Structure of PDB 5gpj Chain B Binding Site BS01

Receptor Information
>5gpj Chain B (length=726) Species: 3916 (Vigna radiata var. radiata) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
AAILPDLGTEILIPVCAVIGIAFALFQWLLVSKVKLDHNVVVKCAEIQNA
ISEGATSFLFTEYKYVGIFMVAFAILIFLFLGSVEGFSTSPQACSYDKTK
TCKPALATAIFSTVSFLLGGVTSLVSGFLGMKIATYANARTTLEARKGVG
KAFITAFRSGAVMGFLLAANGLLVLYIAINLFKIYYGDDWGGLFEAITGY
GLGGSSMALFGRVGGGIYTKAADVGADLVGKDDPRNPAVIADNVGDNVGD
IAGMGSDLFGSYAESSCAALVVASISSFGLNHELTAMLYPLIVSSVGILV
CLLTTLFATDFFAVKEIEPALKKQLVISTVLMTIGVAVVSFVALPTSFTI
FNFGVQKDVKSWQLFLCVAVGLWAGLIIGFVTEYYTSNAYSPVQDVADSC
RTGAATNVIFGLALGYKSVIIPIFAIAISIFVSFTFAAMYGIAVAALGML
STIATGLAIDAYGPISDNAGGIAEMAGMSHRIRERTDALDAAGNTTAAIG
KGFAIGSAALVSLALFGAFVSRASITTVDVLTPKVFIGLIVGAMLPYWFS
AMTMKSVGSAALKMVEEVRRQFNTIPGLMEGTAKPDYATCVKISTDASIK
EMIPPGALVMLTPLVVGILFGVETLSGVLAGSLVSGVQIAISASNTGGAW
DNAKKYIEAGASEHARSLGPKGSDCHKAAVIGDTIGDPLKDTSGPSLNIL
IKLMAVESLVFAPFFATHGGLLFKIF
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 chain5gpj Chain B Residue 1001 [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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PDB5gpj Membrane pyrophosphatases from Thermotoga maritima and Vigna radiata suggest a conserved coupling mechanism
Resolution3.5 Å
Binding residue
(original residue number in PDB)		D253 D283 D507 K730
Binding residue
(residue number reindexed from 1)		D223 D246 D467 K690
Annotation score1
Enzymatic activity
Enzyme Commision number 7.1.3.1: H(+)-exporting diphosphatase.
Gene Ontology
Molecular Function
GO:0004427 inorganic diphosphate phosphatase activity
GO:0009678 diphosphate hydrolysis-driven proton transmembrane transporter activity
GO:0046872 metal ion binding
Biological Process
GO:1902600 proton transmembrane transport
Cellular Component
GO:0005773 vacuole
GO:0005774 vacuolar membrane
GO:0016020 membrane

View graph for
Molecular Function
View graph for
Biological Process
View graph for
Cellular Component
External links
PDB RCSB:5gpj, PDBe:5gpj, PDBj:5gpj
PDBsum5gpj
PubMed27922000
UniProtP21616|AVP_VIGRR Pyrophosphate-energized vacuolar membrane proton pump

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