, optionally substituted aliphatic, optionally substituted aryl, optionally substituted heterocyclyl, or optionally substituted heteroaryl; each R.sup.10 is independently optionally substituted aliphatic, optionally substituted heterocyclic, optionally substituted aryl, or optionally substituted heteroaryl; R.sup.a and R.sup.b are independently hydrogen or a hydroxyl protecting group; G is an optionally substituted C.sub.1-16 aliphatic group, wherein 0 to 10 methylene units are optionally replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene; wherein each instance of R.sup.x is independently hydrogen, optionally substituted aliphatic, optionally substituted heterocyclyl, optionally substituted aryl, optionally substituted heteroaryl; or G is a group of Formula (a), (b), or (c): ##STR00132## wherein a is 3, 4, or 5; ##STR00133## wherein X.sub.1, X.sub.2, X.sub.3, X.sub.4, X.sub.5, X.sub.6, and X.sub.7 are each independently hydrogen or halogen; d is an integer between 1 and 25, inclusive; and e is an integer of between 2 and 25, inclusive; provided the sum of d and e is greater than 16; or ##STR00134## wherein Y is O, S, NR.sup.Y, or an optionally substituted methylene group, wherein R.sup.Y is hydrogen, optionally substituted aliphatic, or an amino protecting group; each instance of R.sup.c is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.e, SR.sup.e, NHR.sup.e, or N(R.sup.e).sub.2, wherein each instance of R.sup.e is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.e groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; each instance of R.sup.d is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.f, SR.sup.f, NHR.sup.f, or N(R.sup.f).sub.2, wherein each instance of R.sup.f is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.f groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; R.sup.z is hydrogen, F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.g, SR.sup.g, NHR.sup.g, or N(R.sup.g).sub.2, wherein each instance of R.sup.g is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl or two R.sup.g groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; each instance of n is, independently, 0, 1, 2, 3, or 4; each instance of m is, independently, 0, 1, 2, 3, or 4; and x is 1, 2, 3, 4, 5, or 6; R.sup.YY is hydrogen or OR.sup.XX; R.sup.XX is hydrogen, a hydroxyl protecting group, or a group of formula: ##STR00135## wherein R.sup.11 is hydrogen, optionally substituted aliphatic, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.12 and R.sup.13 are independently hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8; R.sup.14 is hydrogen or NHR.sup.8; R.sup.15 is hydrogen, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.16 is hydrogen or OR.sup.9; R.sup.17 is hydrogen or OR.sup.9; R.sup.18 is hydrogen or OR.sup.9; R.sup.19a is hydrogen or OR.sup.9; R.sup.19b is hydrogen or OR.sup.9; wherein a hydrogen radical on the compound of Formula (I) is replaced with -L-R.sup.P; L is a covalent bond, NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, optionally substituted cycloalkylene, optionally substituted heterocyclylene, optionally substituted arylene, optionally substituted heteroarylene, or an optionally substituted aliphatic linker, wherein one or more methylene units of the aliphatic linker are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene; wherein R.sup.y is hydrogen, C.sub.1-6 alkyl, or C(O)C.sub.1-6 alkyl; and R.sup.P is selected from the group consisting of ligands, radionuclides, fluorescent dyes, chemiluminescent agents, microparticles, enzymes, calorimetric labels, magnetic labels, and haptens.

2. A compound of Formula (I): ##STR00136## or a salt thereof, wherein R.sup.1 is hydrogen, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.2 and R.sup.3 are independently hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8; R.sup.4 is hydrogen or WR.sup.4a; W is O or NH; R.sup.4a is hydrogen, a hydroxyl protecting group, optionally substituted aliphatic, C(O)R.sup.10, C(O)NHR.sup.8, C(NR.sup.8)NHR.sup.8, or C(O)OR.sup.9; R.sup.5 is hydrogen or NHR.sup.8; R.sup.6 is hydrogen, CH.sub.3, CH.sub.2OR.sup.9, or CH.sub.2OR.sup.CX; wherein R.sup.CX is a carbohydrate moiety; R.sup.7 is hydrogen, OR.sup.9, or N(R.sup.8).sub.2; each R.sup.8 is independently hydrogen, an amino protecting group, C(O)R.sup.10, optionally substituted aliphatic, optionally substituted aryl, optionally substituted heterocyclyl, or optionally substituted heteroaryl, or two R.sup.8 groups on the same nitrogen may be taken together to form an optionally substituted heterocyclyl; each R.sup.9 is independently hydrogen, a hydroxyl protecting group, C(O)R.sup.10, optionally substituted aliphatic, optionally substituted aryl, optionally substituted heterocyclyl, or optionally substituted heteroaryl; each R.sup.10 is independently optionally substituted aliphatic, optionally substituted heterocyclic, optionally substituted aryl, or optionally substituted heteroaryl; R.sup.a and R.sup.b are independently hydrogen or a hydroxyl protecting group; G is an optionally substituted C.sub.1-16 aliphatic group, wherein 0 to 10 methylene units are optionally replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene; wherein each instance of R.sup.x is independently hydrogen, optionally substituted aliphatic, optionally substituted heterocyclyl, optionally substituted aryl, optionally substituted heteroaryl; or G is a group of Formula (a), (b), or (c): ##STR00137## wherein a is 3, 4, or 5; ##STR00138## wherein X.sub.1, X.sub.2, X.sub.3, X.sub.4, X.sub.5, X.sub.6, and X.sub.7 are each independently hydrogen or halogen; d is an integer between 1 and 25, inclusive; and e is an integer of between 2 and 25, inclusive; provided the sum of d and e is greater than 16; or ##STR00139## wherein Y is O, S, NR.sup.Y, or an optionally substituted methylene group, wherein R.sup.Y is hydrogen, optionally substituted aliphatic, or an amino protecting group; each instance of R.sup.c is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.e, SR.sup.e, NHR.sup.e, or N(R.sup.e).sub.2, wherein each instance of R.sup.e is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.e groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; each instance of R.sup.d is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.f, SR.sup.f, NHR.sup.f, or N(R.sup.f).sub.2, wherein each instance of R.sup.f is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.f groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; R.sup.z is hydrogen, F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.g, SR.sup.g, NHR.sup.g, or N(R.sup.g).sub.2, wherein each instance of R.sup.g is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl or two R.sup.g groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; each instance of n is, independently, 0, 1, 2, 3, or 4; each instance of m is, independently, 0, 1, 2, 3, or 4; and x is 1, 2, 3, 4, 5, or 6; R.sup.YY is hydrogen or OR.sup.XX; R.sup.XX is hydrogen, a hydroxyl protecting group, or a group of formula: ##STR00140## wherein R.sup.11 is hydrogen, optionally substituted aliphatic, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.12 and R.sup.13 are independently hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8; R.sup.14 is hydrogen or NHR.sup.8; R.sup.15 is hydrogen, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.16 is hydrogen or OR.sup.9; R.sup.17 is hydrogen or OR.sup.9; R.sup.18 is hydrogen or OR.sup.9; R.sup.19a is hydrogen or OR.sup.9; R.sup.19b is hydrogen or OR.sup.9; wherein a hydrogen radical on the compound of Formula (I) is replaced with -L-R.sup.P: L is NHC(S)NH, C(O)CH.sub.2NHC(S)NH, ##STR00141## and R.sup.P is selected from the group consisting of ligands, radionuclides, fluorescent dyes, chemiluminescent agents, microparticles, enzymes, calorimetric labels, magnetic labels, and haptens.

3. The compound of claim 2, wherein R.sup.YY is OH or OR.sup.XX, and R.sup.XX is a group of formula: ##STR00142##

4. The compound of claim 2, wherein R.sup.XX is a group of formula: ##STR00143##

5. The compound of claim 2, wherein R.sup.6 is CH.sub.2OH or CH.sub.2OR.sup.CX; wherein R.sup.CX is a carbohydrate moiety.

6. The compound of claim 2, wherein G is ##STR00144##

7. The compound of claim 2, wherein R.sup.P is selected from the group consisting of Alexa Fluor 350, Alexa Fluor 488, Alexa Fluor 532, Alexa Fluor 546, Alexa Fluor 568, Alexa Fluor 594, Alexa Fluor 633, Alexa Fluor 660 and Alexa Fluor 680, AMCA, AMCA-S, BODIPY FL, BODIPY R6G, BODIPY TMR, BODIPY TR, BODIPY 493/503, BODIPY 530/550, BODIPY 558/568, BODIPY 564/570, BODIPY 576/589, BODIPY 581/591, BODIPY 630/650, BODIPY 650/665, aminomethylcoumarin, carbocyanine, carboxyrhodamine 6G, carboxy-X-rhodamine (ROX), Cascade Blue, Cascade Yellow, coumarin, coumarin 343, cyanine dyes, dansyl, dapoxyl, dialkylaminocoumarin, 4,5-dichloro-2,7-dimethoxyfluorescein, DM-NERF, eosin, erythrosin, fluorescein, FAM, hydroxycoumarin, IRD40, IRD 700, IRD 800, 6-carboxy-4,5-dichloro-2,7-dimethoxyfluorescein (6-JOE), lissamine rhodamine B, Marina Blue, merocyanine, methoxycoumarin, naphthofluorescein, Oregon Green 488, Oregon Green 500, Oregon Green 514, oxonol dyes, Pacific Blue, phycoerythrin, PyMPO, pyrene, rhodamine B, rhodamine 6G, rhodamine green, rhodamine red, rhodol green, styryl dyes, 2,4,5,7-tetrabromosulfone-fluorescein, tetramethyl-rhodamine (TMR), carboxytetramethylrhodamine (TAMRA), Texas Red, Texas Red-X, 5(6)-carboxyfluorescein, 2,7-dichlorofluorescein, N,N-bis(2,4,6-trimethylphenyl)-3,4,9,10-perylenebis(dicarboximide), HPTS, ethyl eosin, DY-490XL MegaStokes, DY-485XL MegaStokes, Adirondack Green 520, ATTO 465, ATTO 488, ATTO 495, Y0Y0-1,5-FAM, BCECF, dichlorofluorescein, rhodamine 110, rhodamine 123, YO-PRO-I, SYTOX Green, Sodium Green, SYBR Green I, Alexa Fluor 500, FITC, Fluo-3, Fluo-4, fluoro-emerald, YoYo-I ssDNA, YoYo-I dsDNA, YoYo-I, SYTO RNASelect, Diversa Green-FP, Dragon Green, EvaGreen, Surf Green EX, Spectrum Green, Spectrum Red, NeuroTrace 500525, NBD-X, MitoTracker Green FM, LysoTracker Green DND-26, CBQCA, PA-GFP (post-activation), WEGFP (post-activation), FLASH-CCXXCC, Azami Green monomeric, Azami Green, green fluorescent protein (GFP), EGFP, Kaede Green, 7-benzylamino-4-nitrobenz-2-oxa-1,3-diazole, Bexl, doxorubicin, Lumio Green, and SuperGlo GFP.

8. The compound of claim 2 of formula: ##STR00145##

9. The compound of claim 2, wherein: R.sup.1 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.2 and R.sup.3 is hydrogen, and the other is OR.sup.9; R.sup.4 is WR.sup.4a; R.sup.5 is NHR.sup.8; R.sup.6 is CH.sub.3, CH.sub.2OR.sup.9, or CH.sub.2OR.sup.CX; R.sup.7 is OR.sup.9 or N(R.sup.8).sub.2; R.sup.11 is CH.sub.3, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.12 and R.sup.13 is hydrogen, and the other is OR.sup.9; R.sup.14 is NHR.sup.8; and one of R.sup.19a and R.sup.19b is hydrogen, and the other is OR.sup.9.

10. The compound of claim 3, wherein R.sup.11 is CH.sub.2OH.

11. The compound of claim 2, wherein R.sup.P is selected from the group consisting of fluorescein, naphthofluorescein, 4,5-dichloro-2,7-dimethoxy-fluorescein, 2,4,5,7-tetrabromosulfone-fluorescein, 2,7-dichlorofluorescein, 6-carboxy-4,5-dichloro-2,7-dimethoxyfluorescein, and 5(6)-carboxyfluorescein.

12. The compound of claim 11, wherein R.sup.P is fluorescein.

13. The compound of claim 3, wherein R.sup.11 is CH.sub.3.

14. The compound of claim 2, wherein R.sup.12 is hydrogen; and R.sup.13 is OH.

15. The compound of claim 2, wherein G is of Formula (a).

16. The compound of claim 2, wherein G is of Formula (b).

17. A compound of Formula (I): ##STR00146## or a salt thereof, wherein R.sup.1 is hydrogen, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.2 and R.sup.3 are independently hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8; R.sup.4 is hydrogen or WR.sup.4a; W is O or NH; R.sup.4a is hydrogen, a hydroxyl protecting group, optionally substituted aliphatic, C(O)R.sup.10, C(O)NHR.sup.8, C(NR.sup.8)NHR.sup.8, or C(O)OR.sup.9; R.sup.5 is hydrogen or NHR.sup.8; R.sup.6 is hydrogen, CH.sub.3, CH.sub.2OR.sup.9, or CH.sub.2OR.sup.CX; wherein R.sup.CX is a carbohydrate moiety; R.sup.7 is hydrogen, OR.sup.9, or N(R.sup.8).sub.2; each R.sup.8 is independently hydrogen, an amino protecting group, C(O)R.sup.10, optionally substituted aliphatic, optionally substituted aryl, optionally substituted heterocyclyl, or optionally substituted heteroaryl, or two R.sup.8 groups on the same nitrogen may be taken together to form an optionally substituted heterocyclyl; each R.sup.9 is independently hydrogen, a hydroxyl protecting group, C(O)R.sup.10, optionally substituted aliphatic, optionally substituted aryl, optionally substituted heterocyclyl, or optionally substituted heteroaryl; each R.sup.10 is independently optionally substituted aliphatic, optionally substituted heterocyclic, optionally substituted aryl, or optionally substituted heteroaryl; R.sup.a and R.sup.b are independently hydrogen or a hydroxyl protecting group; G is an optionally substituted C.sub.1-16 aliphatic group, wherein 0 to 10 methylene units are optionally replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene; wherein each instance of R.sup.x is independently hydrogen, optionally substituted aliphatic, optionally substituted heterocyclyl, optionally substituted aryl, optionally substituted heteroaryl; or G is a group of Formula (a), (b), or (c): ##STR00147## wherein a is 3, 4, or 5; ##STR00148## wherein X.sub.1, X.sub.2, X.sub.3, X.sub.4, X.sub.5, X.sub.6, and X.sub.7 are each independently hydrogen or halogen; d is an integer between 1 and 25, inclusive; and e is an integer of between 2 and 25, inclusive; provided the sum of d and e is greater than 16; or ##STR00149## wherein Y is O, S, NR.sup.Y, or an optionally substituted methylene group, wherein R.sup.Y is hydrogen, optionally substituted aliphatic, or an amino protecting group; each instance of R.sup.c is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.e, SR.sup.e, NHR.sup.e, or N(R.sup.e).sub.2, wherein each instance of R.sup.e is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.e groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; each instance of R.sup.d is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.f, SR.sup.f, NHR.sup.f, or N(R.sup.f).sub.2, wherein each instance of R.sup.f is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.f groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; R.sup.z is hydrogen, F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.g, SR.sup.g, NHR.sup.g, or N(R.sup.g).sub.2, wherein each instance of R.sup.g is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl or two R.sup.g groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; each instance of n is, independently, 0, 1, 2, 3, or 4; each instance of m is, independently, 0, 1, 2, 3, or 4; and x is 1, 2, 3, 4, 5, or 6; R.sup.YY is hydrogen or OR.sup.XX; R.sup.XX is hydrogen, a hydroxyl protecting group, or a group of formula: ##STR00150## wherein R.sup.11 is hydrogen, optionally substituted aliphatic, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.12 and R.sup.13 are independently hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8; R.sup.14 is hydrogen or NHR.sup.8; R.sup.15 is hydrogen, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.16 is hydrogen or OR.sup.9; R.sup.17 is hydrogen or OR.sup.9; R.sup.18 is hydrogen or OR.sup.9; R.sup.19a is hydrogen or OR.sup.9; R.sup.19b is hydrogen or OR.sup.9; wherein a hydrogen radical on the compound of Formula (I) is replaced with -L-R.sup.P; L is an optionally substituted aliphatic linker wherein one methylene unit is replaced by tetrazolyl or NHC(S)NH; and one or more additional methylene units are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, or SO.sub.2; wherein R.sup.y is hydrogen, C.sub.1-6 alkyl, or C(O)C.sub.1-6 alkyl; and R.sup.P is selected from the group consisting of ligands, radionuclides, fluorescent dyes, chemiluminescent agents, microparticles, enzymes, calorimetric labels, magnetic labels, and haptens.

Description

BRIEF DESCRIPTION OF THE DRAWINGS

(1) FIG. 1 shows titration of a probe compound of Formula (I) with the enzymes E. coli PBP1b, E. faecalis PBP2a, and S. aureus SgtB. Binding of the probe to the enzyme results in an increase in fluorescence polarization.

(2) FIG. 2 depicts a decrease in fluorescence polarization of the probe compound when moenomycin A is added. This result indicates a displacement of the probe by moenomycin and suggests competition of both compounds for the same binding site on the enzyme.

(3) FIG. 3 depicts a decrease in fluorescence polarization of the probe compound when nC.sub.20-moenomycin A is added and likewise indicates competitive displacement of the probe by nC.sub.20-moenomycin A.

(4) FIG. 4 depicts a decrease in fluorescence polarization of the probe compound when nC.sub.12-moenomycin A is added.

(5) FIG. 5 depicts a decrease in fluorescence polarization of the probe compound when ZE-farnesyl-moenomycin A is added.

(6) FIG. 6 depicts a decrease in fluorescence polarization of the probe compound when neryl-moenomycin A is added.

(7) FIG. 7 depicts a decrease in fluorescence polarization of the probe compound when a disaccharide moenomcyin analog 5 (also disaccharide S15) is added. The disaccharide moenomycin analog exhibited a drastically reduced bioactivity compared with moenomycin A (IC.sub.50 disaccharide E. coli PBP1b=1.5 M; IC.sub.50 moenomycin A E. coli PBP1b=12 nM) but was still able to displace the probe from the enzyme. This result suggests that compounds with low M binding affinity can be successfully identify by the assays described herein.

(8) FIG. 8 depicts partial displacement of the probe compound with tetramystryl cardiolipin. Cardiolipin possesses structural similarity to both moenomycin A and probe compounds of Formula I in the phosphoglycerate portion of the molecules. This result confirms the importance of the phosphoglycerate unit in the binding of moenomycin to the target enzymes and shows that the assays described herein can identify non-saccharide compounds that are potential glycosyltransferase inhibitors.

(9) FIG. 9 shows that Tween-20 detergent does not displace the probe compound. This results shows that the assays described herein are selective for compounds that can compete with a probe compound described herein for binding to the active site of the enzyme, and that detergents do not generate false positives.

(10) FIG. 10 shows that dodecyl--D-maltoside does not displace the probe compound. This result shows that the assays described herein are selective for compounds that can compete with a probe compound described herein for binding to the active site of the enzyme, and that detergents do not generate false positives.

(11) FIG. 11 shows treatment of the probe-PGT complex with 593K11 (75 nM S16, 10 mM TRIS pH=8, 100 mM NaCl, S. aureus TM SgtB: 1.5 M; E. coli PBP1b: 0.05 M; E. faecalis PBP2a: 0.5 M). K.sub.i (593K11 S. aureus SgtB)=2.6 M, K.sub.i (593K11 E. coli PBP1b)=94 M, K.sub.i (593K11 E. faecalis PBP2a)=0.90 M.

(12) FIG. 12 shows dose-response curve for inhibition of PG formation by E. coli PBP1b (50 nM) from lipid II (4 M). IC.sub.50 were determined as follows: Moenomycin: 12.0 nM (left); disaccharide S15: 1.54 M (middle); probe compound CMG12: 650 nM (right).

(13) FIG. 13 shows dose-response curve for inhibition of PG formation by S. aureus SgtB (50 nM) from lipid II (4 M). IC.sub.50 were determined as follows: Moenomycin: 6.0 nM (blue); disaccharide S15: 48 nM (black); probe compound CMG121: 14 nM (red).

(14) FIG. 14 shows dose-response curve for inhibition of PG formation by S. aureus SgtB (50 nM) from lipid II (4 M). IC.sub.50 for compound 593K11 were determined in independent experiments as 11.3 M (left) and 14.4 M (right).

(15) FIG. 15 shows dose-response curves for in vitro inhibition of PGTs (1.2 M S. aureus PBP2, 50 nM E. faecalis PBP2a, 50 nM E. coli PBP1b, 4 M lipid II). IC.sub.50 (593K11 S. aureus PBP2)=12.0 M; IC.sub.50 (593K11 E. faecalis PBP2a)=70 M; IC.sub.50 (593K11 E. coli PBP1b)=79 M.

