Structure of PDB 7yp5 Chain A Binding Site BS01

Receptor Information
>7yp5 Chain A (length=419) Species: 911111 (Streptomyces sp. SCSIO 01934) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
SHMRILFATVSEKSHLFTMVPLAWSLAAAGHEVHVASNPALTASIKSTGL
TAVPVGKDHNLHEMLTENRDSLENPLSDWSTPELDRHSWEQVLMKFKVSV
MFAYQTYNDCMVHELVDYARHWQPDLVIWDPVTYAGPVAARVVGAAHARL
LWCIDIYAKMREVFLARLAEQPEERREDPMADWLGGILGRYGHTFDEEVV
VGQWTIDQIPTSLQLPLSLRRVPVRYLPHNGPSEIPDWLREAPGRPRVVL
TSGVSARAALGGTFMPVADMINTLGSMDIDVVAALPPEEVEALEKVPANT
RIVDFVPLHALLPGASVLIHHGGFGSWGTALVNGVPQFIPTIRYADWWNK
GTSLHEAGAGLVVHASELTAEVLRESVERLVEDASYREAAERLREENQRT
PTPHDVVPVIEELTAEHGR
Ligand information
Ligand IDTYD
InChIInChI=1S/C10H16N2O11P2/c1-5-3-12(10(15)11-9(5)14)8-2-6(13)7(22-8)4-21-25(19,20)23-24(16,17)18/h3,6-8,13H,2,4H2,1H3,(H,19,20)(H,11,14,15)(H2,16,17,18)/t6-,7+,8+/m0/s1
InChIKeyUJLXYODCHAELLY-XLPZGREQSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.5.0CC1=CN(C(=O)NC1=O)[C@H]2C[C@@H]([C@H](O2)CO[P@](=O)(O)OP(=O)(O)O)O
OpenEye OEToolkits 1.5.0CC1=CN(C(=O)NC1=O)C2CC(C(O2)COP(=O)(O)OP(=O)(O)O)O
ACDLabs 10.04O=P(O)(O)OP(=O)(O)OCC2OC(N1C(=O)NC(=O)C(=C1)C)CC2O
CACTVS 3.341CC1=CN([CH]2C[CH](O)[CH](CO[P](O)(=O)O[P](O)(O)=O)O2)C(=O)NC1=O
CACTVS 3.341CC1=CN([C@H]2C[C@H](O)[C@@H](CO[P@@](O)(=O)O[P](O)(O)=O)O2)C(=O)NC1=O
FormulaC10 H16 N2 O11 P2
NameTHYMIDINE-5'-DIPHOSPHATE
ChEMBLCHEMBL259724
DrugBankDB03103
ZINCZINC000008215882
PDB chain7yp5 Chain A Residue 500 [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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PDB7yp5 Substrate-induced dimerization of elaiophylin glycosyltransferase reveals a novel self-activating form of glycosyltransferase for symmetric glycosylation.
Resolution2.33 Å
Binding residue
(original residue number in PDB)		N228 S253 F303 V304 L306 H319 G323
Binding residue
(residue number reindexed from 1)		N230 S255 F305 V306 L308 H321 G325
Annotation score4
Enzymatic activity
Enzyme Commision number ?
Gene Ontology
Molecular Function
GO:0000166 nucleotide binding
GO:0008194 UDP-glycosyltransferase activity
GO:0016740 transferase activity
GO:0016757 glycosyltransferase activity
GO:0016758 hexosyltransferase activity
Biological Process
GO:0017000 antibiotic biosynthetic process

View graph for
Molecular Function
View graph for
Biological Process
External links
PDB RCSB:7yp5, PDBe:7yp5, PDBj:7yp5
PDBsum7yp5
PubMed36189743
UniProtE5L4T5

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