Structure of PDB 3kvy Chain B Binding Site BS03

Receptor Information
>3kvy Chain B (length=293) Species: 9913 (Bos taurus) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
HNDLVQLCNPHIAAMKEDILYHFSLSTSTHDFPAMFGDVKFVCVGGSPSR
MKAFIKYVAMELGFAHADYPNICEGTDRYAMFKVGPVLSVSHGMGVPSIA
IMLHELIKLLYHAHCSGVTLIRIGTSGGIGLEPGSVVITRQAVDPCFKPE
FEQIVLGKREVRNTDLDEQLVQELARCSAELGEFPTVVGNTMCTLDFYEG
QGRLDGALCSYTEKDKQDYLRAAYAAGIRNIEMEASVFAAMCNACGLRAA
VVCVTLLNRLEGDQISSPHDVLAEYQQRPQRLVGQFIKKRLMQ
Ligand information
Ligand IDR2B
InChIInChI=1S/C5H8O4/c6-1-4-5(8)3(7)2-9-4/h2,4-8H,1H2/t4-,5+/m1/s1
InChIKeyWGCMRWDTTZWXPL-UHNVWZDZSA-N
SMILES
SoftwareSMILES
OpenEye OEToolkits 1.7.0C1=C(C(C(O1)CO)O)O
OpenEye OEToolkits 1.7.0C1=C([C@@H]([C@H](O1)CO)O)O
ACDLabs 12.01OC1=COC(CO)C1O
CACTVS 3.370OC[CH]1OC=C(O)[CH]1O
CACTVS 3.370OC[C@H]1OC=C(O)[C@@H]1O
FormulaC5 H8 O4
Name1,4-anhydro-D-erythro-pent-1-enitol
ChEMBL
DrugBank
ZINCZINC000103554899
PDB chain3kvy Chain B Residue 313 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB3kvy Glycal formation in crystals of uridine phosphorylase.
Resolution2.3 Å
Binding residue
(original residue number in PDB)		M109 R137 T140 E249
Binding residue
(residue number reindexed from 1)		M94 R122 T125 E234
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) E120 R274
Catalytic site (residue number reindexed from 1) E105 R259
Enzyme Commision number 2.4.2.3: uridine phosphorylase.
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0004850 uridine phosphorylase activity
GO:0016757 glycosyltransferase activity
GO:0016763 pentosyltransferase activity
GO:0047847 deoxyuridine phosphorylase activity
Biological Process
GO:0009116 nucleoside metabolic process
GO:0009164 nucleoside catabolic process
GO:0009166 nucleotide catabolic process
GO:0044206 UMP salvage
Cellular Component
GO:0005737 cytoplasm

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Cellular Component
External links
PDB RCSB:3kvy, PDBe:3kvy, PDBj:3kvy
PDBsum3kvy
PubMed20364833
UniProtA5PJH9

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