DETAILED DESCRIPTION OF CERTAIN EMBODIMENTS

(16) The present invention provides methods and compositions for identifying inhibitors of glycosyltransferases, e.g., peptidoglycan glycosyltransferases. In one aspect, the present invention provides assays for glycosyltransferase inhibitors. In another aspect, the present invention provides moenomycin-based probe compounds for use in such assays. In another aspect, the present invention provides kits comprising one or more moenomycin-based probe compounds as described herein.

(17) Probe Compounds

(18) Moenomycin A is a natural product that inhibits peptidoglycan biosynthesis by binding to bacterial transglycosylases. Moenomycin A is a thousand times more potent than the antibiotic vancomycin, but poor pharmacokinetic properties related to the lipid side chain have prevented its use in humans. Removal of the natural lipid side chain completely abolishes biological activities. A comprehensive study of the effect of different side chains, optionally in combination with different sugar portions, on the anti-bacterial activity compared to natural moenomycin A, has been limited as most synthetic transformations employed in the removal of the natural lipid side chain and in the addition of other different side chains have also altered other structural features of the molecule. Recently, biosynthetic and semi-synthetic methodologies were disclosed which enabled SAR study of new moenomycins; e.g., see PCT Application Publication Nos. WO 2008/021367 and WO 2009/046314, incorporated herein by reference. In the '314 publication, the inventors explored groups of intermediate length and hydrophobicity, e.g., C15-farnesyl, in an effort to explore the optimal length for activity and bioavailability. The inventors have also found that groups with lengths greater than C.sub.15, chains substituted with halogen atoms, and chains comprising multiple aryl moieties, provide potent anti-bacterial compounds; see U.S. Provisional Patent Application entitled Moenomycin A Analogs, Methods of Synthesis, and Uses Thereof, filed on the same day as the present application and incorporated herein by reference. The inventors have also discovered new enzymatic methods for synthesizing moenomycin analogs; see U.S. Provisional Patent Application entitled Chemoenzymatic Methods for Synthesizing Moenomycin Analogs, filed on the same day as the present application and incorporated herein by reference. The present invention provides probe compounds based on moenomycin for use in screening compounds that bind to bacterial glycosyltransferases.

(19) In certain embodiments, the present invention provides a moenomcyin analog labeled with a detectable moiety. Such compounds are described herein as probe compounds. In certain embodiments, the detectable moiety is fluorescent. The detectable moiety can be attached to the moenomycin analog, optionally through a linker, anywhere on the compound (e.g., on one of the saccharides, on the phosphoglycerate linker, or on the lipid tail). The probe compound may be moenomycin A labeled with a detectable moiety, or it may be an analog of moenomycin.

(20) In certain embodiments, a probe compound of the present invention is a compound of Formula (I):

(21) ##STR00011##
or a salt thereof,
wherein

(22) R.sup.1 is hydrogen, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9;

(23) R.sup.2 and R.sup.3 are independently hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8;

(24) R.sup.4 is hydrogen or WR.sup.4a;

(25) W is O or NH;

(26) R.sup.4a is hydrogen, a hydroxyl protecting group, optionally substituted aliphatic, C(O)R.sup.10, C(O)NHR.sup.8, C(NR.sup.8)NHR.sup.8, or C(O)OR.sup.9;

(27) R.sup.5 is hydrogen or NHR.sup.8;

(28) R.sup.6 is hydrogen, CH.sub.3, CH.sub.2OR.sup.9, or CH.sub.2OR.sup.CX; wherein R.sup.CX is a carbohydrate moiety;

(29) R.sup.7 is hydrogen, OR.sup.9, or N(R.sup.8).sub.2;

(30) each R.sup.8 is independently hydrogen, an amino protecting group, C(O)R.sup.10, optionally substituted aliphatic, optionally substituted aryl, optionally substituted heterocyclyl, or optionally substituted heteroaryl, or two R.sup.8 groups on the same nitrogen may be taken together to form optionally substituted heterocyclyl;

(31) each R.sup.9 is independently hydrogen, a hydroxyl protecting group, C(O)R.sup.10, optionally substituted aliphatic, optionally substituted aryl, optionally substituted heterocyclyl, or optionally substituted heteroaryl;

(32) each R.sup.10 is independently optionally substituted aliphatic, optionally substituted heterocyclic, optionally substituted aryl, or optionally substituted heteroaryl;

(33) R.sup.a and R.sup.b are independently hydrogen or a hydroxyl protecting group;

(34) G is an optionally substituted C.sub.1-30 aliphatic group, wherein 0 to 10 methylene units are optionally replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene; wherein each instance of R.sup.x is independently hydrogen, optionally substituted aliphatic, optionally substituted heterocyclyl, optionally substituted aryl, optionally substituted heteroaryl; or

(35) G is a group of Formula (a), (b), or (c):

(36) ##STR00012##

(37) wherein a is 3, 4, or 5;

(38) ##STR00013##
wherein

(39) X.sub.1, X.sub.2, X.sub.3, X.sub.4, X.sub.5, X.sub.6, and X.sub.7 are each independently hydrogen or halogen;

(40) d is an integer between 1 and 25, inclusive; and

(41) e is an integer of between 2 and 25, inclusive;

(42) provided the sum of d and e is greater than 16; or

(43) ##STR00014##
wherein

(44) Y is O, S, NR.sup.Y, or an optionally substituted methylene group, wherein R.sup.Y is hydrogen, optionally substituted aliphatic, or an amino protecting group;

(45) each instance of R.sup.c is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.e, SR.sup.e, NHR.sup.e, or N(R.sup.e).sub.2, wherein each instance of R.sup.e is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.e groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring;

(46) each instance of R.sup.d is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.f, SR.sup.f, NHR.sup.f, or N(R.sup.f).sub.2, wherein each instance of R.sup.f is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.f groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring;

(47) R.sup.z is hydrogen, F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.g, SR.sup.g, NHR.sup.g, or N(R.sup.g).sub.2, wherein each instance of R.sup.g is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl or two R.sup.g groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring;

(48) each instance of n is, independently, 0, 1, 2, 3, or 4;

(49) each instance of m is, independently, 0, 1, 2, 3, or 4; and

(50) x is 1, 2, 3, 4, 5, or 6;

(51) R.sup.YY is hydrogen or OR.sup.XX;

(52) R.sup.XX is hydrogen, a hydroxyl protecting group, or a group of formula:

(53) ##STR00015##
wherein

(54) R.sup.11 is hydrogen, optionally substituted aliphatic, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9;

(55) R.sup.12 and R.sup.13 are independently hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8;

(56) R.sup.14 is hydrogen or NHR.sup.8;

(57) R.sup.15 is hydrogen, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9;

(58) R.sup.16 is hydrogen or OR.sup.9;

(59) R.sup.17 is hydrogen or OR.sup.9;

(60) R.sup.18 is hydrogen or OR.sup.9;

(61) R.sup.19a is hydrogen or OR.sup.9;

(62) R.sup.19b is hydrogen or OR.sup.9;

(63) wherein a hydrogen radical on the compound of Formula (I) is replaced with -L-R.sup.P;

(64) L is a covalent bond, NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, optionally substituted cycloalkylene, optionally substituted heterocyclylene, optionally substituted arylene, optionally substituted heteroarylene, or an optionally substituted aliphatic linker, wherein one or more methylene units of the aliphatic linker are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene; wherein R.sup.Y is hydrogen, C.sub.1-6 alkyl, or C(O)C.sub.1-6 alkyl; and

(65) R.sup.P is a detectable moiety.

(66) In some embodiments, for Formula (I), R.sup.1 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.2 and R.sup.3 is hydrogen, and the other is OR.sup.9; R.sup.4 is WR.sup.4a; R.sup.5 is NHR.sup.8; R.sup.6 is CH.sub.3, CH.sub.2OR.sup.9, or CH.sub.2OR.sup.CX; R.sup.7 is OR.sup.9 or N(R.sup.8).sub.2; R.sup.11 is CH.sub.3, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.12 and R.sup.13 is hydrogen, and the other is OR.sup.9; R.sup.14 is NHR.sup.8; R.sup.15 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.16 is OR.sup.9; R.sup.17 is OR.sup.9; R.sup.18 is OR.sup.9; and one of R.sup.19a and R.sup.19b is hydrogen, and the other is OR.sup.9.

(67) In some embodiments, when R.sup.YY is OH, a probe compound according to the present invention is of Formula (Ia):

(68) ##STR00016##
or a salt thereof, wherein R.sup.1, R.sup.2, R.sup.3, R.sup.4, R.sup.5, R.sup.6, R.sup.7, R.sup.a, R.sup.b, G, L, and R.sup.P are as described herein. In some embodiments, for Formula (Ia), R.sup.1 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.2 and R.sup.3 is hydrogen, and the other is OR.sup.9; R.sup.4 is WR.sup.4a; R.sup.5 is NHR.sup.8; R.sup.6 is CH.sub.3, CH.sub.2OR.sup.9, or CH.sub.2OR.sup.CX; and R.sup.7 is OR.sup.9 or N(R.sup.8).sub.2.

(69) In some embodiments, when R.sup.XX is

(70) ##STR00017##
a probe compound according to the present invention is of Formula (Ib):

(71) ##STR00018##
or a salt thereof, wherein R.sup.1, R.sup.2, R.sup.3, R.sup.4, R.sup.5, R.sup.6, R.sup.7, R.sup.11, R.sup.12, R.sup.13, R.sup.14, R.sup.19a, R.sup.19b, R.sup.a, R.sup.b, G, L, and R.sup.P are as described herein. In some embodiments, for Formula (Ib), R.sup.1 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.2 and R.sup.3 is hydrogen, and the other is OR.sup.9; R.sup.4 is WR.sup.4a; R.sup.5 is NHR.sup.8; R.sup.6 is CH.sub.3, CH.sub.2OR.sup.9, or CH.sub.2OR.sup.CX; R.sup.7 is OR.sup.9 or N(R.sup.8).sub.2; R.sup.11 is CH.sub.3, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.12 and R.sup.13 is hydrogen, and the other is OR.sup.9; R.sup.14 is NHR.sup.8; and one of R.sup.19a and R.sup.19b is hydrogen, and the other is OR.sup.9.

(72) In some embodiments, when R.sup.XX is

(73) ##STR00019##
a probe compound according to the present invention is of Formula (Ic):

(74) ##STR00020##
or a salt thereof, wherein R.sup.1, R.sup.2, R.sup.3, R.sup.4, R.sup.5, R.sup.6, R.sup.7, R.sup.11, R.sup.12, R.sup.13, R.sup.14, R.sup.15, R.sup.16, R.sup.17, R.sup.18, R.sup.a, R.sup.b, G, L, and R.sup.P are as described herein. In some embodiments, for Formula (Ic), R.sup.1 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.2 and R.sup.3 is hydrogen, and the other is OR.sup.9; R.sup.4 is WR.sup.4a; R.sup.5 is NHR.sup.8; R.sup.6 is CH.sub.3, CH.sub.2OR.sup.9, or CH.sub.2OR.sup.CX; R.sup.7 is OR.sup.9 or N(R.sup.8).sub.2; R.sup.1 is CH.sub.3, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.12 and R.sup.13 is hydrogen, and the other is OR.sup.9; R.sup.14 is NHR.sup.8; R.sup.15 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.16 is OR.sup.9; R.sup.17 is OR.sup.9; and R.sup.18 is OR.sup.9.

(75) In some embodiments, when R.sup.6 is CH.sub.2OR.sup.CX; wherein R.sup.CX is of formula:

(76) ##STR00021##
a probe compound according to the present invention is of Formula (Id):

(77) ##STR00022##
or a salt thereof, wherein R.sup.1, R.sup.2, R.sup.3, R.sup.4, R.sup.5, R.sup.7, R.sup.20, R.sup.21, R.sup.22, R.sup.23, R.sup.a, R.sup.b, G, L, and R.sup.P are as described herein. In some embodiments, for Formula (Id), R.sup.1 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.2 and R.sup.3 is hydrogen, and the other is OR.sup.9; R.sup.4 is WR.sup.4a; R.sup.5 is NHR.sup.8; R.sup.7 is OR.sup.9 or N(R.sup.8).sub.2; R.sup.1 is CH.sub.3, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.20 is OR.sup.9; R.sup.21 is OR.sup.9; R.sup.22 is OR.sup.9; and R.sup.23 is OR.sup.9

(78) In some embodiments, a probe compound according to the present invention is of Formula (Ie):

(79) ##STR00023##
or a salt thereof, wherein R.sup.1, R.sup.2, R.sup.3, R.sup.4, R.sup.5, R.sup.7, R.sup.11, R.sup.12, R.sup.3, R.sup.14, R.sup.19a, R.sup.19b, R.sup.20, R.sup.21, R.sup.22, R.sup.23, R.sup.a, R.sup.b, G, L, and R.sup.P are as described herein. In some embodiments, for Formula (Ie), R.sup.1 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.2 and R.sup.3 is hydrogen, and the other is OR.sup.9; R.sup.4 is WR.sup.4a; R.sup.5 is NHR.sup.8; R.sup.7 is OR.sup.9 or N(R.sup.8).sub.2; R.sup.11 is CH.sub.3, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.12 and R.sup.13 is hydrogen, and the other is OR.sup.9; R.sup.14 is NHR.sup.8; one of R.sup.19a and R.sup.19b is hydrogen, and the other is OR.sup.9; R.sup.20 is OR.sup.9; R.sup.21 is OR.sup.9; R.sup.22 is OR.sup.9; and R.sup.23 is OR.sup.9.

(80) In some embodiments, a probe compound according to the present invention is of Formula (If):

(81) ##STR00024##
or a salt thereof, wherein R.sup.1, R.sup.2, R.sup.3, R.sup.4, R.sup.5, R.sup.7, R.sup.11, R.sup.12, R.sup.3, R.sup.14, R.sup.15, R.sup.16, R.sup.17, R.sup.18, R.sup.20, R.sup.21, R.sup.22, R.sup.23, R.sup.a, R.sup.b, G, L, and R.sup.P are as described herein. In some embodiments, for Formula (If), R.sup.1 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.2 and R.sup.3 is hydrogen, and the other is OR.sup.9; R.sup.4 is WR.sup.4a; R.sup.5 is NHR.sup.8; R.sup.7 is OR.sup.9 or N(R.sup.8).sub.2; R.sup.11 is CH.sub.3, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; one of R.sup.12 and R.sup.13 is hydrogen, and the other is OR.sup.9; R.sup.14 is NHR.sup.8; R.sup.15 is C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9; R.sup.16 is OR.sup.9; R.sup.17 is OR.sup.9; R.sup.18 is OR.sup.9; R.sup.20 is OR.sup.9; R.sup.21 is OR.sup.9; R.sup.22 is OR.sup.9; and R.sup.23 is OR.sup.9

(82) In some embodiments, a compound of Formula (I) is not of Formula (If).

(83) In some embodiments, a compound of Formula (I) is not of formula:

(84) ##STR00025##

(85) In some embodiments, a compound of Formula (I) is not

(86) ##STR00026##

(87) As defined generally above, R.sup.1 is hydrogen, C(O)NHR.sup.8, CH.sub.2R.sup.9, or C(O)OR.sup.9; wherein R.sup.8 is hydrogen, an amino protecting group, C(O)R.sup.10, optionally substituted aliphatic, optionally substituted aryl, optionally substituted heterocyclyl, or optionally substituted heteroaryl, or two R.sup.8 groups on the same nitrogen may be taken together to form an optionally substituted heterocyclyl; and R.sup.9 is hydrogen, a hydroxyl protecting group, C(O)R.sup.10, optionally substituted aliphatic, optionally substituted aryl, optionally substituted heterocyclyl, or optionally substituted heteroaryl. In some embodiments, R.sup.1 is C(O)NHR.sup.8. In certain embodiments, R.sup.1 is C(O)NH.sub.2. In certain embodiments, R.sup.1 is C(O)NH(alkyl). In some embodiments, R.sup.1 is CH.sub.2OR.sup.9. In certain embodiments, R.sup.1 is CH.sub.2OH. In certain embodiments, R.sup.1 is CH.sub.2O(protecting group) or CH.sub.2O(alkyl). In some embodiments, R.sup.1 is C(O)OR.sup.9. In certain embodiments, R.sup.1 is CO.sub.2H.

(88) As defined generally above, R.sup.2 is hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8. In some embodiments, R.sup.2 is hydrogen. In some embodiments, R.sup.2 is optionally substituted aliphatic. In certain embodiments, R.sup.2 is C.sub.1-6 alkyl. In certain embodiments, R.sup.2 is methyl. In some embodiments, R.sup.2 is OR.sup.9. In certain embodiments, R.sup.2 is OH. In certain embodiments, R.sup.2 is O(alkyl) or O(protecting group). In some embodiments, R.sup.2 is N(R.sup.8).sub.2. In certain embodiments, R.sup.2 is NH.sub.2. In certain embodiments, R.sup.2 is NH(alkyl) or NH(protecting group). In some embodiments, R.sup.2 is C(O)NHR.sup.8. In certain embodiments, R.sup.2 is C(O)NH.sub.2. In certain embodiments, R.sup.2 is C(O)NH(alkyl).

(89) As defined generally above, R.sup.3 is hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8. In some embodiments, R.sup.3 is hydrogen. In some embodiments, R.sup.3 is optionally substituted aliphatic. In certain embodiments, R.sup.3 is C.sub.1-6 alkyl. In certain embodiments, R.sup.3 is methyl. In some embodiments, R.sup.3 is OR.sup.9. In certain embodiments, R.sup.3 is OH. In certain embodiments, R.sup.3 is O(alkyl) or O(protecting group). In some embodiments, R.sup.3 is N(R.sup.8).sub.2. In certain embodiments, R.sup.3 is NH.sub.2. In certain embodiments, R.sup.3 is NH(alkyl) or NH(protecting group). In some embodiments, R.sup.3 is C(O)NHR.sup.8. In certain embodiments, R.sup.3 is C(O)NH.sub.2. In certain embodiments, R.sup.3 is C(O)NH(alkyl).

(90) In some embodiments, R.sup.2 is hydrogen and R.sup.3 is optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8. In some embodiments, R.sup.3 is hydrogen and R.sup.2 is optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8. In certain embodiments, R.sup.2 is hydrogen and R.sup.3 is OH. In other embodiments, R.sup.3 is hydrogen and R.sup.2 is OH.

(91) As defined generally above, R.sup.4 is hydrogen or WR.sup.4a, wherein W is O or NH, and R.sup.4a is hydrogen, a hydroxyl protecting group, optionally substituted aliphatic, C(O)R.sup.10, C(O)NHR.sup.8, C(NR.sup.8)NHR.sup.8, or C(O)OR.sup.9. In some embodiments, R.sup.4 is WR.sup.4a. In certain embodiments, W is O. In certain embodiments, W is NH. In some embodiments, R.sup.4a is hydrogen. In some embodiments, R.sup.4a is a hydroxyl protecting group. In some embodiments, R.sup.4a is C(O)R.sup.10; wherein R.sup.10 is optionally substituted aliphatic, optionally substituted heterocyclic, optionally substituted aryl, or optionally substituted heteroaryl. In certain embodiments, R.sup.4a is C(O)R.sup.10; wherein R.sup.10 is optionally substituted alkyl. In certain embodiments, R.sup.4a is C(O)C.sub.1-6alkyl. In certain embodiments, R.sup.4a is acetyl. In some embodiments, R.sup.4a is C(O)OR.sup.9. In some embodiments, R.sup.4a is C(O)OR.sup.9; wherein R.sup.9 is aryl. In certain embodiments, R.sup.4a is C(O)OPh. In some embodiments, R.sup.4a is C(O)NHR.sup.8. In certain embodiments, R.sup.4a is C(O)NH.sub.2. In some embodiments, R.sup.4a is C(NR.sup.8)NHR.sup.8. In certain embodiments, R.sup.4a is C(NH)NH.sub.2. In certain embodiments, R.sup.4 is OH, OC(O)NH.sub.2, NHC(O)NH.sub.2, or NHC(NH)NH.sub.2.

(92) In certain embodiments, R.sup.1 is C(O)NH.sub.2, R.sup.2 is methyl, R.sup.3 is OH, and R.sup.4 is OC(O)NH.sub.2. In certain embodiments, R.sup.1 is C(O)NH.sub.2, R.sup.2 is hydrogen, R.sup.3 is OH, and R.sup.4 is OC(O)NH.sub.2. In certain embodiments, R.sup.1 is C(O)NH.sub.2, R.sup.2 is OH, R.sup.3 is hydrogen, and R.sup.4 is OH.

(93) As defined generally above, R.sup.5 is hydrogen or NHR.sup.8. In some embodiments, R.sup.5 is NH.sub.2. In some embodiments, R.sup.5 is NH(protecting group). In some embodiments, R.sup.5 is NH(optionally substituted aliphatic). In certain embodiments, R.sup.5 is NH(optionally substituted alkyl). In certain embodiments, R.sup.5 is NH(C.sub.1-6 alkyl). In some embodiments, R.sup.5 is NHC(O)R.sup.10. In certain embodiments, R.sup.5 is NHC(O)R.sup.10; wherein R.sup.10 is optionally substituted alkyl. In certain embodiments, R.sup.5 is NHC(O)C.sub.1-6alkyl. In certain embodiments, R.sup.5 is NHC(O)CH.sub.3.

