Structure of PDB 2v5d Chain A Binding Site BS01

Receptor Information
>2v5d Chain A (length=722) Species: 1502 (Clostridium perfringens) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
VLVPNLNPTPENLEVVGDGFKITSSINLVGEEEADENAVNALREFLTANN
IEINSENDPNSTTLIIGEVDDDIPELDEALNGTTAENLKEEGYALVSNDG
KIAIEGKDGDGTFYGVQTFKQLVKESNIPEVNITDYPTVSARGIVEGFYG
TPWTHQDRLDQIKFYGENKLNTYIYAPKDDPYHREKWESEMQRMQELINA
SAENKVDFVFGISPGIDIRFDGDAGEEDFNHLITKAESLYDMGVRSFAIY
WDDIQDKSAAKHAQVLNRFNEEFVKAKGDVKPLITVPTEYDTGAMVSNGQ
PRAYTRIFAETVDPSIEVMWTGPGVVTNEIPLSDAQLISGIYNRNMAVWW
NYPVTDYFKGKLALGPMHGLDKGLNQYVDFFTVNPMEHAELSKISIHTAA
DYSWNMDNYDYDKAWNRAIDMLYGDLAEDMKVFANHSTRMDNKTWAKSGR
EDAPELRAKMDELWNKLSSKEDASALIEELYGEFARMEEACNNLKANLPE
VALEECSRQLDELITLAQGDKASLDMIVAQLNEDTEAYESAKEIAQNKLN
TALSSFAVISEKVAQSFIQEALSFDLTLINPRTVKITASSEETSGENAPA
SFASDGDMNTFWHSKWSSPAHEGPHHLTLELDNVYEINKVKYAPRQDSKN
GRITGYKVSVSLDGENFTEVKTGTLEDNAAIKFIEFDSVDAKYVRLDVTD
SVSDQANGRGKFATAAEVNVHG
Ligand information
Ligand IDCA
InChIInChI=1S/Ca/q+2
InChIKeyBHPQYMZQTOCNFJ-UHFFFAOYSA-N
SMILES
SoftwareSMILES
CACTVS 3.341[Ca++]
ACDLabs 10.04
OpenEye OEToolkits 1.5.0		[Ca+2]
FormulaCa
NameCALCIUM ION
ChEMBL
DrugBankDB14577
ZINC
PDB chain2v5d Chain A Residue 1768 [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]
PDB2v5d Portrait of an Enzyme: A Complete Structural Analysis of a Multi-Modular Beta-N-Acetylglucosaminidase from Clostridium Perfringens
Resolution3.3 Å
Binding residue
(original residue number in PDB)		E557 A597 S600 A602 V603
Binding residue
(residue number reindexed from 1)		E512 A552 S555 A557 V558
Annotation score1
Enzymatic activity
Catalytic site (original residue number in PDB) N67 Y335
Catalytic site (residue number reindexed from 1) N27 Y290
Enzyme Commision number 3.2.1.169: protein O-GlcNAcase.
External links
PDB RCSB:2v5d, PDBe:2v5d, PDBj:2v5d
PDBsum2v5d
PubMed19193644
UniProtQ0TR53|OGA_CLOP1 O-GlcNAcase NagJ (Gene Name=nagJ)

[Back to BioLiP]