Structure of PDB 1yqq Chain A Binding Site BS01

Receptor Information
>1yqq Chain A (length=273) Species: 562 (Escherichia coli) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
QFSHNPLFCIDIIKTYKPDFTPRVAFILGSGLGALADQIENAVAISYEKL
PGFPVSTVHGHAGELVLGHLQGVPVVCMKGRGHFYEGRGMTIMTDAIRTF
KLLGCELLFCTNAAGSLRPEVGAGSLVALKDHINTMPGTPMVGLNDDRFG
ERFFSLANAYDAEYRALLQKVAKEEGFPLTEGVFVSYPGPNFETAAEIRM
MQIIGGDVVGMSVVPEVISARHCDLKVVAVSAITNMAEGLSDVKLSHAQT
LAAAELSKQNFINLICGFLRKIA
Ligand information
Ligand IDPO4
InChIInChI=1S/H3O4P/c1-5(2,3)4/h(H3,1,2,3,4)/p-3
InChIKeyNBIIXXVUZAFLBC-UHFFFAOYSA-K
SMILES
SoftwareSMILES
CACTVS 3.341[O-][P]([O-])([O-])=O
ACDLabs 10.04[O-]P([O-])([O-])=O
OpenEye OEToolkits 1.5.0[O-]P(=O)([O-])[O-]
FormulaO4 P
NamePHOSPHATE ION
ChEMBL
DrugBankDB14523
ZINC
PDB chain1yqq 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

[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
[Spin on] [Spin off] [Reset]
[High quality] [Low quality]
[White background] [Black background]
PDB1yqq Escherichia coli Purine Nucleoside Phosphorylase II, the Product of the xapA Gene
Resolution2.6 Å
Binding residue
(original residue number in PDB)		H65 R85 H87 N116 S216
Binding residue
(residue number reindexed from 1)		H61 R81 H83 N112 S212
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) S34 H65 H87 Y89 E90 A117 M215 S216 N239 A241 H251
Catalytic site (residue number reindexed from 1) S30 H61 H83 Y85 E86 A113 M211 S212 N235 A237 H247
Enzyme Commision number 2.4.2.1: purine-nucleoside phosphorylase.
Gene Ontology
Molecular Function
GO:0003824 catalytic activity
GO:0004731 purine-nucleoside phosphorylase activity
GO:0016757 glycosyltransferase activity
GO:0016763 pentosyltransferase activity
GO:0042802 identical protein binding
GO:0047724 inosine nucleosidase activity
GO:0047975 guanosine phosphorylase activity
Biological Process
GO:0006139 nucleobase-containing compound metabolic process
GO:0006148 inosine catabolic process
GO:0006149 deoxyinosine catabolic process
GO:0006152 purine nucleoside catabolic process
GO:0006161 deoxyguanosine catabolic process
GO:0009116 nucleoside metabolic process
GO:0015949 nucleobase-containing small molecule interconversion
GO:0034214 protein hexamerization
GO:0034355 NAD salvage
GO:0046115 guanosine catabolic process
GO:0055086 nucleobase-containing small molecule metabolic process
GO:1903228 xanthosine catabolic process
Cellular Component
GO:0005737 cytoplasm

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:1yqq, PDBe:1yqq, PDBj:1yqq
PDBsum1yqq
PubMed15808857
UniProtP45563|XAPA_ECOLI Purine nucleoside phosphorylase 2 (Gene Name=xapA)

[Back to BioLiP]