(94) As defined generally above, R.sup.6 is hydrogen, CH.sub.3, CH.sub.2OR.sup.9, or CH.sub.2OR.sup.CX; wherein R.sup.CX is a carbohydrate moiety. In some embodiments, R.sup.6 is CH.sub.3. In some embodiments, R.sup.6 is CH.sub.2OR.sup.9. In certain embodiments, R.sup.6 is CH.sub.2OH. In certain embodiments, R.sup.6 is CH.sub.2O(protecting group). In certain embodiments, R.sup.6 is CH.sub.2OAc. In some embodiments, R.sup.6 is CH.sub.2OR.sup.CX. In certain embodiments, R.sup.6 is OR.sup.CX; wherein R.sup.CX is of formula:

(95) ##STR00027##
wherein R.sup.20, R.sup.21, R.sup.22, and R.sup.23 are independently hydrogen or OR.sup.9.

(96) As defined generally above, R.sup.7 is hydrogen, OR.sup.9 or N(R.sup.8).sub.2. In some embodiments, R.sup.7 is OR.sup.9. In certain embodiments, R.sup.7 is OH. In certain embodiments, R.sup.7 is O(protecting group) or O(alkyl). In some embodiments, R.sup.7 is N(R.sup.8).sub.2. In certain embodiments, R.sup.7 is NH.sub.2. In certain embodiments, R.sup.7 is NH(protecting group), NH(alkyl), or N(alkyl).sub.2.

(97) In certain embodiments, R.sup.5 is NHC(O)CH.sub.3, R.sup.6 is OCH.sub.2R.sup.CX, wherein R.sup.CX is

(98) ##STR00028##
and R.sup.7 is OH. In certain embodiments, R.sup.5 is NHC(O)CH.sub.3, R.sup.6 is CH.sub.2OH, and R.sup.7 is OH.

(99) As defined generally above, R.sup.YY is hydrogen or OR.sup.XX, wherein R.sup.XX is hydrogen, a hydroxyl protecting group, or a group of formula:

(100) ##STR00029##
wherein

(101) R.sup.11 is hydrogen, optionally substituted aliphatic, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9;

(102) R.sup.12 and R.sup.13 are independently hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8;

(103) R.sup.14 is hydrogen or NHR.sup.8;

(104) R.sup.15 is hydrogen, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9;

(105) R.sup.16 is hydrogen or OR.sup.9;

(106) R.sup.17 is hydrogen or OR.sup.9;

(107) R.sup.18 is hydrogen or OR.sup.9;

(108) R.sup.19a is hydrogen or OR.sup.9; and

(109) R.sup.19b is hydrogen or OR.sup.9;

(110) wherein R.sup.8 and R.sup.9 are as described herein.

(111) In some embodiments, R.sup.YY is OR.sup.XX.

(112) In some embodiments, R.sup.x is hydrogen. In some embodiments, R.sup.XX is

(113) ##STR00030##

(114) In some embodiments, R.sup.XX is

(115) ##STR00031##

(116) As defined generally above, R.sup.11 is hydrogen, optionally substituted aliphatic, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9. In some embodiments, R.sup.1 is optionally substituted aliphatic. In certain embodiments, R.sup.11 is optionally substituted alkyl. In certain embodiments, R.sup.11 is C.sub.1-6 alkyl. In certain embodiments, R.sup.11 is methyl. In some embodiments, R.sup.11 is C(O)NHR.sup.8. In certain embodiments, R.sup.11 is C(O)NH.sub.2. In certain embodiments, R.sup.11 is C(O)NH(alkyl). In some embodiments, R.sup.11 is CH.sub.2OR.sup.9. In certain embodiments, R.sup.1 is CH.sub.2OH. In certain embodiments, R.sup.1 is CH.sub.2O(protecting group) or CH.sub.2O(alkyl). In some embodiments, R.sup.1 is C(O)OR.sup.9. In certain embodiments, R.sup.1 is CO.sub.2H.

(117) As defined generally above, R.sup.12 is hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8. In some embodiments, R.sup.12 is hydrogen. In some embodiments, R.sup.12 is optionally substituted aliphatic. In certain embodiments, R.sup.12 is C.sub.1-6 alkyl. In certain embodiments, R.sup.12 is methyl. In some embodiments, R.sup.12 is OR.sup.9. In certain embodiments, R.sup.12 is OH. In certain embodiments, R.sup.12 is O(alkyl) or O(protecting group). In some embodiments, R.sup.12 is N(R.sup.8).sub.2. In certain embodiments, R.sup.12 is NH.sub.2. In certain embodiments, R.sup.12 is NH(alkyl) or NH(protecting group). In some embodiments, R.sup.12 is C(O)NHR.sup.8. In certain embodiments, R.sup.12 is C(O)NH.sub.2. In certain embodiments, R.sup.12 is C(O)NH(alkyl).

(118) As defined generally above, R.sup.13 is hydrogen, optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8. In some embodiments, R.sup.13 is hydrogen. In some embodiments, R.sup.13 is optionally substituted aliphatic. In certain embodiments, R.sup.13 is C.sub.1-6 alkyl. In certain embodiments, R.sup.13 is methyl. In some embodiments, R.sup.13 is OR.sup.9. In certain embodiments, R.sup.13 is OH. In certain embodiments, R.sup.13 is O(alkyl) or O(protecting group). In some embodiments, R.sup.13 is N(R.sup.8).sub.2. In certain embodiments, R.sup.13 is NH.sub.2. In certain embodiments, R.sup.13 is NH(alkyl) or NH(protecting group). In some embodiments, R.sup.13 is C(O)NHR.sup.8. In certain embodiments, R.sup.13 is C(O)NH.sub.2. In certain embodiments, R.sup.13 is C(O)NH(alkyl).

(119) In some embodiments, R.sup.12 is hydrogen and R.sup.13 is optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8. In some embodiments, R.sup.12 is hydrogen and R.sup.13 is optionally substituted aliphatic, OR.sup.9, N(R.sup.8).sub.2, or C(O)NHR.sup.8. In certain embodiments, R.sup.12 is hydrogen and R.sup.3 is OH. In other embodiments, R.sup.3 is hydrogen and R.sup.12 is OH.

(120) As defined generally above, R.sup.14 is hydrogen or NHR.sup.8. In some embodiments, R.sup.14 is NH.sub.2. In some embodiments, R.sup.14 is NH(amino protecting group). In some embodiments, R.sup.14 is NH(optionally substituted aliphatic). In certain embodiments, R.sup.14 is NH(optionally substituted alkyl). In certain embodiments, R.sup.14 is NH(C.sub.1-6 alkyl). In some embodiments, R.sup.14 is NHC(O)R.sup.10. In certain embodiments, R.sup.14 is NHC(O)R.sup.10; wherein R.sup.10 is optionally substituted alkyl. In certain embodiments, R.sup.14 is NHC(O)C.sub.1-6alkyl. In certain embodiments, R.sup.14 is NHC(O)CH.sub.3.

(121) As defined generally above, R.sup.5 is hydrogen, C(O)NHR.sup.8, CH.sub.2OR.sup.9, or C(O)OR.sup.9. In some embodiments, R.sup.15 is C(O)NHR.sup.8. In certain embodiments, R.sup.15 is C(O)NH.sub.2. In certain embodiments, R.sup.15 is C(O)NH(alkyl). In some embodiments, R.sup.15 is CH.sub.2OR.sup.9. In certain embodiments, R.sup.5 is CH.sub.2OH. In certain embodiments, R.sup.5 is CH.sub.2O(protecting group) or CH.sub.2O(alkyl). In some embodiments, R.sup.15 is C(O)OR.sup.9. In certain embodiments, R.sup.15 is CO.sub.2H. In certain embodiments, R.sup.15 is C(O)NHR.sup.8, wherein R.sup.8 is

(122) ##STR00032##

(123) As defined generally above, R.sup.16 is hydrogen or OR.sup.9. In certain embodiments, R.sup.16 is OR.sup.9. In some embodiments, R.sup.16 is OH. In some embodiments, R.sup.16 is a O(protecting group). In some embodiments, R.sup.16 is O(optionally substituted aliphatic). In certain embodiments, R.sup.16 is O(C.sub.1-6 alkyl). In certain embodiments, R.sup.16 is OCH.sub.3.

(124) As defined generally above, R.sup.7 is hydrogen or OR.sup.9. In certain embodiments, R.sup.17 is OR.sup.9. In some embodiments, R.sup.7 is OH. In some embodiments, R.sup.7 is a O(protecting group). In some embodiments, R.sup.17 is O(optionally substituted aliphatic). In certain embodiments, R.sup.7 is O(C.sub.1-6 alkyl). In certain embodiments, R.sup.7 is OCH.sub.3.

(125) As defined generally above, R.sup.8 is hydrogen or OR.sup.9. In certain embodiments, R.sup.18 is OR.sup.9. In some embodiments, R.sup.18 is OH. In some embodiments, R.sup.18 is a O(protecting group). In some embodiments, R.sup.18 is O(optionally substituted aliphatic). In certain embodiments, R.sup.18 is O(C.sub.1-6 alkyl). In certain embodiments, R.sup.18 is OCH.sub.3.

(126) As defined generally above, R.sup.19a is hydrogen or OR.sup.9. In some embodiments, R.sup.19a is hydrogen. In some embodiments, R.sup.19a is OR.sup.9. In certain embodiments, R.sup.19a is OH. In certain embodiments, R.sup.19a is O(alkyl) or O(protecting group).

(127) As defined generally above, R.sup.19b is hydrogen or OR.sup.9. In some embodiments, R.sup.19b is hydrogen. In some embodiments, R.sup.19b is OR.sup.9. In certain embodiments, R.sup.19b is OH. In certain embodiments, R.sup.19b is O(alkyl) or O(protecting group).

(128) In certain embodiments, R.sup.19a is hydrogen, and R.sup.19b is OH. In other embodiments, R.sup.19b is hydrogen, and R.sup.19a is OH.

(129) As defined generally above, R.sup.20 is hydrogen or OR.sup.9. In certain embodiments, R.sup.20 is OR.sup.9. In some embodiments, R.sup.20 is OH. In some embodiments, R.sup.20 is a O(protecting group). In some embodiments, R.sup.20 is O(optionally substituted aliphatic). In certain embodiments, R.sup.20 is O(C.sub.1-6 alkyl). In certain embodiments, R.sup.20 is OCH.sub.3.

(130) As defined generally above, R.sup.21 is hydrogen or OR.sup.9. In certain embodiments, R.sup.21 is OR.sup.9. In some embodiments, R.sup.21 is OH. In some embodiments, R.sup.21 is a O(protecting group). In some embodiments, R.sup.21 is O(optionally substituted aliphatic). In certain embodiments, R.sup.21 is O(C.sub.1-6 alkyl). In certain embodiments, R.sup.21 is OCH.sub.3.

(131) As defined generally above, R.sup.22 is hydrogen or OR.sup.9. In certain embodiments, R.sup.22 is OR.sup.9. In some embodiments, R.sup.22 is OH. In some embodiments, R.sup.22 is a O(protecting group). In some embodiments, R.sup.22 is O(optionally substituted aliphatic). In certain embodiments, R.sup.22 is O(C.sub.1-6 alkyl). In certain embodiments, R.sup.22 is OCH.sub.3.

(132) As defined generally above, R.sup.23 is hydrogen or OR.sup.9. In certain embodiments, R.sup.23 is OR.sup.9. In some embodiments, R.sup.23 is OH. In some embodiments, R.sup.23 is a O(protecting group). In some embodiments, R.sup.23 is O(optionally substituted aliphatic). In certain embodiments, R.sup.23 is O(C.sub.1-6 alkyl). In certain embodiments, R.sup.23 is OCH.sub.3.

(133) In certain embodiments, R.sup.1 is CH.sub.2OH, R.sup.12 is OH, R.sup.13 is hydrogen, R.sup.19a is OH, and R.sup.19b is hydrogen.

(134) In certain embodiments, R.sup.20, R.sup.21, R.sup.22, and R.sup.23 are all OH.

(135) As defined generally above, R.sup.a is hydrogen or a hydroxyl protecting group. In certain embodiments, R.sup.a is hydrogen. In certain embodiments, R.sup.a is a hydroxyl protecting group.

(136) As defined generally above, R.sup.b is hydrogen or a hydroxyl protecting group. In certain embodiments, R.sup.b is hydrogen. In certain embodiments, R.sup.b is a hydroxyl protecting group.

(137) As defined generally above, G is an optionally substituted C.sub.1-30 aliphatic group, wherein 0 to 10 methylene units are optionally replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene; wherein each instance of R.sup.x is independently hydrogen, optionally substituted aliphatic, optionally substituted heterocyclyl, optionally substituted aryl, optionally substituted heteroaryl; or

(138) G is a group of Formula (a), (b), or (c):

(139) ##STR00033##
wherein a, X.sub.1, X.sub.2, X.sub.3, X.sub.4, X.sub.5, X.sub.6, X.sub.7, d, e, Y, R.sup.c, R.sup.d, R.sup.z, x, m, and n are as described herein.

(140) In certain embodiments, G is an optionally substituted C.sub.1-30 aliphatic group, wherein 0 to 10 methylene units are optionally replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene. In certain embodiments, G is an optionally substituted C.sub.1-10, C.sub.5-20, C.sub.10-20, C.sub.12-18, or C.sub.15-20 aliphatic group, wherein 0, 1, 2, 3, 4, 5, 6, 7, 8, 9, or 10 methylene units are optionally replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene. In some embodiments, R.sup.x is hydrogen, optionally substituted aliphatic, optionally substituted heterocyclyl, optionally substituted aryl, optionally substituted heteroaryl. In some embodiments, R.sup.x is hydrogen. In some embodiments, R.sup.x is optionally substituted aliphatic. In some embodiments, R.sup.x is C.sub.1-6 alkyl. In some embodiments, R.sup.x is methyl.

(141) Exemplary aliphatic moieties include, but are not limited to, methyl (C.sub.1), ethyl (C.sub.2), propyl (C.sub.3), butyl (C.sub.4), pentyl (C.sub.5), hexyl (C.sub.6), heptyl (C.sub.7), octyl (C.sub.8), nonyl (C.sub.9), decyl (C.sub.10), undecyl (C.sub.11), dodecyl (C.sub.12), tridecyl (C.sub.13), tetradecyl (C.sub.14), pentadecyl (C.sub.15), hexadecyl (C.sub.16), heptadecyl (C.sub.17), octadecyl (C.sub.18), nonadecyl (C.sub.19), eicosyl (C.sub.20), and so on, up to (C.sub.30). In certain embodiments, the aliphatic moiety is a straight chain alkyl moiety, including, but not limited to, methyl (C.sub.1), ethyl (C.sub.2), n-propyl (C.sub.3), n-butyl (C.sub.4), n-pentyl (C.sub.5), n-hexyl (C.sub.6), n-heptyl (C.sub.7), n-octyl (C.sub.8), n-nonyl (C.sub.9), n-decyl (C.sub.10), n-undecyl (C.sub.11), n-dodecyl (C.sub.12), n-tridecyl (C.sub.13), n-tetradecyl (C.sub.14), n-pentadecyl (C.sub.15), n-hexadecyl (C.sub.16), n-heptadecyl (C.sub.17), n-octadecyl (C.sub.18), n-nonadecyl (C.sub.19), n-eicosyl (C.sub.20), and so on, up to (C.sub.30).

(142) Exemplary substituents include are described throughout, and include optionally substituted aliphatic (e.g., alkyl, alkenyl, alkynyl), optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl, halogen, OR.sup.v, N(R.sup.v).sub.2, SR.sup.v, NO.sub.2, NC, CN, N.sub.3, N(R.sup.v)NR.sup.v, CHO, C(O)R.sup.v, C(S)R.sup.v, C(NR)R.sup.v, C(O)OR.sup.q, C(NR.sup.q)OR.sup.q, C(NR.sup.v)N(R.sup.v).sub.2, C(O)N(R.sup.v).sub.2, C(S)OR.sup.v, C(O)SR.sup.v, C(S)SR.sup.v, P(O)(OR.sup.v).sub.2, P(O).sub.2(OR.sup.v), S(O)(OR.sup.v), S(O).sub.2(OR.sup.v), P(O)N(R.sup.v).sub.2, P(O).sub.2N(R.sup.v).sub.2, S(O)N(R.sup.v).sub.2, or S(O).sub.2N(R.sup.v).sub.2; wherein each instance of R.sup.v is H, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl or a protecting group. In certain embodiments, the G hydrocarbon chain is substituted with one or more optionally substituted aliphatic moieties, optionally substituted heteroaliphatic moieties, optionally substituted aryl moieties, optionally substituted heteroaryl moieties, halogen moieties, OR.sup.v moieties, N(R.sup.v).sub.2 moieties, or SR.sup.v moieties. In certain embodiments, the G hydrocarbon chain is substituted with one or more optionally substituted aliphatic moieties or OR.sup.v moieties. In certain embodiments, the G hydrocarbon chain is substituted with one or more optionally substituted aliphatic moieties. In certain embodiments, the G hydrocarbon chain is substituted with one or more optionally substituted C.sub.1-6 alkyl moieties. In certain embodiments, the G hydrocarbon chain is substituted with one or more CH.sub.3 moieties.

(143) In certain embodiments, G is an optionally substituted, optionally unsaturated, C.sub.5-20 hydrocarbon chain, wherein 0 to 10 methylene units are optionally replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene.

(144) In certain embodiments, G is an optionally substituted, optionally unsaturated, C.sub.10-20 hydrocarbon chain, wherein 0 to 8 methylene units are optionally replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene.

(145) In certain embodiments, G is an optionally substituted, optionally unsaturated, C10-18 hydrocarbon chain, wherein 0 to 6 methylene units are optionally replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene.

(146) In certain embodiments, G is an unsubstituted, optionally unsaturated hydrocarbon chain.

(147) In certain embodiments, G is an unsubstituted and saturated hydrocarbon chain. In certain embodiments, G is an unsubstituted hydrocarbon and saturated hydrocarbon chain wherein 0 to 10 methylene units are replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), S(O).sub.2 or NO.

(148) In certain embodiments, G is an unsubstituted and unsaturated hydrocarbon chain. In certain embodiments, G is an unsubstituted hydrocarbon and unsaturated hydrocarbon chain, wherein 1 to 10 methylene units are replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene.

(149) In certain embodiments, G is a substituted and saturated hydrocarbon chain. In certain embodiments, G is a substituted and saturated hydrocarbon chain, wherein 0 to 10 methylene units are replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), S(O).sub.2 or NO.

(150) In certain embodiments, G is a substituted, optionally unsaturated hydrocarbon chain. In certain embodiments, G is a substituted and unsaturated hydrocarbon chain. In certain embodiments, G is a substituted hydrocarbon and unsaturated hydrocarbon chain wherein 1 to 10 methylene units are replaced with O, NR.sup.x, S, C(O), C(NR.sup.x), S(O), SO.sub.2, NN, CN, NO, an optionally substituted arylene, an optionally substituted heterocyclylene, or an optionally substituted heteroarylene.

(151) In certain embodiments, G is an optionally substituted, optionally unsaturated, C.sub.10-C.sub.16 aliphatic moiety. In certain embodiments, G is an optionally substituted, C.sub.8-C.sub.16 alkyl moiety. In certain embodiments, G is an optionally substituted, C.sub.10-C.sub.14 alkyl moiety.

(152) In certain embodiments, G is:

(153) ##STR00034##

(154) In certain embodiments, G is:

(155) ##STR00035##

(156) In certain embodiments, G is fluorinated. G may be perfluorinated or partially fluorinated. In certain embodiments, all the hydrogen atoms of G are replaced with fluorine atoms. In certain embodiments, only a portion of the hydrogen atoms of G are replaced with fluorine atoms. In certain embodiments, at least 10%, at least 20%, at least 30%, at least 40%, at least 50%, at least 60%, at least 70%, at least 80%, or at least 80% of the hydrogen atoms are replaced with fluorine atoms. In certain embodiments, G comprises at least 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 15, 20, or more fluorine atoms. In certain embodiments, G may include substituents that are or are not fluorinated. In certain embodiments, G is a fluorinated, optionally unsaturated, C.sub.10-C.sub.16 aliphatic moiety. In certain embodiments, G is a perfluorinated, optionally unsaturated, C.sub.10-C.sub.16 aliphatic moiety. In certain embodiments, G is a partially fluorinated, optionally unsaturated, C.sub.10-C.sub.16 aliphatic moiety. In certain embodiments, G is a fluorinated, C.sub.8-C.sub.16 alkyl moiety. In certain embodiments, G is a perfluorinated, C.sub.8-C.sub.16 alkyl moiety. In certain embodiments, G is a partially fluorinated, C.sub.8-C.sub.16 alkyl moiety. In certain embodiments, G is a fluorinated, C.sub.10-C.sub.14 alkyl moiety. In certain embodiments, G is a perfluorinated, C.sub.10-C.sub.14 alkyl moiety. In certain embodiments, G is a partially fluorinated, C.sub.10-C.sub.14 alkyl moiety.

