Structure of PDB 4rif Chain A Binding Site BS01

Receptor Information
>4rif Chain A (length=370) Species: 80860 (Streptomyces cyanogenus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MKILFVASGSPATVFALAPLATAARNAGHDVFMGAVEDMVPYIASAGIPA
LSIAPSSIRRYATMDREGEEELDFAGHWFGRMAAGSMDALREVTANWRPD
LVVGGSMSFAAALIAAELGVPYVRQAWDTGDAWRTDPAASDELRPELRAL
GLDRLPDPALFVDICPPSLRPATAPPAQMMRWVPANGQRRLEPWMYTKGN
RPRILVTSGSRLVFAKKTGFLRGLVADMAALDAEVVIATLDEVAEELRTE
LPGVRAGWVPLDVVVPTCDVVVHHAGGVTALTAMNAGVPQLIVPQGGNFV
EAGLRISDFGAAITVDENTPEAVEKACGELIGNPSYAERARELSAEIAAL
PLPAEVVGALEGLVENLYFQ
Ligand information
Ligand ID3R2
InChIInChI=1S/C17H28N2O13P2/c1-8-3-10(4-12(21)15(8)22)31-34(27,28)32-33(25,26)29-7-13-11(20)5-14(30-13)19-6-9(2)16(23)18-17(19)24/h6,8,10-15,20-22H,3-5,7H2,1-2H3,(H,25,26)(H,27,28)(H,18,23,24)/t8-,10-,11-,12+,13+,14+,15+/m0/s1
InChIKeyCWVOKCJHBPKJQP-PVMIAKCWSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.6C[C@H]1C[C@@H](C[C@H]([C@@H]1O)O)OP(=O)(O)OP(=O)(O)OC[C@@H]2[C@H](C[C@@H](O2)N3C=C(C(=O)NC3=O)C)O
CACTVS 3.385C[C@H]1C[C@@H](C[C@@H](O)[C@@H]1O)O[P](O)(=O)O[P](O)(=O)OC[C@H]2O[C@H](C[C@@H]2O)N3C=C(C)C(=O)NC3=O
ACDLabs 12.01O=P(OC1CC(C)C(O)C(O)C1)(O)OP(=O)(O)OCC3OC(N2C(=O)NC(=O)C(=C2)C)CC3O
OpenEye OEToolkits 1.7.6CC1CC(CC(C1O)O)OP(=O)(O)OP(=O)(O)OCC2C(CC(O2)N3C=C(C(=O)NC3=O)C)O
CACTVS 3.385C[CH]1C[CH](C[CH](O)[CH]1O)O[P](O)(=O)O[P](O)(=O)OC[CH]2O[CH](C[CH]2O)N3C=C(C)C(=O)NC3=O
FormulaC17 H28 N2 O13 P2
Name2'-deoxy-5'-O-[(R)-{[(R)-{[(1S,3R,4R,5S)-3,4-dihydroxy-5-methylcyclohexyl]oxy}(hydroxy)phosphoryl]oxy}(hydroxy)phosphoryl]-3,4-dihydrothymidine
ChEMBL
DrugBank
ZINCZINC000223062284
PDB chain4rif Chain A Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
Global viewLocal viewStructure summary

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PDB4rif Structural Characterization of O- and C-Glycosylating Variants of the Landomycin Glycosyltransferase LanGT2.
Resolution1.85 Å
Binding residue
(original residue number in PDB)
A12 F15 W136 D137 N195 G218 S219 A247 T248 W267 V268 L270 H283 G285 G286 V287 T288
Binding residue
(residue number reindexed from 1)
A12 F15 W127 D128 N186 G209 S210 A238 T239 W258 V259 L261 H274 G276 G277 V278 T279
Annotation score1
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0008194 UDP-glycosyltransferase activity

View graph for
Molecular Function
External links
PDB RCSB:4rif, PDBe:4rif, PDBj:4rif
PDBsum4rif
PubMed25581707
UniProtQ9ZGC0

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