(157) In certain embodiments, G is a perfluorinated, optionally unsaturated C.sub.10-C.sub.16 alkyl moiety. In certain embodiments, G is:

(158) ##STR00036##

(159) In certain embodiments, G is:

(160) ##STR00037##

(161) In certain embodiments, G is:

(162) ##STR00038##

(163) In certain embodiments, G is a substituted or unsubstituted optionally unsaturated C.sub.2-30 hydrocarbon chain of the formulae:

(164) ##STR00039##
wherein is a single or double bond, and each instance of R.sup.e is, independently, H, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl, halogen, OR.sup.v, N(R.sup.v).sub.2, SR.sup.v, NO.sub.2, NC, CN, N.sub.3, N(R.sup.v)NR.sup.v, CHO, C(O)R.sup.v, C(S)R.sup.v, C(NR)R.sup.v, C(O)OR.sup.v, C(NR.sup.q)OR.sup.q, C(NR.sup.v)N(R.sup.v).sub.2, C(O)N(R.sup.v).sub.2, C(S)OR.sup.v, C(O)SR.sup.v, C(S)SR.sup.v, P(O)(OR.sup.v).sub.2, P(O).sub.2(OR.sup.v), S(O)(OR.sup.v), S(O).sub.2(OR.sup.v), P(O)N(R.sup.v).sub.2, P(O).sub.2N(R.sup.v).sub.2, S(O)N(R.sup.v).sub.2, or S(O).sub.2N(R.sup.v).sub.2; wherein each instance of R.sup.v is H, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl or a protecting group; and each instance of u, s and t is, independently, 0, 1, 2, 3, 4, or 5.

(165) In certain embodiments, R.sup.e is, independently, H or optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl, halogen, OR.sup.v or N(R.sup.v).sub.2. In certain embodiments, R.sup.e is, independently, H, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl or optionally substituted heteroaryl. In certain embodiments, R.sup.e is, independently, optionally substituted aliphatic or optionally substituted heteroaliphatic. In certain embodiments, R.sup.e is, independently, H or optionally substituted aliphatic. In certain embodiments, R.sup.e is, independently, H or CH.sub.3.

(166) In certain embodiments, G is a fully saturated hydrocarbon group of the formula:

(167) ##STR00040##
wherein R.sup.e, s and t are as defined above and herein.

(168) In certain embodiments, G is a fully saturated hydrocarbon group of the formulae:

(169) ##STR00041##
wherein s and t are as defined above and herein.

(170) In certain embodiments, G is an unsaturated group of the formulae:

(171) ##STR00042##
wherein R.sup.e, s, and t are as defined herein.

(172) In certain embodiments, G is a group of the formula:

(173) ##STR00043##

(174) wherein Ring X, Ring Y and Ring Z are, independently, an optionally substituted arylene or an optionally substituted heteroarylene moiety;

(175) z is 0 to 3;

(176) each instance of j is, independently, 1 or 2; and

(177) each instance of L.sup.1 and L.sup.2 are, independently, (C(R.sup.o).sub.2, O, NR.sup.x1, S, C(O), C(O)O, C(O)NR.sup.x1, C(O)S, C(NR.sup.x), C(NR.sup.x1)O, C(NR.sup.x1)NR.sup.x1, C(NR.sup.x1)S, S(O), S(O).sub.2, NN, CN, C(R.sup.y1)C(R.sup.y1), or NO, wherein R.sup.o is H, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl, each instance of R.sup.x1 is, independently, H, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl or an amino protecting group, and each instance of R.sup.y1 is, independently, H, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, or optionally substituted heteroaryl.

(178) Exemplary optionally substituted arylene groups include, but are not limited to:

(179) ##STR00044##

(180) wherein each instance of R.sup.s is, independently, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl, halogen, OR.sup.v, N(R.sup.v).sub.2, SR.sup.v, NO.sub.2, NC, CN, N.sub.3, N(R.sup.v)NR.sup.v, CHO, C(O)R.sup.v, C(S)R.sup.v, C(NR.sup.v)R.sup.v, C(O)OR.sup.q, C(NR.sup.v)OR.sup.v, C(NR.sup.v)N(R.sup.v).sub.2, C(O)N(R.sup.v).sub.2, C(S)OR.sup.v, C(O)SR.sup.v, C(S)SR.sup.v, P(O)(OR.sup.v).sub.2, P(O).sub.2(OR.sup.v), S(O)(OR.sup.v), S(O).sub.2(OR.sup.v), P(O)N(R.sup.v).sub.2, P(O).sub.2N(R.sup.v).sub.2, S(O)N(R.sup.v).sub.2, or S(O).sub.2N(R.sup.v).sub.2; wherein each instance of R.sup.v is H, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl or a protecting group; and w is an integer between 0 to 10, inclusive.

(181) Exemplary optionally substituted heteroarylene groups include, but are not limited to:

(182) ##STR00045## ##STR00046## ##STR00047##
wherein each instance of R.sup.s is, independently, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl, halogen, OR.sup.v, N(R.sup.v).sub.2, SR.sup.v, NO.sub.2, NC, CN, N.sub.3, N(R.sup.v)NR.sup.v, CHO, C(O)R.sup.v, C(S)R.sup.v, C(NR.sup.v)R.sup.v, C(O)OR.sup.q, C(NR.sup.q)OR.sup.q, C(NR.sup.v)N(R.sup.v).sub.2, C(O)N(R.sup.v).sub.2, C(S)OR.sup.v, C(O)SR.sup.v, C(S)SR.sup.v, P(O)(OR.sup.v).sub.2, P(O).sub.2(OR.sup.v), S(O)(OR.sup.v), S(O).sub.2(OR.sup.v), P(O)N(R.sup.v).sub.2, P(O).sub.2N(R.sup.v).sub.2, S(O)N(R.sup.v).sub.2, or S(O).sub.2N(R.sup.v).sub.2; wherein each instance of R.sup.v is H, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl or a protecting group; and w is an integer between 0 to 10, inclusive, and each instance of R.sup.g is, independently, H, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted aryl, optionally substituted heteroaryl or an amino protecting group.

(183) In certain embodiments, Ring X, Ring Y and Ring Z are, independently, an optionally substituted arylene moiety. In certain embodiments, Ring X, Ring Y and Ring Z are, independently, an optionally substituted phenylene moiety. For example, in certain embodiments, G is an group of the formulae:

(184) ##STR00048##
wherein z, w, j, L.sup.1, L.sup.2, and R.sup.s are as defined above and herein.

(185) In certain embodiments, G is of one of the formulae:

(186) ##STR00049##

(187) In certain embodiments, G is any one of the following groups:

(188) ##STR00050## ##STR00051##

(189) In certain embodiments, G is the geranyl group:

(190) ##STR00052##

(191) In certain embodiments, G is the farnesyl group:

(192) ##STR00053##

(193) In certain embodiments, G is C.sub.12 alkyl of the formula:

(194) ##STR00054##

(195) In certain embodiments, G is the nerolyl group:

(196) ##STR00055##

(197) In certain embodiments, G is of the formula:

(198) ##STR00056##
wherein each occurrence of R.sup.e is independently hydrogen or an optionally substituted aliphatic moiety. In certain embodiments, R.sup.e is hydrogen or C.sub.1-C.sub.6 aliphatic. In certain embodiments, R.sup.e is hydrogen, C.sub.1-C.sub.6 alkyl, or C.sub.1-C.sub.6 alkenyl. In certain embodiments, R.sup.e is vinyl. In certain embodiments, R.sup.e is allyl. In certain embodiments, R.sup.e is isopropyl. In certain embodiments, R.sup.e is n-propyl. In certain embodiments, R.sup.e is isobutyl. In certain embodiments, R.sup.e is n-butyl. In certain embodiments, R.sup.e is t-butyl. In certain embodiments, R.sup.e is n-pentyl. In certain embodiments, R.sup.e is isopentyl. In certain embodiments, R.sup.e is neopentyl. In certain embodiments, R.sup.e is 3-methyl-but-2-enyl. Exemplary G groups include:

(199) ##STR00057## ##STR00058##

(200) In certain embodiments, G is of the formula:

(201) ##STR00059##

(202) In some embodiments, G is of Formula (a):

(203) ##STR00060##
wherein a is 3, 4, or 5.

(204) For example, in certain embodiments, G is:

(205) ##STR00061##
wherein a is 3;

(206) ##STR00062##
wherein a is 4; or

(207) ##STR00063##
wherein a is 5.

(208) In some embodiments, G is of Formula (b):

(209) ##STR00064##
wherein:

(210) X.sub.1, X.sub.2, X.sub.3, X.sub.4, X.sub.5, X.sub.6, and X.sub.7 are each independently hydrogen or halogen;

(211) d is an integer between 1 and 25, inclusive; and

(212) e is an integer of between 2 and 25, inclusive;

(213) provided the sum of d and e is greater than 16.

(214) In certain embodiments, e is 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23 24, or 25. In certain embodiments, d is 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23 24, or 25. Any particular combination of e or d is contemplated, provided the sum of d and e is greater than 16.

(215) For example, in certain embodiments, e is 16 or an integer greater than 16, and d is 1 or an integer greater than 1. In certain embodiments, e is 15, and d is 2 or an integer greater than 2. In certain embodiments, e is 14, and d is 3 or an integer greater than 3. In certain embodiments, e is 13, and d is 4 or an integer greater than 4. In certain embodiments, e is 12, and d is 5 or an integer greater than 5. In certain embodiments, e is 11, and d is 6 or an integer greater than 6. In certain embodiments, e is 10, and d is 7 or an integer greater than 7. In certain embodiments, e is 9, and d is 8 or an integer greater than 8. In certain embodiments, e is 8, and d is 9 or an integer greater than 9. In certain embodiments, e is 7, and d is 10 or an integer greater than 10. In certain embodiments, e is 6, and d is 11 or an integer greater than 11. In certain embodiments, e is 5, and d is 12 or an integer greater than 12. In certain embodiments, e is 4, and d is 13 or an integer greater than 13. In certain embodiments, e is 3, and d is 14 or an integer greater than 14. In certain embodiments, e is 2, and d is 15 or an integer greater than 15.

(216) In certain embodiments, e is 10, and d is 7 or an integer greater than 7, e.g., d is 7, 8, 9, 10, 11, 12, 13, 14, 15, 16, 17, 18, 19, 20, 21, 22, 23 24, or 25. In certain embodiments, e is 10 and d is 7. In certain embodiments, e is 10 and d is 8. In certain embodiments, e is 10 and d is 9. In certain embodiments, e is 10 and d is 10. In certain embodiments, e is 10 and d is 11. In certain embodiments, e is 10 and d is 12. In certain embodiments, e is 10 and d is 13. In certain embodiments, e is 10 and d is 14. In certain embodiments, e is 10 and d is 15.

(217) In certain embodiments, each instance of X.sub.1 and X.sub.2 is hydrogen. In certain embodiments, each instance of X.sub.1 and X.sub.2 is halogen, e.g., fluoro.

(218) In certain embodiments, each instance of X.sub.3 and X.sub.4 is hydrogen. In certain embodiments, each instance of X.sub.3 and X.sub.4 is halogen, e.g., fluoro.

(219) In certain embodiments, each instance of X.sub.5, X.sub.6, and X.sub.7 is hydrogen. In certain embodiments, each instance of X.sub.5, X.sub.6, and X.sub.7 is halogen, e.g., fluoro.

(220) In certain embodiments, each instance of X.sub.1, X.sub.2, X.sub.3, X.sub.4, X.sub.5, X.sub.6, and X.sub.7 is hydrogen, i.e., to provide an n-alkyl group. Exemplary n-alkyl groups of Formula (b) include, but are not limited to:

(221) ##STR00065##

(222) In certain embodiments, each instance of X.sub.1 and X.sub.2 is fluoro, optionally wherein each instance of X.sub.3 and X.sub.4 is fluoro and/or each instance of X.sub.5, X.sub.6, and X.sub.7 is fluoro. Alternatively, each instance of X.sub.3 and X.sub.4 is fluoro, optionally wherein each instance of X.sub.1 and X.sub.2 is fluoro and/or each instance of X.sub.5, X.sub.6, and X.sub.7 is fluoro. In certain embodiments, X.sub.1 and X.sub.2 are each hydrogen, X.sub.3 and X.sub.4 are each fluoro, and X.sub.5, X.sub.6, and X.sub.7 are each fluoro. In certain embodiments, X.sub.1, X.sub.2 are each fluoro, X.sub.3 and X.sub.4 are each hydrogen, and X.sub.5, X.sub.6, and X.sub.7 are each hydrogen.

(223) Exemplary fluoroalkyl groups of Formula (b), wherein X.sub.1 and X.sub.2 are hydrogen and X.sub.3, X.sub.4, X.sub.5, X.sub.6, and X.sub.7 are each fluoro include, but are not limited to:

(224) ##STR00066##
wherein e is 10, and d is 7;

(225) ##STR00067##
wherein e is 10, and d is 8;

(226) ##STR00068##

(227) wherein e is 10, and d is 9;

(228) ##STR00069##

(229) wherein e is 10, and d is 10;

(230) ##STR00070##
wherein e is 10, and d is 11;

(231) ##STR00071##
wherein e is 10, and d is 12:

(232) ##STR00072##
wherein e is 10, and d is 13;

(233) ##STR00073##
wherein e is 10, and d is 14; and

(234) ##STR00074##
wherein e is 10, and d is 15.

(235) Exemplary fluoroalkyl groups of formula (b), wherein each instance of X.sub.1, X.sub.2, X.sub.3, X.sub.4, X.sub.5, X.sub.6, and X.sub.7 is fluoro, include but are not limited to:

(236) ##STR00075##
wherein e is 10, and d is 7;

(237) ##STR00076##
wherein e is 10, and d is 8;

(238) ##STR00077##
wherein e is 10, and d is 9;

(239) ##STR00078##
wherein e is 10, and d is 10;

(240) ##STR00079##
wherein e is 10, and d is 11;

(241) ##STR00080##
wherein e is 10, and d is 12;

(242) ##STR00081##
wherein e is 10, and d is 13;

(243) ##STR00082##
wherein e is 10, and d is 14; and

(244) ##STR00083##
wherein e is 10, and d is 15.

(245) In some embodiments, G is of Formula (c):

(246) ##STR00084##
wherein:

(247) Y is O, S, NR.sup.Y, or an optionally substituted methylene group, wherein R.sup.Y is hydrogen, optionally substituted aliphatic, or an amino protecting group;

(248) each instance of R.sup.c is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.e, SR.sup.e, NHR.sup.e, and N(R.sup.e).sub.2, wherein each instance of R.sup.e is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.e groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring;

(249) each instance of R.sup.d is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.f, SR.sup.f, NHR.sup.f, or N(R.sup.f).sub.2, wherein each instance of R.sup.f is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.f groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring;

(250) R.sup.z is hydrogen, F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.g, SR.sup.g, NHR.sup.g, or N(R.sup.g).sub.2, wherein each instance of R.sup.g is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl or two R.sup.g groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring;

(251) each instance of n is, independently, 0, 1, 2, 3, or 4;

(252) each instance of m is, independently, 0, 1, 2, 3, or 4; and

(253) x is 1, 2, 3, 4, 5, or 6.

(254) As generally defined above, Y is O, S, NR.sup.Y, or an optionally substituted methylene group, wherein R.sup.Y is hydrogen, optionally substituted aliphatic, or an amino protecting group. In certain embodiments, Y is O. In certain embodiments, Y is S. In certain embodiments, Y is NR.sup.Y. In certain embodiments, Y is an optionally substituted methylene group, e.g., CH.sub.2.

(255) As generally defined above, each instance of R.sup.c is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.e, SR.sup.e, NHR.sup.e, or N(R.sup.e).sub.2, wherein each instance of R.sup.e is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.e groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; and n is 0, 1, 2, 3, or 4.

(256) In certain embodiments, each instance of R.sup.c is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.e, SR.sup.e, NHR.sup.e, or N(R.sup.e).sub.2, wherein each instance of R.sup.e is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.e groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; wherein each instance of aliphatic, heteroaliphatic, carbocycyl, heterocycyl, aryl and heteroaryl is independently unsubstituted or substituted with 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, or more substituents, as defined herein. In certain embodiments, each instance of aliphatic, heteroaliphatic, carbocycyl, heterocycyl, aryl and heteroaryl is independently unsubstituted or substituted with C.sub.1-6alkyl, C.sub.1-6-fluoroalkyl or halogen.

(257) In certain embodiments, each instance of R.sup.c is independently F, aliphatic, heteroaliphatic, carbocycyl, heterocycyl, aryl, or heteroaryl, wherein each instance of aliphatic, heteroaliphatic, carbocycyl, heterocycyl, aryl and heteroaryl is independently unsubstituted or substituted with C.sub.1-6alkyl, C.sub.1-6-fluoroalkyl or halogen.

(258) In certain embodiments, each instance of R.sup.c is independently F or alkyl, wherein each instance of alkyl is independently unsubstituted or substituted with C.sub.1-6alkyl, C.sub.1-6fluoroalkyl or halogen.

(259) In certain embodiments, n is 0 or 1. In certain embodiments, n is 0. In certain embodiments, n is 1. In certain embodiments, n is 2.

(260) As generally defined above, each instance of R.sup.d is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.f, SR.sup.f, NHR.sup.f, or N(R.sup.f).sub.2, wherein each instance of R.sup.f is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.f groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; and m is 0, 1, 2, 3, or 4.

(261) In certain embodiments, each instance of R.sup.d is independently F, Br, I, Cl, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.f, SR.sup.f, NHR.sup.f, or N(R.sup.f).sub.2, wherein each instance of R.sup.f is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl, or two R.sup.f groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring; wherein each instance of aliphatic, heteroaliphatic, carbocycyl, heterocycyl, aryl and heteroaryl is independently unsubstituted or substituted with 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, or more substituents, as defined herein. In certain embodiments, each instance of aliphatic, heteroaliphatic, carbocycyl, heterocycyl, aryl and heteroaryl is independently unsubstituted or substituted with C.sub.1-6alkyl, C.sub.1-6fluoroalkyl or halogen.

(262) In certain embodiments, each instance of R.sup.d is independently F, aliphatic, heteroaliphatic, carbocycyl, heterocycyl, aryl, or heteroaryl, wherein each instance of aliphatic, heteroaliphatic, carbocycyl, heterocycyl, aryl, and heteroaryl is independently unsubstituted or substituted with C.sub.1-6alkyl, C.sub.1-6fluoroalkyl or halogen.

(263) In certain embodiments, each instance of R.sup.d is independently F or alkyl, wherein each instance of alkyl is independently unsubstituted or substituted with C.sub.1-6alkyl, C.sub.1-6fluoroalkyl, or halogen.

(264) In certain embodiments, m is 0 or 1. In certain embodiments, m is 0. In certain embodiments, m is 1. In certain embodiments, m is 2.

(265) In certain embodiments, R.sup.z is an ortho, meta, or para substituent to the OCH.sub.2-linking group. In certain embodiments, R.sup.z is a meta substituent.

(266) As generally defined above, R.sup.z is hydrogen, F, Br, I, Cl, optionally substituted aliphatic, heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.g, SR.sup.g, NHR.sup.g, or N(R.sup.g).sub.2, wherein each instance of R.sup.g is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl or two R.sup.g groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring.

(267) In certain embodiments, R.sup.z is hydrogen, F, Br, I, Cl, optionally substituted aliphatic, heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, optionally substituted heteroaryl, OR.sup.g, SR.sup.g, NHR.sup.g, or N(R.sup.g).sub.2, wherein each instance of R.sup.g is independently hydrogen, optionally substituted aliphatic, optionally substituted heteroaliphatic, optionally substituted carbocycyl, optionally substituted heterocycyl, optionally substituted aryl, or optionally substituted heteroaryl or two R.sup.g groups are joined to form a 5- to 6-membered optionally substituted heterocycyl or optionally substituted heteroaryl ring, wherein each instance of aliphatic, heteroaliphatic, carbocycyl, heterocycyl, aryl and heteroaryl is independently unsubstituted or substituted with 1, 2, 3, 4, 5, 6, 7, 8, 9, 10, or more substituents, as defined herein. In certain embodiments, each instance of aliphatic, heteroaliphatic, carbocycyl, heterocycyl, aryl and heteroaryl is independently unsubstituted or substituted with C.sub.1-6alkyl, C.sub.1-6fluoroalkyl or halogen.

(268) In certain embodiments, R.sup.z is hydrogen, alkyl, alkenyl, alkynyl, carbocycyl, heterocycyl, aryl, heteroaryl, OR.sup.g, SR.sup.g, NHR.sup.g, or N(R.sup.g).sub.2, wherein each instance of R.sup.g is independently hydrogen, alkyl, alkenyl, alkynyl, carbocycyl, heterocycyl, aryl, heteroaryl, or two R.sup.g groups are joined to form a 5- to 6-membered heterocycyl or heteroaryl ring, and wherein each instance of alkyl, alkenyl, alkynyl, carbocycyl, heterocycyl, aryl, and heteroaryl, is independently unsubstituted or substituted with C.sub.1-6alkyl, C.sub.1-6fluoroalkyl or halogen.

(269) In certain embodiments, R.sup.z is hydrogen or aryl, wherein aryl is unsubstituted or substituted with C.sub.1-6alkyl, C.sub.1-6fluoroalkyl or halogen.

(270) As generally depicted above, x is 1, 2, 3, 4, 5, or 6. In certain embodiments, x is 1 or 2. In certain embodiments, x is 1. In certain embodiments, x is 2.

(271) It will be understood by one skilled in the art that each repeat unit of formula (c), when x is greater than 1, can optionally differ from one another, arising from differences in the independent variables Y, R.sup.c, R.sup.d, n and m, as well as different substitution patterns on and between each repeating unit. Thus, in further defining the compounds of the present invention, it is also generally helpful to further designate Y, R.sup.c, R.sup.d, n and m, with a sequential number corresponding to the first, second, third, fourth, fifth or sixth sequential group from which it is formally a member, e.g., Y, R.sup.c, R.sup.d, n, m and x can also be referred to as Y.sup.1, R.sup.c1, R.sup.d1, n1 and m1 for the first group in the sequence; Y.sup.2, R.sup.c2, R.sup.d2, n2 and m2 for the second optional repeating unit in the sequence; Y.sup.3, R.sup.c3, R.sup.d3, n3 and m3 for the third optional repeating unit in the sequence; Y.sup.4, R.sup.c4, R.sup.d4, n4 and m4 for the fourth optional repeating unit in the sequence; Y, R.sup.c5, R.sup.d5, n5 and m5 for the fifth optional repeating unit in the sequence; and Y.sup.6, R.sup.c6, R.sup.d6, n6 and m6 for the sixth optional repeating unit in the sequence.

(272) For example, in certain embodiments, the group of Formula (c) is of the formula:

(273) ##STR00085##
wherein x is 1;

(274) ##STR00086##
wherein x is 2;

(275) ##STR00087##
wherein x is 3;

(276) ##STR00088##
wherein x is 4;

(277) ##STR00089##
wherein x is 5;
or

(278) ##STR00090##
wherein x is 6;
wherein:

(279) R.sup.c1, R.sup.c2, R.sup.c3, R.sup.c4, R.sup.c5, and R.sup.c6 each independently correspond to the definition and various embodiments of R.sup.c;

(280) R.sup.d1, R.sup.d2, R.sup.d3, R.sup.d4, R.sup.d5, and R.sup.d6 each independently correspond to the definition and various embodiments of R.sup.d;

(281) n1, n2, n3, n4, n5, and n6 each independently correspond to the definition and various embodiments of n;

(282) m1, m2, m3, m4, m5, and m6 each independently correspond to the definition and various embodiments of m;

(283) Y.sup.1, Y.sup.2, Y.sup.3, Y.sup.4, Y.sup.5, and Y.sup.6, each independently correspond to the definition and various embodiments of Y; and

(284) R.sup.z is as defined herein.

(285) In certain embodiments, the group of Formula (c) is of the formula:

(286) ##STR00091##
wherein Y, R.sup.z, R.sup.c, R.sup.d, m, n, and x are as defined herein.

(287) In certain embodiments, the group of Formula (c) is:

(288) ##STR00092##
wherein x is 1;

(289) ##STR00093##
wherein x is 2;

(290) ##STR00094##
wherein x is 3;

(291) ##STR00095##
wherein x is 4;

(292) ##STR00096##
wherein x is 5;
or

(293) ##STR00097##
wherein x is 6;
wherein:

(294) R.sup.c1, R.sup.c2, R.sup.c3, R.sup.c4, R.sup.c5, and R.sup.c6 each independently correspond to the definition and various embodiments of R.sup.c;

(295) R.sup.d1, R.sup.d2, R.sup.d3, R.sup.d4, R.sup.d5, and R.sup.d6 each independently correspond to the definition and various embodiments of R.sup.d;

(296) n1, n2, n3, n4, n5, and n6 each independently correspond to the definition and various embodiments of n;

(297) m1, m2, m3, m4, m5, and m6 each independently correspond to the definition and various embodiments of m;

(298) Y.sup.1, Y.sup.2, Y.sup.3, Y.sup.4, Y.sup.5, and Y.sup.6, each independently correspond to the definition and various embodiments of Y; and

(299) R.sup.z is as defined herein.

(300) In certain embodiments, each of n, n1, n2, n3, n4, n5, and n6 is 0.

(301) In certain embodiments, each of m, m1, m2, m3, m4, m5, and m6 is 0.

(302) In certain embodiments, each of Y, Y.sup.1, Y.sup.2, Y.sup.3, Y.sup.4, Y.sup.5, and Y.sup.6 is O.

(303) As described generally above, a hydrogen radical on a compound of Formula (I) is replaced with -L-R.sup.P. The -L-R.sup.P group can reside at any position on a compound of Formula (I). In certain embodiments, R.sup.1 is -L-R.sup.P, C(O)NH-L-R.sup.P, CH.sub.2O-L-R.sup.P, or C(O)O-L-R.sup.P. In certain embodiments, R.sup.2 is -L-R.sup.P, O-L-R.sup.P, N(R.sup.8)-L-R.sup.P, or C(O)NH-L-R.sup.P. In certain embodiments, R.sup.3 is -L-R.sup.P, O-L-R.sup.P, N(R.sup.8)-L-R.sup.P, or C(O)NH-L-R.sup.P. In certain embodiments, R.sup.4 is -L-R.sup.P or O-L-R.sup.P. In certain embodiments, R.sup.5 is -L-R.sup.P or NH-L-R.sup.P. In certain embodiments, R.sup.6 is O-L-R.sup.P. In certain embodiments, R.sup.6 is OR.sup.CX, wherein R.sup.CX is a carbohydrate moiety substituted with -L-R.sup.P. In certain embodiments, R.sup.7 is -L-R.sup.P, O-L-R.sup.P, or N(R.sup.8)-L-R.sup.P. In certain embodiments, R.sup.8 is -L-R.sup.P. In certain embodiments, R.sup.9 is -L-R.sup.P. In certain embodiments, R.sup.10 is -L-R.sup.P. In certain embodiments, R.sup.a is -L-R.sup.P. In certain embodiments, R.sup.b is -L-R.sup.P. In certain embodiments, R.sup.1 is -L-R.sup.P, C(O)NH-L-R.sup.P, CH.sub.2O-L-R.sup.P, or C(O)O-L-R.sup.P. In certain embodiments, R.sup.12 is -L-R.sup.P, O-L-R.sup.P, N(R.sup.8)-L-R.sup.P, or C(O)NH-L-R.sup.P. In certain embodiments, R.sup.13 is -L-R.sup.P, O-L-R.sup.P, N(R.sup.8)-L-R.sup.P, or C(O)NH-L-R.sup.P. In certain embodiments, R.sup.14 is -L-R.sup.P or NH-L-R.sup.P. In certain embodiments, R.sup.14 is NHC(O)CH.sub.2-L-R.sub.P. In certain embodiments, R.sup.15 is -L-R.sup.P, C(O)NH-L-R.sup.P, CH.sub.2O-L-R.sup.P, or C(O)O-L-R. In certain embodiments, R.sup.16 is -L-R.sup.P or O-L-R.sup.P. In certain embodiments, R.sup.17 is -L-R.sup.P or O-L-R.sup.P. In certain embodiments, R.sup.18 is -L-R.sup.P or O-L-R.sup.P. In certain embodiments, R.sup.19a is -L-R.sup.P or O-L-R.sup.P. In certain embodiments, R.sup.19b is -L-R.sup.P or O-L-R.sup.P In certain embodiments, the G group is substituted with -L-R.sup.P.

(304) For example, in certain embodiments, a compound of Formula (I) can be any one of the following formulae:

(305) ##STR00098## ##STR00099## ##STR00100## ##STR00101## ##STR00102## ##STR00103## ##STR00104## ##STR00105## ##STR00106## ##STR00107## ##STR00108## ##STR00109## ##STR00110## ##STR00111## ##STR00112## ##STR00113## ##STR00114## ##STR00115## ##STR00116## ##STR00117## ##STR00118## ##STR00119## ##STR00120##
or a salt thereof, wherein R.sup.1, R.sup.2, R.sup.3, R.sup.4, R.sup.5, R.sup.6, R.sup.7, R.sup.8, R.sup.9, R.sup.11, R.sup.12, R.sup.13, R.sup.14, R.sup.15, R.sup.16, R.sup.17R.sup.18, R.sup.19a, R.sup.19b, R.sup.20, R.sup.21, R.sup.22, R.sup.23, R.sup.a, R.sup.b, G, L, and R.sup.P are as described herein.

(306) As defined generally above, L is a covalent bond, NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, optionally substituted cycloalkylene, optionally substituted heterocyclylene, optionally substituted arylene, optionally substituted heteroarylene, or an optionally substituted aliphatic linker, wherein one or more methylene units of the aliphatic linker are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene; wherein R.sup.y is hydrogen, C.sub.1-6 alkyl, or C(O)C.sub.1-6 alkyl. In some embodiments, L is a covalent bond. In some embodiments, L is NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, or SO.sub.2. In certain embodiments, L is NHC(S)NH. In certain embodiments, L is NHC(O)NH, NHC(O), or C(O)NH. In some embodiments, L is optionally substituted cycloalkylene, optionally substituted heterocyclylene, optionally substituted arylene, or optionally substituted heteroarylene. In certain embodiments, L is heteroarylene. In certain embodiments, L is triazolylene. In certain embodiments, L is 1,2,3-triazolylene. In some embodiments, L is an optionally substituted aliphatic linker, wherein one or more methylene units of the aliphatic linker are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene; wherein R.sup.y is hydrogen, C.sub.1-6 alkyl, or C(O)C.sub.1-6 alkyl. In some embodiments, L is an optionally substituted C.sub.1-20 aliphatic linker, wherein one or more methylene units of the aliphatic linker are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene. In some embodiments, L is an optionally substituted C.sub.1-10 aliphatic linker, wherein one or more methylene units of the aliphatic linker are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene. In some embodiments, L is an optionally substituted C.sub.1-6 aliphatic linker, wherein one or more methylene units of the aliphatic linker are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene. In some embodiments, L is an optionally substituted C.sub.1-6 alkylene linker, wherein one or more methylene units of the alkylene linker are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene. In certain embodiments, 1, 2, 3, 4, or 5 methylene units of L are replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene. In certain embodiments, one methylene unit of L is replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene. In certain embodiments, two methylene units of L are replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene. In certain embodiments, one methylene unit of L is replaced by heteroarylene and one methylene unit of L is replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, or SO.sub.2. In certain embodiments, L is an optionally substituted aliphatic linker wherein one methylene unit is replaced by tetrazolyl and one or more additional methylene units are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, or SO.sub.2. In certain embodiments, L is an optionally substituted aliphatic linker wherein one methylene unit is replaced by NHC(S)NH and one or more additional methylene units are optionally replaced by NR.sup.y, N(R.sup.y)C(O), N(R.sup.y)C(O)N(R.sup.y), N(R.sup.y)C(S)N(R.sup.y), C(O)N(R.sup.y), N(R.sup.y)SO.sub.2, SO.sub.2N(R.sup.y), O, C(O), OC(O), C(O)O, S, SO, SO.sub.2, cycloalkylene, heterocyclylene, arylene, or heteroarylene. In certain embodiments, one methylene unit of L is replaced by heteroarylene and one methylene unit of L is replaced by NHC(O) or C(O)NH. In certain embodiments, L is C(O)CH.sub.2NHC(S)NH. In certain embodiments, L is

(307) ##STR00121##
In certain embodiments, L is

(308) ##STR00122##
In certain embodiments, L is C.sub.1-10 alkylene. In certain embodiments, L is C.sub.1-6 alkylene. In certain embodiments, L is CH.sub.2 or CH.sub.2CH.sub.2. In certain embodiments, L is a PEG linker. In certain embodiments, L is a peptide linker. In certain embodiments, L is an amino acid linker.

(309) As defined generally above, R.sup.P is a detectable moiety. In some embodiments, R.sup.P is a ligand, radionuclide, fluorescent dye, chemiluminescent agent, microparticle, enzyme, calorimetric label, magnetic label, or hapten.

(310) In some embodiments, R.sup.P is a fluorophore. In some embodiments, R.sup.P is Alexa Fluor 350, Alexa Fluor 488, Alexa Fluor 500, Alexa Fluor 532, Alexa Fluor 546, Alexa Fluor 568, Alexa Fluor 594, Alexa Fluor 633, Alexa Fluor 660 and Alexa Fluor 680, AMCA, AMCA-S, BODIPY FL, BODIPY R6G, BODIPY TMR, BODIPY TR, BODIPY 493/503, BODIPY 530/550, BODIPY 558/568, BODIPY 564/570, BODIPY 576/589, BODIPY 581/591, BODIPY 630/650, BODIPY 650/665, aminomethylcoumarin, carbocyanine, carboxyrhodamine 6G, carboxy-X-rhodamine (ROX), Cascade Blue, Cascade Yellow, coumarin, coumarin 343, cyanine dyes, dansyl, dapoxyl, dialkylaminocoumarin, 4,5-dichloro-2,7-dimethoxyfluorescein, DM-NERF, eosin, erythrosin, fluorescein, FAM, hydroxycoumarin, IRD40, IRD 700, IRD 800, 6-carboxy-4,5-dichloro-2,7-dimethoxyfluorescein (6-JOE), lissamine rhodamine B, Marina Blue, merocyanine, methoxycoumarin, naphthofluorescein, Oregon Green 488, Oregon Green 500, Oregon Green 514, oxonol dyes, Pacific Blue, phycoerythrin, PyMPO, pyrene, rhodamine B, rhodamine 6G, rhodamine green, rhodamine red, rhodol green, styryl dyes, 2,4,5,7-tetrabromosulfone-fluorescein, tetramethyl-rhodamine (TMR), carboxytetramethylrhodamine (TAMRA), Texas Red, Texas Red-X, 5(6)-carboxyfluorescein, 2,7-dichlorofluorescein, N,N-bis(2,4,6-trimethylphenyl)-3,4,9,10-perylenebis(dicarboximide), HPTS, ethyl eosin, DY-490XL MegaStokes, DY-485XL MegaStokes, Adirondack Green 520, ATTO 465, ATTO 488, ATTO 495, Y0Y0-1,5-FAM, BCECF, dichlorofluorescein, rhodamine 110, rhodamine 123, YO-PRO-I, SYTOX Green, Sodium Green, SYBR Green I, Alexa Fluor 500, FITC, Fluo-3, Fluo-4, fluoro-emerald, YoYo-I ssDNA, YoYo-I dsDNA, YoYo-I, SYTO RNASelect, Diversa Green-FP, Dragon Green, EvaGreen, Surf Green EX, Spectrum Green, Spectrum Red, NeuroTrace 500525, NBD-X, MitoTracker Green FM, LysoTracker Green DND-26, CBQCA, PA-GFP (post-activation), WEGFP (post-activation), FLASH-CCXXCC, Azami Green monomeric, Azami Green, green fluorescent protein (GFP), EGFP, Kaede Green, 7-benzylamino-4-nitrobenz-2-oxa-1,3-diazole, Bexl, doxorubicin, Lumio Green, or SuperGlo GFP. In certain embodiments, R.sup.P is Alexa Fluor 350, Alexa Fluor 488, Alexa Fluor 500, Alexa Fluor 532, Alexa Fluor 546, Alexa Fluor 568, Alexa Fluor 594, Alexa Fluor 633, Alexa Fluor 660, or Alexa Fluor 680. In certain embodiments, R.sup.P is AMCA or AMCA-S. In certain embodiments, R.sup.P is BODIPY FL, BODIPY R6G, BODIPY TMR, BODIPY TR, BODIPY 493/503, BODIPY 530/550, BODIPY 558/568, BODIPY 564/570, BODIPY 576/589, BODIPY 581/591, BODIPY 630/650, or BODIPY 650/665. In certain embodiments, R.sup.P is aminomethylcoumarin, coumarin, coumarin 343, dialkylaminocoumarin, or hydroxycoumarin. In certain embodiments, R.sup.P is carbocyanine, carboxyrhodamine 6G, carboxy-X-rhodamine (ROX), Cascade Blue, Cascade Yellow, cyanine dyes, dansyl, dapoxyl, DM-NERF, eosin, or erythrosine. In certain embodiments, R.sup.P is IRD40, IRD 700, or IRD 800. In certain embodiments, R.sup.P is Oregon Green 488, Oregon Green 500, or Oregon Green 514. In certain embodiments, R.sup.P is Marina Blue, merocyanine, oxonol dyes, Pacific Blue, phycoerythrin, PyMPO, pyrene, or styryl dyes. In certain embodiments, R.sup.P is lissamine rhodamine B, rhodamine B, rhodamine 6G, rhodamine green, rhodamine red, rhodol green, tetramethyl-rhodamine (TMR), carboxytetramethylrhodamine (TAMRA), rhodamine 110, or rhodamine 123. In certain embodiments, R.sup.P is fluorescein, naphthofluorescein, 4,5-dichloro-2,7-dimethoxy-fluorescein, 2,4,5,7-tetrabromosulfone-fluorescein, 2,7-dichlorofluorescein, 6-carboxy-4,5-dichloro-2,7-dimethoxyfluorescein, or 5(6)-carboxyfluorescein. In certain embodiments, R.sup.P is fluorescein.

(311) In certain embodiments, the stereochemistry of the phosphoglycerate linker of a compound of Formula (I), (Ia), (Ib), (Ic), (Id), (Ie), (If), or any embodiment or subformula described herein is

(312) ##STR00123##
In certain embodiments, the stereochemistry of the phosphoglycerate linker of a compound of Formula (I), (Ia), (Ib), (Ic), (Id), (Ie), (If), or any embodiment or subformula described herein is

(313) ##STR00124##

(314) In certain embodiments, a compound of Formula (I) is:

(315) ##STR00125##
Glycosyltransferase Assay

(316) In another aspect, the present invention provides an assay to determine the inhibitory effect of a test compound on a glycosyltransferase protein. Efforts have been made by others to provide such as an assay (see Cheng et al., Proc. Natl. Acad. Sci. USA 105:431 (2008)), but the present inventors have found that the fluorescent probe compound used in that assay binds too tightly to the glycosyltransferase protein, resulting in false negatives when screening test compounds. To overcome high false negative rates, compounds of formula (I) were prepared. The dissociation constant of the probe compound of formula (I) can be tuned by varying lengths of the G group, number of sugars, etc., allowing the operator of the assay to regulate the activity threshold for hit screening.

(317) In some embodiments, an assay of the present invention comprises the steps of incubating a glycosyltransferase protein with a probe compound of formula (I) or a salt thereof; measuring fluorescence polarization of the compound of formula (I) in the presence of the glycosyltransferase protein; adding a test compound; and measuring a change in fluorescence polarization of the probe compound after addition of the test compound. In certain embodiments, a decrease in fluorescence polarization indicates that the probe compound has been liberated from the glycosyltransferase.

(318) In certain embodiments, a probe compound for use in a provided assay is of formula (I), (Ia), (Ib), (Ic), (Id), (Ie), (If), or any subformula or embodiment described herein.

(319) In certain embodiments, a probe compound for use in a provided assay is of formula:

(320) ##STR00126##

(321) In certain embodiments, the glycosyltransferase protein is a recombinant, full length glycosyltransferase protein. In certain embodiments, the glycosyltransferase protein is a bacterial glycosyltransferase. In other embodiments, the glycosyltransferase protein is a purified glycosyltransferase protein. In still other embodiments, the glycosyltransferase protein is a crude glycosyltransferase protein. In further embodiments, the glycosyltransferase protein is purified from natural sources. In other embodiments, the glycosyltransferase protein is a modified form of a glycosyltransferase protein. In other embodiments, the glycosyltransferase protein is a mutant form of a glycosyltransferase protein. In other embodiments, the glycosyltransferase protein is a truncated form of a glycosyltransferase protein. In still other embodiments, the glycosyltransferase protein is a truncated form of a glycosyltransferase protein which includes at least an active site.

(322) In certain embodiments, the assay is carried out at a concentration of the substrate greater than the substrate K.sub.d. In other embodiments, the assay is carried out at a concentration of the substrate approximately equivalent to the substrate K.sub.d.

(323) In certain embodiments, the glycosyltransferase protein is a peptidoglycan glycosyltransferase. In certain embodiments, the glycosyltransferase protein is B. pertussis PBP1a, C. freudii PBP1b, E. coli PBP1b, H. influenzae PBP1b, H. pylori PBP1a, K. pneumoniae PBP1b, P. aeruginosa PBP1b, S. enterica PBP1b, S. flexneri PBP2, B. subtilis PBP1a/1b, C. difficile PBP, E. faecalis PBP2a, E. faecium PBP1, S. aureus PBP2, S. pneumoniae PBP1b, or S. aureus SgtB. In certain embodiments, the glycosyltransferase protein is PGT, PBP1b, PBP2a, or SgtB. In certain embodiments, the glycosyltransferase protein is Aquifex aeolicus PGT, E. coli PBP1b, E. faecalis PBP2a, and S. aureus SgtB. In certain embodiments, the glycosyltransferase protein is E. coli PBP1b. In certain embodiments, the glycosyltransferase protein is E. faecalis PBP2a. In certain embodiments, the glycosyltransferase protein is S. aureus SgtB.

(324) The inventive assay is suitable for high-throughput screening, and multiple assays may be run in parallel. This aspect of the assay allows for the screening of many test compounds at multiple concentrations at once optionally using more than one glycosyltransferase protein. In certain embodiments, multiple assays are run in parallel. In other embodiments, at least 10 assays are run in parallel. In still other embodiments, at least 50 assays are run in parallel. In further embodiments, at least 100 assays are run in parallel. In certain embodiments, at least 500 assays are run in parallel. In other embodiments, at least 1000 assays are run in parallel.

(325) In certain embodiments, the assay is performed at approximately room temperature. In other embodiments, the assay is performed at approximately 25 C. In still other embodiments, the assay is performed at approximately 37 C. In further embodiments, the assay is performed at approximately 20-40 C. In certain embodiments, the assay is performed below 25 C. In other embodiments, the assay is performed above 25 C. In still other embodiments, the assay is performed at approximately 10-15 C. In further other embodiments, the assay is performed at approximately 15-20 C. In certain embodiments, the assay is performed at approximately 20-25 C. In other embodiments, the assay is performed at approximately 25-30 C. In still other embodiments, the assay is performed at approximately 30-35 C. In further embodiments, the assay is performed at approximately 35-40 C. In certain embodiments, the assay is performed at approximately 40-45 C. In other embodiments, the assay is performed at approximately 45-50 C. In still other embodiments, the assay is performed at approximately 50-60 C. In further embodiments, the assay is performed above 60 C. In certain embodiments, the assay is performed at any temperature at which a glycosyltransferase enzyme functions. In other embodiments, the assay is performed at a temperature optimum for a glycosyltransferase enzyme to function.

(326) In certain embodiments, the assay is performed for approximately 30 seconds to 12 hours. In other embodiments, the assay is performed for approximately 30 seconds to 5 minutes. In still other embodiments, the assay is performed for approximately 5 minutes to 15 minutes. In further embodiments, the assay is performed for approximately 15 minutes to 30 minutes. In certain embodiments, the assay is performed for approximately 30 minutes to 1 hour. In other embodiments, the assay is performed for approximately 1 hour to 3 hours. In still other embodiments, the assay is performed for approximately 3 hours to 6 hours. In further embodiments, the assay is performed for approximately 6 hours to 9 hours. In certain embodiments, the assay is performed for approximately 9 hours to 12 hours. In certain embodiments, the assay is performed for less than 3 hours. In certain embodiments, the assay is performed for approximately 3 hours. In certain embodiments, the assay is performed for less than 12 hours. In other embodiments, the assay is performed for greater than 12 hours.

(327) In certain embodiments, the assay is performed in water. In other embodiments, the assay is performed in an organic solvent. In still other embodiments, the assay in performed in a buffer. In certain embodiments, the buffer is an assay buffer. In other embodiments, the assay buffer comprises TRIS and NaCl. In further embodiments, the assay buffer is 10 mM TRIS pH 8, 100 mM NaCl. In certain embodiments, the assay is performed at approximately pH 5.0-6.0. In other embodiments, the assay is performed at approximately pH 6.0-6.5. In still other embodiments, the assay is performed at approximately pH 6.5-7.0. In further embodiments, the assay is performed at approximately pH 7.0-7.5. In certain embodiments, the assay is performed at approximately pH 7.4. In other embodiments, the assay is performed at approximately pH 7.5-8.0. In certain embodiments, the assay is performed at approximately pH 8.0. In still other embodiments, the assay is performed at approximately pH 8.0-9.0. In certain embodiments, the assay is performed at a pH optimum for a glycosyltransferase enzyme to function.

(328) In certain embodiments, the concentration of the probe compound of formula (I) is 1-1000 nM. In certain embodiments, the concentration of the probe compound is 0.01-100 M. In further embodiments, the concentration of the probe compound is 1-500 nM. In other embodiments, the concentration of the probe compound is 1-100 nM. In still other embodiments, the concentration of the probe compound is 5-10 nM. In yet other embodiments, the concentration of the probe compound is 10-15 nM. In further embodiments, the concentration of the probe compound is 15-20 nM. In other embodiments, the concentration of the probe compound is 10-20 nM. In further embodiments, the concentration of the probe compound is 20-30 nM. In certain embodiments, the concentration of the probe compound is 30-40 nM. In other embodiments, the concentration of the probe compound is 40-50 nM. In still other embodiments, the concentration of the probe compound is 50-60 nM. In further embodiments, the concentration of the probe compound is 60-70 nM. In certain embodiments, the concentration of the probe compound is 70-80 nM. In other embodiments, the concentration of the probe compound is 80-90 nM. In still other embodiments, the concentration of the probe compound is 90-100 nM. In certain embodiments, the concentration of the probe compound is less than 100 nM. In other embodiments, the concentration of the probe compound is greater than 100 nM.

(329) In certain embodiments, the concentration of the glycosyltransferase protein is less than 1 M. In other embodiments, the concentration of the glycosyltransferase protein is greater than 1 M. In certain embodiments, the concentration of the glycosyltransferase protein is less than 5 M. In other embodiments, the concentration of the glycosyltransferase protein is greater than 5 M. In certain embodiments, the concentration of the glycosyltransferase protein is 0.01-5 M. In other embodiments, the concentration of the glycosyltransferase protein is 0.01-0.05 M. In still other embodiments, the concentration of the glycosyltransferase protein is 0.05-0.1 M. In further embodiments, the concentration of the glycosyltransferase protein is 0.1-0.5 M. In certain embodiments, the concentration of the glycosyltransferase protein is 0.5-5 M. In certain embodiments, the concentration of the glycosyltransferase protein is 0.1 M. In certain embodiments, the concentration of the glycosyltransferase protein is 0.2 M. In certain embodiments, the concentration of the glycosyltransferase protein is 0.4 M. In certain embodiments, the concentration of the glycosyltransferase protein is 0.15 M.

(330) In some embodiments, the probe compound employed in a provided assay is of intermediate activity with respect to binding to a glycosyltransferase of interest. If the probe compound associates with a glycosyltransferase of interest with very high affinity, then the assay may not identify test compounds of lower affinity. On the other hand, if the probe compound only associates with a glycosyltransferase of interest with very low affinity, then the assay may not discriminate among various test compounds of varying affinities to the glycosyltransferase. Assays provided by the present invention in conjunction with the probe compounds of formula (I) provide the opportunity to tune the assay to the desired activity threshold.

(331) In some embodiments, a probe compound used in a provided assay has a K.sub.d in the range of 0.1-10 M with respect to a glycosyltransferase of interest. In certain embodiments, a probe compound used in a provided assay has a K.sub.d in the range of 0.1-1 M. In certain embodiments, a probe compound used in a provided assay has a K.sub.d in the range of 1-10 M. In certain embodiments, a probe compound used in a provided assay has a K.sub.d in the range of 0.1-0.5 M. In certain embodiments, a probe compound used in a provided assay has a K.sub.d in the range of 0.5-1 M. In certain embodiments, a probe compound used in a provided assay has a K.sub.d of about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, or 1 M.

(332) In some embodiments, a probe compound used in a provided assay has an IC.sub.50 in the range of 0.01-10 M with respect to a glycosyltransferase of interest. In certain embodiments, a probe compound used in a provided assay has an IC.sub.50 in the range of 0.1-10 M. In certain embodiments, a probe compound used in a provided assay has an IC.sub.50 in the range of 0.1-1 M. In certain embodiments, a probe compound used in a provided assay has an IC.sub.50 in the range of 1-10 M. In certain embodiments, a probe compound used in a provided assay has an IC.sub.50 in the range of 0.5-5 M. In certain embodiments, a probe compound used in a provided assay has an IC.sub.50 in the range of 0.1-0.5 M. In certain embodiments, a probe compound used in a provided assay has an IC.sub.50 in the range of 0.5-1 M. In certain embodiments, a probe compound used in a provided assay has an IC.sub.50 in the range of 0.2-0.8 M. In certain embodiments, a probe compound used in a provided assay has an IC.sub.50 in the range of 0.4-0.8 M. In certain embodiments, a probe compound used in a provided assay has an IC.sub.50 of about 0.6 M. In certain embodiments, a probe compound used in a provided assay has an IC.sub.50 of about 0.1, 0.2, 0.3, 0.4, 0.5, 0.6, 0.7, 0.8, 0.9, or 1 M.

(333) In certain embodiments, the assay is performed at the same concentration per test compound. In other embodiments, the assay is performed at multiple concentrations per test compound.

(334) In certain embodiments, an assay of the present invention measures a change in fluorescence polarization after addition of a test compound. In certain embodiments, the change in fluorescence polarization is a decrease in polarization. Such a decrease in fluorescence polarization indicates that a test compound competes with the probe compound for binding to the glycosyltransferase protein.

(335) In certain embodiments, the present invention provides a kit comprising a probe compound as described herein and glycosyltransferase protein. In some embodiments, a provided kit comprises a probe compound as described herein and a peptidoglycan glycosyltransferase, such as for example B. pertussis PBP1a, C. freudii PBP1b, E. coli PBP1b, H. influenzae PBP1b, H. pylori PBP1a, K. pneumoniae PBP1b, P. aeruginosa PBP1b, S. enterica PBP1b, S. flexneri PBP2, B. subtilis PBP1a/1b, C. difficile PBP, E. faecalis PBP2a, E. faecium PBP1, S. aureus PBP2, S. pneumoniae PBP1b, or S. aureus SgtB. In some embodiments, the kit further comprises a buffer. In some embodiments, the kit further comprises instructions for use.

(336) These and other aspects of the present invention will be further appreciated upon consideration of the following Examples, which are intended to illustrate certain particular embodiments of the invention but are not intended to limit its scope, as defined by the claims.

EXAMPLES

Chemical Syntheses

(337) All reactions in non-aqueous reaction medium were carried out under an atmosphere of argon, unless otherwise noted. Commercial chemicals were used without prior purification. Solvents were dried by passage over columns filled with activated aluminum oxide (Glass Contour Solvent Systems, SG Water USA, Nashua, N.H., USA).

(338) In addition to the exemplary syntheses described below, also see the following patent applications incorporated herein by reference for methods of synthesizing moenomycin analogs: WO 2008/021367; WO 2009/046314; U.S. Provisional Patent Application entitled Moenomycin A Analogs, Methods of Synthesis, and Uses Thereof, filed on the same day as the present application; and U.S. Provisional Patent Application entitled Chemoenzymatic Methods for Synthesizing Moenomycin Analogs.

(339) ##STR00127##

Synthesis of S2 and S3

General Procedure for Preparation of 2,5-Di-O-alkyl-D-Mannitol

(340) To a stirred suspension of 60% NaH (3 equiv.), washed twice with petroleum ether, in anhydrous DMF (8 mL/mmol-starting material (SM)) was added 1,3:4,6-di-O,O-(4-methoxybenzylidene)-D-mannitol (1 equiv., SM) at room temperature. After being stirred for 30 min, the mixture was treated with a 1.2 M solution of alkylating reagents (2.4 equiv., Br, and methane- or p-toluene-sulfonate for R=allyl, and n-alkyl groups, respectively) in anhydrous DMF and a catalytic amount of tetrabutylammonium iodide for allyl-Br, or 15-Crown-5 for n-alkyl sulfonates. The resulting mixture was stirred for 18 h at rt for allyl-Br and 70 C. for n-alkyl sulfonates, and then poured into sat. aq. NH.sub.4Cl (8 mL/mmol-SM). The immiscible mixture was extracted twice with Et.sub.2O and the combined organic phases were washed with water, brine, dried over MgSO.sub.4, and then concentrated in vacuo. The crude ether was used for the next reaction without further purification.

(341) For allyl derivatives, a stirred solution of the residue in THF-H.sub.2O (4:1, 8 mL/mmol-SM) was treated with AcOH (170 equiv.) at room temperature. After being stirred at 55 C. for 2 d, the mixture was cooled to 0 C. and basified with 4 M aq. K.sub.2CO.sub.3 (90 equiv.). The immiscible mixture was extracted twice with CHCl.sub.3 and the combined organic phases were washed with brine, dried over MgSO.sub.4, and then concentrated in vacuo. The residue was purified by silica gel chromatography (petroleum ether:EtOAc=1:3 to 0:1) to give 2,5-di-O-allyl-D-mannitol.

(342) For n-alkyl derivatives, a stirred solution of the residue in EtOH (12 mL/mmol-SM) was treated with 3 M aq. HCl (12 equiv.) at room temperature. After being stirred at 70 C. for 3 h, the mixture was cooled to room temperature and basified with 4 M aq. K.sub.2CO.sub.3 (16 equiv.). The immiscible mixture was extracted twice with CHCl.sub.3 and the combined organic phases were washed with brine, dried over MgSO.sub.4, and then concentrated in vacuo. The residue was purified by recrystallization from Et.sub.2O/EtOAc to give 2,5-di-O-n-alkyl-D-mannitol.

Preparation of Methyl 2-O-Alkyl-D-Glycerate

(343) To a 5.5 M solution of 2,5-di-O-alkyl-D-mannitol (1 equiv., SM) in THF-H.sub.2O (9:1) was added NaIO.sub.4 (1.2 equiv.) at room temperature, and the mixture was stirred at 50 C. for 1 h. The resulting inorganic salt was removed by filtration through a pad of silica gel and washed with EtOAc. The filtrate was concentrated in vacuo and the crude aldehyde was used for the next reaction.

(344) To a stirred solution of the residue in t-BuOH (20 mL/mmol-SM) were added 2-methyl-2-butene (100 equiv.) and a solution of 80% NaClO.sub.2 (12 equiv.) and NaH.sub.2PO.sub.4. H.sub.2O (10 equiv.) in H.sub.2O (8 mL/mmol SM) at 0 C. successively. The resulting yellow mixture was allowed to warm to room temperature for 6 h, during which it turned into clear. Then, the mixture was cooled to 0 C. again and treated with 2.5 M aq. Na.sub.2SO.sub.3 (25 equiv.) to reduce an excess of NaClO.sub.2. The mixture was acidified with 10% aq. citric acid (10 mL/mmol-SM) and extracted twice with CHCl.sub.3 and the combined organic phases were washed with brine, dried over MgSO.sub.4, and then concentrated in vacuo. The crude acid was used for the next reaction without further purification.

(345) To a stirred solution of the residue in anhydrous THF-MeOH (1:1, 10 mL/mmol-SM) was treated with 2 M TMSCHN.sub.2 solution in hexanes (3.2 equiv.) at 0 C. After being stirred for 10 min, the resulting yellow mixture was decolorized by an addition of AcOH (3.2 equiv.) to consume an excess of TMSCHN.sub.2. The mixture was concentrated in vacuo and the residue was purified by silica gel chromatography (petroleum ether:EtOAc=4:1 to 3:2) to give methyl 2-O-alkyl-D-glycerate.

(346) Analytical data for S2: .sup.1H-NMR (500 MHz; CDCl.sub.3): 3.99 (dd, J=6.1, 3.8 Hz, 1H), 3.99 (dd, J=6.1, 3.8 Hz, 1H), 3.79 (d, J=14.1 Hz, 4H), 3.73 (q, J=7.9 Hz, 1H), 3.43 (t, J=11.3 Hz, 1H), 1.65-1.62 (m, 2H), 1.35-1.26 (m, 28H), 0.89 (t, J=7.0 Hz, 3H); .sup.13C NMR (125 MHz, CDCl.sub.3): 171.6, 79.8, 71.7, 63.7, 52.3, 32.2, 29.9 (multiple peaks), 29.8, 29.7, 29.6, 26.2, 22.9, 14.4; HRMS (ESI) calcd for C.sub.20H.sub.40O.sub.4Na.sup.+ [M+Na].sup.+ 367.2819, found 367.2823.

(347) Analytical data for S3: .sup.1H NMR (500 MHz; CDCl.sub.3): 5.66 (dd, J=6.0, 2.1, 1H), 5.12-5.07 (m, 2H), 4.26-4.22 (m, 1H), 4.10 (d, J=6.5, 1H), 4.05 (m, 1H), 3.96 (m, 1H), 3.86 (m, 1H), 3.77 (s, 3H), 2.08-1.77 (m, 8H), 1.77 (s, 3H), 1.68 (s, 3H), 1.60 (s, 6H); .sup.13C NMR (125 MHz, CDCl.sub.3): 171.6, 142.5, 136.0, 131.6, 124.5, 123.7, 120.8, 67.2, 63.7, 52.3, 39.9, 32.7, 29.8, 29.7, 26.9, 25.7, 24.1, 23.6, 16.2; HRMS (ESI) calcd for C.sub.19H.sub.32O.sub.4Na.sup.+ [M+Na].sup.+ 347.2193, found 347.2206.

Preparation of 0.2 M Phosphoramidite Solution (S4 and S5)

(348) To a 0.2 M solution of methyl 2-O-alkyl-D-glycerate (1 equiv.) in anhydrous CH.sub.3CN were added N,N-diisopropylethylamine (1.5 equiv.) and ClP(OCE)NiPr.sub.2 (1.2 equiv.) at room temperature successively. The reaction mixture was stirred for 1 h and directly used for the next coupling reaction.

Preparation of S7

(349) To as solution of N-hydroxysuccinimide fluorescein (S6, 15 mg, 21 mol) in DMF (300 L) was added NEt.sub.3 (20 L) and propargyl amine (3.0 mg, 48 mol). After stirring the solution for 24 h the solvent was removed in vacuo and the residue was purified by column chromatography (SiO.sub.2, hexane/EtOAc=2/8) to obtain S7 (11 mg, 27 mol, 84%) as bright orange solid.

(350) .sup.1H NMR (500 MHz, CD.sub.3OD) 8.43 (s, 1H), 8.20 (d, J=9.50 Hz, 1H), 7.31 (d, J=8.0 Hz, 1H), 6.69 (s, 1H), 6.61 (d, J=8.5 Hz, 2H), 6.54 (d, J=9.0 Hz, 2H), 4.59 (s, 1H), 4.21 (d, J=2.0 Hz, 1H), 2.65 (d, J=2.5 Hz, 1H); .sup.13C NMR (500 MHz, CD.sub.3OD) 169.4, 166.8, 152.9, 136.2, 134.4, 129.1, 129.0, 124.7, 123.9, 112.6, 112.2, 109.7, 102.5, 79.3, 78.1, 77.8, 71.2, 29.1.

(351) ##STR00128## ##STR00129##

Synthesis of S9

(352) Saccharide S8 (18.7 g, 49.9 mmol, CAS: 176299-96-0) was dissolved in pyridine (160 mL) and cooled to 40 C. Phenylchlorocarbonate (11 mL) was added drop wise to the stirred solution. After 2 h, methanol (11 mL) and toluene (100 mL) were added and the solvent was removed in vacuum. The residue was taken up in EtOAc and washed with HCl (1 M) and NaCl (sat.). The organic layer was dried over MgSO.sub.4 and the solvent was removed in vacuum. Recrystallization from Et.sub.2O yielded the title compound as colorless solid (18.5 g, 75%).

(353) .sup.1H NMR (500 MHz; CDCl.sub.3): 7.54 (d, J=7.6 Hz, 2H), 7.37-3.35 (d, J=1.9 Hz, 5H), 7.22-7.21 (m, 3H), 7.07 (d, J=9.1 Hz, 2H), 6.83 (d, J=9.1 Hz, 2H), 5.55 (s, 1H), 4.91 (dd, J=10.2 Hz, 3.7 Hz, 1H), 4.85 (d, J=7.8 Hz, 1H), 4.53 (d, J=3.3 Hz, 1H), 4.34-4.31 (m, 2H), 4.05 (d, J=11.5 Hz, 1H), 3.76 (s, 3H), 3.51 (s, 1H), 2.89 (d, J=2.8 Hz, 1H); .sup.13C NMR (125 MHz, CDCl.sub.3): 155.9, 153.6, 151.3, 137.8, 129.7, 129.4, 128.4, 126.6, 126.4, 122.0, 121.3, 119.5, 114.8, 102.8, 101.1, 73.2, 69.1, 68.6, 66.5, 55.9; HRMS (ESI) calcd for C.sub.27H.sub.26O.sub.9Na.sup.+ [M+Na].sup.+ 517.1469, found 517.1506.

Synthesis of S10

(354) Sulfoxide S10 was obtained by oxidation of peracyl-N-Troc-phenyl-(S,O)-glucosamine (CAS: 187022-49-7; 9.00 g, 15.1 mmol) with Selectfluor (6.00 g, 16.8 mmol) in MeCN (105 mL) and water (10.5 mL) at room temperature. The reaction was carried out in an open flask. After 1 h the solvent was removed in vacuum, and the residue was taken up in chloroform, washed with NaCl (sat.) and dried over NaSO.sub.4. After concentration in vacuo the residue was recrystallized from EtOAc/hexane to yield sulfoxide S10 as an off-white solid (9.10 g, 15.5 mmol, 98%; 1/1 mixture of diastereomers).

Synthesis of S11

(355) In a 100 mL round bottom flask, gylcosyl donor S10 (1.50 g, 2.55 mmol), gylcosyl acceptor S9 (840 mg, 1.70 mmol), 2,6-di-tert-butylpyridine (478 mg, 2.50 mmol), and a 4-allyl-1,2-dimethoxybenzene (2.73 g, 15.3 mmol) were combined and dried by azeotropic distillation with benzene. The residue was further dried in vacuum for 30 min before dichloromethane (17 mL) and molecular sieves 3 A (ca. 500 mg) were added. The suspension was stirred at room temperature for 30 min and then cooled to 78 C. Triflic anhydride (285 L, 479 mg, 1.70 mmol) was slowly added and the resulting green solution was stirred for 1.5 h at 78 C. NaHCO.sub.3 (sat., 1 volume) was added, and the mixture was allowed to reach room temperature. The phases were separated, and the organic phase was washed with NaCl (sat.) and dried over Na.sub.2SO.sub.4. Removal of the solvent in vacuum was followed by column chromatography (SiO.sub.2, toluene/EtOAc 8/2.fwdarw.7/3) to yield the title compound as colorless solid (910 mg, 0.951 mmol, 56%).

(356) .sup.1H NMR (500 MHz; CDCl.sub.3): 7.54 (d, J=7.6 Hz, 2H), 7.39-3.37 (d, J=1.9 Hz, 5H), 7.29-7.26 (m, 3H), 7.02 (d, J=9.1 Hz, 2H), 6.80 (d, J=9.1 Hz, 2H), 5.57 (s, 1H), 5.20-5.00 (m, 4H), 5.85-5.78 (m, 3H), 4.59 (br s, 1H), 4.40-4.22 (m, 3H), 4.21-4.19 (m, 1H), 4.16-4.12 (m, 1H), 3.86-3.75 (m, 2H), 3.77 (s, 3H), 3.59 (br s, 1H), 2.01 (s, 3H), 2.01 (s, 3H), 2.00 (s, 3H); .sup.13C NMR (125 MHz, CDCl.sub.3): 170.99, 170.88, 169.6, 155.63, 154.34, 152.75, 151.5, 151.2, 137.6, 128.9, 129.5, 128.5, 126.6, 121.3, 121.2, 118.8, 118.7, 114.7, 101.9, 101.3, 100.9, 76.2, 74.6, 72.9, 72.4, 72.0, 69.1, 68.4, 66.1, 61.8, 55.9, 20.91, 20.86; HRMS (ESI) calcd for C.sub.42H.sub.44Cl.sub.3NO.sub.18Na.sup.+ [M+Na].sup.+ 978.1516, found 978.1472.

Synthesis of S12

(357) Disaccharide S11 (1.06 g, 1.11 mmol) was dissolved in dichloromethane (22.2 mL) and HSiEt3 (530 L, 387 mg, 3.33) and molecular sieves 3 (ca. 500 mg) were added. The suspension was stirred for 30 min at room temperature and then cooled to 78 C. before triflic acid (333 L, 566 mg, 3.77 mmol) was added dropwise. After 2.5 h at 78 C., NaHCO.sub.3 (sat.) was added and the mixture was allowed to reach room temperature. The phases were parted and the aqueous layer was extracted once with dichloromethane. The combined organic layers were washed with brine and dried over Na.sub.2SO.sub.4. Removal of the solvent in vacuum provided the corresponding C6-benzyl ether of S11 in high purity, which was used in the next step without further purification.

(358) The C6-benzyl ether previously obtained (1.15 g, 1.20 mmol) was dissolved in dichloromethane (12 mL) and pyridine (290 L, 284 mg, 3.59 mmol), and the solution was cooled to 40 C. Triflic anhydride (242 L, 406 mg, 1.44 mmol) was slowly added and the mixture was allowed to reach room temperature over 2 h. The reaction mixture was washed with 2 volumes of 0.5 M HCl, water, NaHCO.sub.3 (sat.), and NaCl (sat), and then dried over Na.sub.2SO.sub.4. The solvent was removed in vacuum and the residue was dissolved in toluene (30 mL), and CsOAc (830 mg, 5.48 mmol) and 18-crown-6 (1.21 g, 4.58 mmol) were added. The resulting mixture was vigorously stirred for 14 h and then washed with NaHCO.sub.3 (sat.) and NaCl (sat.). The residue obtained after drying of the solution over Na.sub.2SO.sub.4 and removal of the solvent in vacuum was purified by column chromatography (SiO.sub.2, toluene/EtOAc 85/15) to obtain S12 as colorless solid (668 mg, 667 mol, 55% over 3 steps).

(359) .sup.1H NMR (500 MHz; CDCl.sub.3): 7.41-7.38 (m, 2H), 7.27 (s, 8H), 7.00 (d, J=9.0 Hz, 2H), 6.80 (d, J=8.50 Hz, 2H), 5.31 (t, J=9.6, 1H), 5.20-5.18 (m, 2H), 5.14-5.05 (m, 4H), 5.01 (d, J=8.1, 1H), 4.68 (d, J=12.0, 1H), 4.56 (d, J=11.8, 1H), 4.47 (d, J=11.9, 1H), 4.27 (d, J=12.2, 1H), 4.18 (dd, J=11.9, 3.4, 1H), 4.07 (td, J=8.2, 1.4, 1H), 3.77 (s, 3H), 3.67-3.60 (m, 3H), 3.59-3.57 (m, 1H), 2.01 (s, 3H), 2.01 (s, 3H), 2.00 (s, 3H), 1.95 (s, 3H); .sup.13C NMR (125 MHz, CDCl.sub.3): 170.93, 170.86, 170.11, 169.7, 155.69, 154.21, 153.32, 151.23, 151.12, 138.10, 137.91, 129.84, 129.27, 128.61, 128.46, 128.03, 127.98, 126.55, 125.52, 121.27, 118.12, 114.82, 114.79, 101.14, 100.44, 95.67, 79.60, 78.88, 74.53, 73.81, 73.22, 72.13, 72.00, 69.56, 68.81, 68.46, 61.72, 56.72, 55.91, 21.70, 20.91, 20.85, 20.81; HRMS (ESI) calcd for C.sub.44H.sub.48Cl.sub.3NO.sub.19Na.sup.+ [M+Na].sup.+ 1022.1779, found 1022.1766.

Synthesis of S13

(360) In a 100 ml round bottom flask, disaccharide S12 (283 mg, 283 mol) was dissolved in methanol (20 mL), and 10% Pd/C (100 mg) was added. The atmosphere above the solution was exchanged to H.sub.2, and the solution was stirred vigorously. After 45 min the suspension was filtered through celite and the filtrate was concentrated in vacuo. The residue was dissolved in dichloromethane (3.4 mL) and water (1.7 mL), and PhI(OAc).sub.2 (237 mg, 756 mol) and TEMPO (9.0 mg, 57 mol) were added. After stirring the mixture for 2 h, the reaction was quenched by addition of Na.sub.2S.sub.2O.sub.3 (sat.) and the solution was partitioned between dichloromethane and water. The organic layer was washed with NaCl (sat.) and dried over Na.sub.2SO.sub.4. The solvent was removed in vacuo, and the residue was taken up in THF (5.7 mL). This solution was cooled to 40 C., N-methylmorpholine (78 L, 72 mg, 0.71 mmol) was added and the mixture was treated with isobutyl chloroformate (93 L, 97 mg, 0.71 mmol). After 5 min, NH.sub.3 (2.0 M in .sup.iPrOH) was added and the mixture was stirred at room temperature for 24 h. Removal of the solvent in vacuum and column chromatography (SiO.sub.2, CHCl.sub.3/EtOH 99/1.fwdarw.95/5.fwdarw.9/1) yielded the title compound as colorless flakes (111 mg, 131 mol, 46% over 3 steps).

(361) .sup.1H NMR (500 MHz; CDCl.sub.3/CD.sub.3OD 9/1): 6.92 (d, J=8.9, 2H), 6.76 (d, J=9.0, 2H), 5.22 (t, J=9.9, 1H), 5.16-5.12 (m, 2H), 4.98 (dd, J=10.0, 2H), 4.90 (d, J=8.4, 1H), 4.87 (d, J=12.1, 1H), 4.49 (d, J=12.1, 1H), 4.09 (dd, J=12.3, 3.7, 1H), 3.99 (d, J=8.9, 1H), 3.88 (t, J=7.1, 1H), 3.78 (d, J=11.6, 1H), 3.71 (s, 3H), 3.62 (d, J=9.9, 1H), 3.55-3.48 (m, 5H), 2.00 (s, 3H), 1.94 (s, 3H), 1.93 (s, 3H), 1.92 (s, 3H); .sup.13C NMR (125 MHz, CDCl.sub.3/CD.sub.3OD 9/1): 171.20, 170.92, 170.6, 170.3, 170.0, 156.4, 155.8, 154.8, 150.7, 118.3, 114.9, 101.1, 100.1, 95.8, 79.4, 74.5, 73.9, 72.4, 71.8, 69.6, 68.7, 61.9, 56.5, 55.8, 49.7, 49.5, 49.4, 49.2, 48.9, 48.7, 20.7, 20.7; HRMS (ESI) calcd for C.sub.31H.sub.38Cl.sub.3N.sub.3O.sub.18Na.sup.+ [M+Na].sup.+ 868.1109, found 868.1067.

Synthesis of S14

(362) Disaccharide S13 (167 mg, 187 mol) was dissolved in MeCN (8 mL) and water (2 mL), and cerium(IV) ammonium nitrate (542 mg, 989 mol) was added. The mixture was stirred at room temperature for 1.5 h and then concentrated in vacuo. Purification of the residue by column chromatography (SiO.sub.2, CHCl.sub.3/EtOH 9/1->4/1) gave the lactol of S13 as colorless solid (115 mg, 79%). This lactol (42.9 mg, 57.9 mol) was further dried by azeotropic distillation with toluene (2), dissolved in tetrazole solution (0.34 M in MeCN, 1.0 mL), and stirred with molecular sieves 3 for 30 min at room temperature and 30 min at 0 C. A solution of S4 (0.2 M in MeCN, 0.58 mL) was added and the mixture was stirred at 0 C. for 2 h before .sup.tBuOOH (5.5 M in decane, 127 L, 699 mol) was added. After 1 h at 0 C. P(OMe).sub.3 (82 L, 86 mg, 695 mol) was added and the suspension was filtered through a pad of celite. Evaporation of the solvent in vacuo and column chromatographic purification (C18, gradient 30-100% MeCN/H.sub.2O) of the residue gave phosphoglycerate S14 (32.5 mg, 27.1 mol, 47%) as colorless solid as a 1/1 mixture of phosphate diastereomers.

(363) analytical data for one diastereomer: .sup.1H NMR (500 MHz; CD.sub.3OD): 6.03 (dd, J=6.3, 3.2, 1H), 5.27-5.20 (m, 3H), 5.07 (t, J=9.7, 1H), 5.02 (d, J=12.3, 1H), 4.78 (d, J=8.5, 1H), 4.61 (d, J=12.3, 1H), 4.46-4.42 (m, 4H), 4.45-4.41 (m, 4H), 4.22 (dd, J=12.3, 2.2, 1H), 4.00 (dd, J=6.9, 3.3, 1H), 3.87-3.83 (m, 2H), 3.82 (s, 3H), 3.72-3.65 (m, 2H), 3.59-3.55 (m, 1H), 3.01 (t, J=6.0, 2H), 2.10 (s, 3H), 2.04 (s, 3H), 2.01 (s, 3H), 1.96 (s, 3H), 1.66 (t, J=7.2, 2H), 1.30 (s, 28H), 0.91 (t, J=7.0, 3H); HSQC (.sup.13C signals, 125 MHz, CD.sub.3OD): 102.7, 97.2; 77.9, 77.6, 74.2, 74.1, 72.2, 72.0, 71.5, 71.4, 70.4, 70.3, 69.5, 68.8, 68.2, 68.1, 63.6, 61.9, 61.8, 55.6, 51.8, 48.1, 31.6, 29.6 (multiple peaks), 25.8, 22.5, 19.6, 19.3, 19.3, 19.3, 18.9, 13.2; .sup.31P (162 MHz; CD.sub.3OD): 3.16; HRMS (ESI) calcd for C.sub.47H.sub.74Cl.sub.3N.sub.4O.sub.23PNa.sup.+ [M+Na].sup.+ 1223.3410, found 1223.3337.

Synthesis of S15

(364) To a solution of phosphoglycerate S14 (113 mg, 94.2 mol) in THF (3 mL), Ac.sub.2O (1 mL), and AcOH (2 mL) was added activated Zn (653 mg, 9.99 mmol), and the solution was stirred at room temperature for 10 h. The slurry was filtered through a pad of SiO.sub.2 and the residue was thoroughly washed with CHCl.sub.3/EtOH 2/1 (100 mL). The filtrate was concentrated, and the residue was dissolved in THF (19 mL), H.sub.2O.sub.2(30%, 4.8 mL) LiOH solution (1 M, 1.9 mL). After stirring the solution at 0 C. for 2 h, DOWEX50WX.sub.2-100 resin (HPy+ form, 0.8 g) was added, and the mixture was stirred for 2 h. The resin was filtered off by passing the reaction mixture through a cotton plug. Chromatographic purification (C18, gradient 20-50% MeCN in 0.2% NH.sub.4HCO.sub.3) of the residue obtained after concentration of the filtrate yielded disaccharide S15 (50.7 mg, 61.0 mol, 63%).

(365) HPLC/MS retention time: 11.9 min (Phenomenex Luna, 3u-C18 502 mm.sup.2 3 micron, 0.3 mL/min, gradient 30-75% MeCN+0.1% HCO.sub.2H in H.sub.2O+0.1% HCO.sub.2H over 6 min, then to 99% MeCN+0.1% HCO.sub.2H over 5 min) LRMS (ESI) calcd for C.sub.34H.sub.61N.sub.3O.sub.18P.sup. [MH].sup. 830.4, found 830.3; .sup.1H NMR (500 MHz; CD.sub.3OD): 5.98 (dd, J=7.1, 3.1, 1H), 5.05 (t, J=9.7, 1H), 4.58 (d, J=8.4, 1H), 4.36 (d, J=10.0, 1H), 4.26-4.22 (m, 1H), 4.18-4.08 (m, 1H), 4.00-3.96 (m, 1H), 3.87-3.84 (m, 1H), 3.76-3.71 (m, 3H), 3.71 (s, 3H), 3.68-3.64 (m, 3H), 3.53-3.47 (m, 3H), 3.36-3.29 (m, 4H), 2.04 (s, 3H), 1.66-1.64 (m, 2H), 1.30 (s, 28H), 0.91 (t, J=7.0, 3H); .sup.13C NMR (125 MHz, CD.sub.3OD): ; 175.6, 173.0, 158.2, 103.0, 95.5, 79.6, 76.9, 74.5, 73.2, 71.4, 70.8, 70.6, 70.5, 70.2, 66.9, 66.8, 61.6, 61.1, 59.9, 56.1, 31.9, 29.6, 29.6, 29.5, 29.3, 26.0, 22.6, 22.2, 13.3; .sup.31P (162 MHz; D.sub.6-DMSO): 2.31; HRMS (ESI) calcd for C.sub.34H.sub.63N.sub.3O.sub.18P.sup.+ [M+H].sup.+ 832.3839, found 832.7735.

Synthesis of S16 (CMG121)

(366) To a solution of TRIS (50 mM in H.sub.2O, pH=8.0, 2.5 mL) were sequentially added MnCl.sub.2 (50 mM in H.sub.2O, 2.5 mL), H.sub.2O (5 mL), GalT Y289L (Ramakrishanan et al. J. Biol. Chem. 2002, 277, 20833; 1 mg/mL in 50 mM TRIS buffer, pH=8.0, 1.88 mL,), UDP-N-azidoacetylgalactosamine (UDP-GalNAz, prepared according to Hang et al. J. Am. Chem. Soc. 2003, 126, 6; 20 mM in H.sub.2O, 500 L), disaccharide S15 (10 mM in H.sub.2O, 125 L), and calf intestinal alkaline phosphatase (CIP, 1000 U, 25 L, Roche Diagnostics GmbH, Mannheim, Germany). The mixture was gently mixed and kept at 37 C. for 60 h. MeOH (7.5 mL) was added, and the mixture was vortexed and centrifuged (15 min at 5000g) to pellet precipitated proteins. The supernatant was concentrated in vacuo, and the residue obtained was loaded onto a Phenomenex Strata C-18 column preequilibrated with H.sub.2O. The column was eluted with H.sub.2O to obtain unreacted UDP-GalNAz. Elusion with H.sub.2O/MeOH 1/9 provided the desired trisaccharide in near quantitative yield.

(367) HPLC retention time: 11.0 min (Phenomenex Luna, 3u-C18 502 mm.sup.2 3 micron, 0.3 mL/min, gradient 30-75% MeCN+0.1% HCO.sub.2H in H.sub.2O+0.1% HCO.sub.2H over 6 min, then to 99% MeCN+0.1% HCO.sub.2H over 5 min) LRMS (ESI) calcd for C.sub.42H.sub.73N.sub.7O.sub.23P.sup. [MH].sup. 1074.5, found 1074.3.

(368) The GalNAz-trisaccharide previously obtained (4.0 mg, 3.8 mol) was dissolved in DMF (400 L) and CuSO.sub.4 (0.9 M in H.sub.2O, 4.0 L, 3.6 mol) and Na-ascorbate (1.8 M in H.sub.2O, 4.0 L, 7.2 mol) were added. The mixture was stirred at room temperature, and after 24 h another portion of CuSO.sub.4 (0.9 M in H.sub.2O, 4.0 L, 3.6 mol) and Na-ascorbate (1.8 M in H.sub.2O, 4.0 L, 7.2 mol) was added. After 48 the solution was concentrated in vacuo and the residue was purified by column chromatography (C-18, gradient 30-90% MeOH in H.sub.2O; then 10% 2M NH.sub.3 in MeOH to elute the product) to obtain the title compound (4.9 mg, 3.3 mol, 87%).

(369) HPLC/MS retention time: 10.8 min (Phenomenex Luna, 3u-C18 502 mm.sup.2 3 micron, 0.3 mL/min, gradient 30-75% MeCN+0.1% HCO.sub.2H in H.sub.2O+0.1% HCO.sub.2H over 6 min, then to 99% MeCN+0.1% HCO.sub.2H over 5 min); LRMS (ESI) calcd for C.sub.66H.sub.88N.sub.8O.sub.29P.sup. [MH].sup. 1487.5, found 1487.3; .sup.1H NMR (600 MHz; CD.sub.3OD): 8.51 (s, 1H), 8.28-8.27 (m, 1H), 8.11 (s, 1H), 7.35 (d, J=7.5, 1H), 6.72 (m, 2H), 6.65 (d, J=8.5, 2H), 6.60-6.59 (m, 2H), 6.01 (br s, 1H), 5.29 (br s, 1H), 5.05 (t, J=6.8, 1H), 4.77 (m, 2H), 4.61-4.56 (m, 2H), 4.38 (d, J=7.5, 1H), 4.29-4.25 (m, 2H), 4.15-4.05 (m, 2H), 4.05-3.99 (m, 2H), 3.86-3.76 (m, 4H), 3.76-3.60 (m, 13H), 3.48 (br s, 1H), 2.02 (s, 3H), 1.65-1.64 (m, 6H), 1.48-1.42 (m, 12H), 1.31 (m, 38H), 0.92 (t, J=5.4, 3H); HSQC (.sup.13C signals, 125 MHz, CD.sub.3OD): 129.1, 124.1, 112.9, 102.4, 102.3, 79.5, 75.8, 75.0, 73.3, 73.0, 71.5, 71.2, 70.5, 70.0, 68.3, 67.0, 61.2, 53.4, 52.0, 35.1, 31.8, 29.5, 26.0, 23.5, 22.6, 21.9, 13.1; HRMS (ESI) calcd for C.sub.66H.sub.90N.sub.8O.sub.29P.sup.+ [M+H].sup.+ 1489.5546, found 1489.5420.

(370) ##STR00130##

Synthesis of S17

(371) Disaccharide S11 (650 mg, 679 mol) was dissolved in dichloromethane (13.6 mL) and HSiEt.sub.3 (325 L, 237 mg, 2.04 mmol) and molecular sieves 3 (ca. 250 mg) were added. The suspension was stirred for 30 min at room temperature and then cooled to 78 C. before triflic acid (204 L, 347 mg, 2.31 mmol) was added dropwise. After 2.5 h at 78 C., NaHCO.sub.3 (sat.) was added and the mixture was allowed to reach room temperature. The phases were parted and the aqueous layer was extracted once with dichloromethane. The combined organic layers were washed with brine and dried over Na.sub.2SO.sub.4. Removal of the solvent in vacuo provided the corresponding C6-benzyl ether of S11 in high purity, which was dissolved in dichloromethane (3.4 mL), and pyridine (164 L, 161 mg, 2.04 mmol), DMAP (8.3 mg, 0.07 mmol), and Ac.sub.2O (94 L, 104 mg, 1.02 mmol) were added. After 3 h at room temperature the reaction was diluted with dichloromethane and washed with HCl (1 M), H.sub.2O, NaHCO.sub.3 (sat.), and NaCl (sat.). The organic layers were dried over Na.sub.2SO.sub.4 and then concentrated in vacuo. Purification of the residue yielded acetate S17 (539 mg, 538 mol, 79% over 2 steps) as colorless solid.

(372) .sup.1H NMR (500 MHz; CDCl.sub.3): 7.39 (t, J=7.8, 2H), 7.34-7.25 (m, 8H), 7.01 (d, J=9.0, 2H), 6.79 (d, J=9.0, 2H), 5.64 (d, J=2.5, 1H), 5.26 (t, J=10.1, 1H), 5.14-5.10 (m, 2H), 5.01 (d, J=7.2, 1H), 4.90-4.88 (m, 2H), 4.81 (d, J=12.2, 1H), 4.56 (d, J=12.0, 1H), 4.44 (d, J=12.0, 1H), 4.29 (d, J=12.2, 1H), 4.23 (dd, J=12.2, 3.3, 1H), 4.11 (dd, J=9.8, 7.7, 1H), 3.94 (t, J=6.4, 1H), 3.90-3.86 (m, 2H), 3.77 (s, 3H), 3.70-3.66 (m, 2H), 3.59-3.55 (m, 2H), 2.11 (s, 3H), 2.03 (s, 3H), 2.02 (s, 3H), 2.01 (s, 3H); .sup.13C NMR (125 MHz, CDCl.sub.3): 171.1, 170.9, 170.5, 169.6, 155.7, 154.2, 152.7, 151.5, 151.2, 138.1, 137.7, 129.8, 129.3, 128.7, 128.5, 128.2, 128.1, 126.6, 125.6, 121.5, 118.3, 114.8, 101.9, 100.8, 95.7, 74.5, 73.8, 72.1, 72.0, 68.4, 67.7, 67.2, 61.8, 56.9, 55.9, 21.0, 20.9, 20.8, 20.8; HRMS (ESI) calcd for C.sub.44H.sub.48Cl.sub.3NO.sub.19Na.sup.+ [M+Na].sup.+ 1022.1779, found 1022.1707.

Synthesis of S18

(373) In a 10 mL roundbottom flask S17 (56.4 mg, 56.3 mol) was dissolved in a solution of 1% trichloroacetic acid in methanol (2.8 mL, 2.4 equiv. of TCA), 10% Pd/C (11.9 mg) was added and the atmosphere above the solution was exchanged to H.sub.2. After stirring for 15 min the solution was filtered through a pad of Celite and poured into NaHCO.sub.3 (sat.). The mixture was extracted with EtOAc (2), washed with NaCl (sat.), and dried over MgSO.sub.4. Evaporation of the solvent in vacuum yielded the free C6-alcohol in quantitative yield.

(374) The alcohol previously obtained (51.3 mg, 56.3 mol) was dissolved in dichloromethane (0.2 mL) and water (0.1 mL). After addition of TEMPO (1.8 mg, 1.2 mol) and diacetoxy iodobenzene (45.0 mg, 140 mol) the mixture was stirred at room temperature for 1.5 h. Na.sub.2S.sub.2O.sub.3 (sat.) solution was added, and the reaction mixture was extracted with EtOAc (2). The combined organic layers were washed with NaCl (sat.) and dried over MgSO.sub.4. The residue obtained after concentration of the solution in vacuum was purified by column chromatography (SiO.sub.2, petrol ether/EtOAc/1% AcOH 2/1.fwdarw.1/4) to obtain pure C6-carboxylic acid (36.8 mg, 39.8 mol, 71% over 2 steps).

(375) The C6-carboxylic acid (22.0 mg, 23.8 mol) was dissolved in THF (0.6 mL) and N-methyl-morpholine (5.2 L, 47 mol), and the solution was cooled to 30 C. before isobutylchloroformate (6.2 L, 47 mol) was added. After 30 min the turbid mixture was treated with 7M NH.sub.3 solution in MeOH (14 L) and stirred at 0 C. for another 30 min. The mixture was poured into NH.sub.4Cl and extracted with EtOAc (2). The organic layers were washed with NaCl (sat.) and dried over MgSO.sub.4 before they were concentrated in vacuo. Column chromatographic purification of the residue (SiO.sub.2, petroleum ether/EtOAc 2/1.fwdarw.1/4) gave S18 as colorless solid (21.8 mg, 23.6 mol, 99%).

Synthesis of S19

(376) Deprotection of the PMP group was achieved by treatment of a solution of S18 (21.8 mg, 23.8 mol) in MeCN (1.2 mL) and water (0.3 mL) with cerium (IV) ammonium nitrate (40.2 mg, 73.3 mol). After stirring at room temperature for 1 h the mixture was concentrated in vacuo, and the residue was purified by column chromatography (SiO.sub.2, CHCl.sub.3/MeOH 98/2.fwdarw.95/5) to give the free lactol as colorless solid (12.8 mg, 15.6 mol, 66%). This material was dried by azeotropic distillation with toluene (2), dissolved in a solution of tetrazole in MeCN (0.34 M, 0.28 mL), and molecular sieves 3 (43 mg) were added. The mixture was stirred at room temperature for 15 min and then cooled to 0 C. before a solution of S5 was added (0.2 M in MeCN, 0.15 mL). After 1 h at 0 C., .sup.tBuOOH (5.5 M in decane, 23 L) was added, and the suspension was stirred for another hour before P(OMe).sub.3 (22 L, 186 mol) was added. The mixture was filtered over Celite, and the residue was concentrated in vacuo. Purification of the residue by column chromatography (SiO.sub.2, CHCl.sub.3/MeOH 97/3.fwdarw.96/4) gave S19 as colorless solid as a mixture of phosphate diastereomers (16.0 mg, 12.7 mol, 81%).

Synthesis of S20

(377) Phosphoglycerate S19 (7.6 mg, 6.0 mol) was dissolved in a mixture of THF (0.3 mL), Ac.sub.2O (0.1 mL), and AcOH (0.2 mL) and activated zinc (70.1 mg) was added in portions over the course of 1.5 d. The suspension was filtered through a pad of Celite, concentrated in vacuo, and subjected to column chromatography (SiO.sub.2, CHCl.sub.3/MeOH 96/4). The product obtained was dissolved in a mixture of THF (0.66 mL), MeOH (0.22 mL), and H.sub.2O (0.22 mL) and LiOH (1 M in H.sub.2O, 66 L, 66 mol) was added. After stirring at room temperature for 1.5 h, AcOH (4 L, 7 mol) was added, and the solution was concentrated in vacuo. Purification of the residue by column chromatography (C18, gradient 25-75% MeOH in H.sub.2O+0.1% AcOH) gave S20 (3.3 mg, 4.3 mol, 71% over 2 steps) as colorless solid.

Synthesis of S21

(378) To a solution (2 mL) containing HEPES (50 mM, pH=7.5), NaCl (100 mM), MnCl.sub.2 (1 mM), S20 (1 mM), UDP-N-azidoacetylgalactosamine (UDP-GalNAz, prepared according to Hang et al. J. Am. Chem. Soc. 2003, 126, 6; 2 mM) were added calf intestinal alkaline phosphatase (1000 U, 5 L, Roche Diagnostics GmbH, Mannheim, Germany) and GalT Y289L (Ramakrishanan et al. J. Biol. Chem. 2002, 277, 20833, 150 g), and the mixture was incubated at 37 C. for 2 h. The reaction was quenched by precipitation of the proteins by addition of MeOH (4 mL), was centrifuged, and the supernatant was passed over a 30 mg Strata-X C18 column (Phenomenex). The column was eluted with water (2 mL) to rinse off salts, UMP, and UDP-GalNAz, and the desired trisaccharide S21 was eluted with MeOH/H.sub.2O 8/2. The material obtained was directly used in the next reaction.

Synthesis of S22

(379) Azide S21 (3.8 mg, 3.8 mol) was dissolved in a mixture of MeOH (210 L), water (10 L), and HOAc (2 M, 2 L) and Pd(OH).sub.2/C (1 mg) was added. The atmosphere above the solution was exchanged for H.sub.2, and the mixture was stirred vigorously for 48 h. The mixture was filtered over a plug of celite, the residue was thoroughly washed with MeOH/H.sub.2O 4/1, and the filtrate was concentrated in vacuo. The residue obtained was suspended in DMF (76 L) and treated with diisopropylethylamine (5.3 L) and fluorescein isothiocyanate (1.7 mg, 4.6 mol). After 16 h at room temperature, the solution was concentrated in vacuum, and the residue was purified by column chromatography (SiO.sub.2, CHCl.sub.3/MeOH+0.1% AcOH 9/1.fwdarw.8/2; then CHCl.sub.3/MeOH/H.sub.2O 60/40/8) to obtain the title compound (2.0 mg, 1.5 mol, 40% over 2 steps) as orange solid.

(380) HPLC/MS retention time: 11.6 min (Phenomenex Luna, 3u-C18 502 mm.sup.2 3 micron, 0.3 mL/min, gradient 25-45% MeCN+0.1% HCO.sub.2H in H.sub.2O+0.1% HCO.sub.2H over 6 min, then to 99% MeCN+0.1% HCO.sub.2H over 6.5 min); LRMS (ESI) calcd for C.sub.61H.sub.77N.sub.5O.sub.27PS.sup. [MH].sup. 1374.4, found 1374.3; HRMS (ESI) calcd for C.sub.61H.sub.79N.sub.5O.sub.27PS.sup.+ [M+H].sup.+ 1376.4416, found 1376.4224.

(381) Assay Development

(382) Enzyme Titration with Probe S16 (CMG121)

(383) Solution containing 10 mM TRIS (pH=8.0), 100 mM NaCl, 0.3% DMSO, 75 nM S16, and bacterial glycosyltransferase (E. coli PBP1b c=2.2 uM; E. faecalis PBP2a c=5.1 uM; S. aureus SgtB c=2.1 uM) were allowed to equilibrate for 30 min at 0 C. and then serially diluted (1/1 dilutions) into buffer containing 10 mM TRIS (pH=8.0), 100 mM NaCl, 0.3% DMSO, and 75 nM S16. After equilibration at 0 C. for 30 min the 20 L of the solutions were transferred to a black 384 well plate (Corning NBS Low Volume) and fluorescence polarization (FP, ex: 480 nm; em: 535 nm) was measured using a Perkin Elmer Envision microplate reader. Each series was performed in duplicate and the data was plotted FP vs. concentration of enzyme. For determination of the KD, the average FP values were converted to fluorescence anisotropy and fitted to the standard equation describing an equilibrium L+E<->LE (L=ligand; E=enzyme; LE=ligand enzyme complex) using GraphPad Prism 5.0 (GraphPad Software, Inc.; La Jolla, Calif., USA). The K.sub.D values for probe S16 are: E. coli PBP1b: 0.15; E. faecalis PBP2a: 0.38;

(384) S. aureus SgtB: 0.18. Probe CMG121 (75 nM) is displaced from S. aureus SgtB (0.2 M) by addition of either moenomycin or the weaker PGT inhibitor disaccharide S15, as evidenced by reduction of FP. Ki (1)=0.64 M; Ki (3)=3.17 M. As used herein, mP: millipolarization; KD: dissociation constant; Ki: inhibitor constant. The IC.sub.50 values for probe S16 are E. coli PBP1b: 600 nM; S. aureus SgtB: 31 nM.

(385) Solution containing 10 mM TRIS (pH=8.0), 100 mM NaCl, 0.3% DMSO, 75 nM Probe CMG121, and bacterial glycosyltransferase (E. coli PBP1b c=2.2 uM; E. faecalis PBP2a c=5.1 uM; S. aureus SgtB c=2.1 uM) were allowed to equilibrate for 30 min at 0 C. and then serially diluted (1/1 dilutions) into buffer containing 10 mM TRIS (pH=8.0), 100 mM NaCl, 0.3% DMSO, and 75 nM Probe CMG121. After equilibration at 0 C. for 30 min the 20 L of the solutions were transferred to a black 384 well plate (Corning NBS Low Volume) and fluorescence polarization (FP, ex: 480 nm; em: 535 nm) was measured using a Perkin Elmer Envision microplate reader. Each series was performed in duplicate and the data was plotted FP vs. concentration of enzyme. For determination of the KD, the average FP values were converted to fluorescence anisotropy and fitted to the standard equation describing an equilibrium L+E<->LE (L=ligand; E=enzyme; LE=ligand enzyme complex) using GraphPad Prism 5.0 (GraphPad Software, Inc.; La Jolla, Calif., USA). The K.sub.D values for probe S16 are

(386) Validation of the Essay

(387) To equilibrated solutions containing 10 mM TRIS (pH=8.0), 100 mM NaCl, 75 nM S16, and bacterial glycosyltransferase (E. coli PBP1b c=0.1-0.15 uM; E. faecalis PBP2a c=0.38-0.46 uM; S. aureus SgtB c=0.2-0.25 uM) was added the test compound in DMSO or DMSO/H.sub.2O solutions (stock solutions were typically 2 mM) to obtain a final concentration of test compound of ca. 200 uM. These solutions were serially diluted (1/1 dilutions) into buffer containing 10 mM TRIS (pH=8.0), 100 mM NaCl, 75 nM Probe CMG121, and bacterial glycosyl transferase (E. coli PBP1b c=0.1-0.15 uM; E. faecalis PBP2a c=0.38-0.46 uM; S. aureus SgtB c=0.2-0.25 uM). After equilibration at 0 C. for 30 min the 20 L of the solutions were transferred to a black 384 well plate (Corning NBS Low Volume) and fluorescence polarization (FP, ex: 480 nm; em: 535 nm) was measured using a Perkin Elmer Envision microplate reader. Each series was performed in duplicate and the data was plotted FP vs. concentration of test compound.

(388) Determination of Z-value (Zhang et al. J. Biomol. Screen 1999, 4, 67-73.)

(389) Using a Matrix WellMate, a black 384 well plate (Corning NBS Low Volume) was filled (10 L per well) with equilibrated solutions containing 10 mM TRIS (pH=8.0), 100 mM NaCl, 75 nM S16, and bacterial glycosyltransferase (E. coli PBP1b c=0.2 uM; E. faecalis PBP2a c=0.46 uM; S. aureus SgtB c=0.25 uM). From a second 384 well plate, filled half with DMSO and half with 10 mM disaccharide S15, 100 nL were transferred to the test plate by pin transfer. After 10 min at room temperature fluorescence polarization (FP, ex: 480 nm; em: 535 nm) was measured using a Perkin Elmer Envision microplate reader. The following Z-values were obtained and were stable over a period of at least 30 min:

(390) E. coli PBP1b: 0.70

(391) E. faecalis PBP2a: 0.58

(392) S. aureus SgtB: 0.64

(393) Protocol for High-Throughput Screening

(394) Assay solutions consisted of: 1.0-1.5 M S. aureus TM SgtB (depending on protein batch), 75 nM probe CMG121, 10 mM Tris pH 8.0, 100 mM NaCl. The assay was carried out in 384-well plates (Corning 3820) dispensing 10 L of assay solution per well, followed by pin transfer of 100 nL of each experimental compound from library plates by a stainless steel pin array. The assay was subsequently adapted to 1536-well plates (Greiner 782076), which were filled with 3 L assay solution per well, followed by a 33 nL pin transfer of experimental compounds. The final concentration of pertubator was ca. 100 M. A solution containing 1.0-1.5 M S. aureus TM SgtB (depending on protein batch), 75 nM probe CMG121, 10 mM Tris pH 8.0, 100 mM NaCl and 20 M moenomycin A was used as positive control. All wells in row 24 (384-well plate) or rows 47 and 48 (1536-well plate) were filled with 10 L (384-well plate) or 3 L (384-well plate) of this solution, respectively. Assay plates were incubated for 30 minutes at 4 C. after the addition of experimental compounds and then read on a PerkinElmer EnVision microplate reader (Excitation: 480 nm, Emission: 535 nm). Library plates were screened in duplicate, with both assay plates in a given set prepared on the same day.

(395) For each plate, an adjusted FP threshold value was calculated using the formula: [plate average negative control FP0.9*(average negative control FPaverage positive control FP)]. Wells were considered positive if FP for both replicates was <threshold value (10% of the adjusted plate average negative control FP) and fluorescence intensity was below detector saturation.

(396) Protocol for Secondary Assay

(397) A black 384 well plate (Corning NBS Low Volume No. 3820) was filled (10 L per well) with an equilibrated solution containing 10 mM TRIS (pH=8.0), 100 mM NaCl, 75 nM disaccharide S15, and 1.0-1.5 M S. aureus SgtB (depending on protein batch). Using an HP D300 Digital Dispenser, for each compound a 1/1 dilution series (12 wells) of the primary hit compound in DMSO (normalized to 1 L with DMSO) was prepared and added to the aforementioned assay solution. The plate was incubated at 4 C. for 30 min and read with an Perkin Elmer EnVision microplate reader as described above. The dilution series was performed in duplicate.

(398) For determination of the K.sub.i, the average FP values were first converted to fluorescence anisotropy. Using GraphPad Prism 5.0 (GraphPad Software, Inc.; La Jolla, Calif., USA), this data was fitted to the equation describing the competition for two ligands for a common binding site:

(399) $\frac{\left[\mathrm{RL}\right]}{\left[R\right]}=\frac{1}{1+\frac{K_D}{\left[L\right]}\left(1+\frac{\left[A\right]}{K_i}\right)}$
[RL]: conc. of receptor-ligand complex; [A]: conc. of test compound; [L]: conc. of probe=75 nM; K.sub.D: dissociation constant for the probe compound (determined above)
In vitro PGT Inhibition Assays (Chen et al., Proc. Natl. Acad. Sci. USA 2003, 100, 5658-5663; Wang et al., J. Am. Chem. Soc. 2011, 133, 8528-8530)
In Vitro Inhibition of S. aureus SgtB:

(400) A solutions of S. aureus SgtB (50 nM) in 12.5 mM HEPES (pH=7.5), 2 mM MnCl.sub.2, and 250 M tween-80 (8 L) were incubated with DMSO solutions containing the inhibitor of interest in different concentrations (1 L) for 20 min. Then .sup.14C-labelled lipid II (1 L, 40 M, .sup.14C/.sup.12C 1/3) was added and the polymerization reaction was allowed to proceed for 25 min at room temperature. The reaction was quenched with 10 L of a solution of moenomycin (1 M) in 10% triton-X reduced and the remaining lipid II was separated from peptidoglycan (PG) using paper strip chromatography (isobutyric acid/1M NH.sub.4OH 5/3). Using a scintillation counter the ratio of radioactivity in PG to total radioactivity was determined and plotted vs. inhibitor concentration. IC.sub.50s were determined using the curve fitting program GraphPad Prism 5.0 (GraphPad Software, Inc.; La Jolla, Calif., USA).

(401) In Vitro Inhibition of S. aureus PBP2:

(402) Solutions of S. aureus PBP2 (1.2 M) in 50 mM HEPES (pH=5.0), 50 mM CHES, 50 mM AcOH, 10 mM CaCl.sub.2, 50 mM MES, and 1000 U/min PenG (8 L) were incubated with DMSO solutions containing the inhibitor of interest in different concentrations (1 L) for 20 min. Then .sup.14C-labelled lipid II (1 L, 40 M, .sup.14C/.sup.12C 1/3) was added and the polymerization reaction was allowed to proceed for 25 min at room temperature. The reaction was quenched and processed as described above.

(403) In Vitro Inhibition of E. coli PBP1b and E. faecalis PBP2a

(404) Solutions of the PGT (50 nM) in 50 mM HEPES (pH=7.5), 10 mM CaCl.sub.2, and 1000 U/min PenG (8 L) were incubated with DMSO solutions containing the inhibitor of interest in different concentrations (1 L) for 20 min. Then .sup.14C-labelled lipid II (1 L, 40 M, .sup.14C/.sup.12C 1/3) was added and the polymerization reaction was allowed to proceed for 25 min at room temperature. The reaction was quenched and processed as described above.

Other Embodiments

(405) This application refers to various issued patents, published patent applications, journal articles, books, manuals, and other publications, all of which are incorporated herein by reference.

(406) The foregoing written specification is considered to be sufficient to enable one skilled in the art to practice the invention. The present invention is not to be limited in scope by examples provided, since the examples are intended as a single illustration of one aspect of the invention and other functionally equivalent embodiments are within the scope of the invention. Various modifications of the invention in addition to those shown and described herein will become apparent to those skilled in the art from the foregoing description and fall within the scope of the appended claims. The advantages and objects of the invention are not necessarily encompassed by each embodiment of the invention.