Structure of PDB 4gvh Chain A Binding Site BS01

Receptor Information
>4gvh Chain A (length=341) Species: 99287 (Salmonella enterica subsp. enterica serovar Typhimurium str. LT2) [Search protein sequence] [Download receptor structure] [Download structure with residue number starting from 1] [View receptor structure]
MGPVMLNVEGCELDAEEREILAHPLVGGLILFTRNYHDPEQLRELVRQIR
AASRNHLVVAVDQEGGRVQRFREGFTRLPAAQSFFALHGLEEGGRLAQEA
GWLMASEMIAMDIDISFAPVLDVGHISAAIGERSYHADPAKALAMATRFI
DGMHDAGMKTTGKHFPGHGAVTADSHKETPCDPRPETDIRGKDMSVFRTL
ISENKLDAIMPAHVIYRAIDPRPASGSPYWLKTVLRQELGFDGVIFSDDL
SMEGAAIMGSYAERAQASLDAGCDMILVCNNRKGAVSVLDNLSPIKAERV
TRLYHKGSFSRRELMDSARWKTASAQLNQLHERWQEEKAGH
Ligand information
Ligand ID0XY
InChIInChI=1S/C8H14FNO6/c1-3(12)10-4-5(13)6(14)8(9,2-11)16-7(4)15/h4-7,11,13-15H,2H2,1H3,(H,10,12)/t4-,5-,6+,7?,8-/m1/s1
InChIKeyFRZYHGPCSHDXIZ-JTFAZQEDSA-N
SMILES
SoftwareSMILES
CACTVS 3.370CC(=O)N[C@H]1[C@@H](O)O[C@](F)(CO)[C@@H](O)[C@@H]1O
OpenEye OEToolkits 1.7.6CC(=O)N[C@@H]1[C@H]([C@@H]([C@](O[C@H]1O)(CO)F)O)O
CACTVS 3.370CC(=O)N[CH]1[CH](O)O[C](F)(CO)[CH](O)[CH]1O
ACDLabs 12.01FC1(OC(O)C(NC(=O)C)C(O)C1O)CO
OpenEye OEToolkits 1.7.6CC(=O)NC1C(C(C(OC1O)(CO)F)O)O
FormulaC8 H14 F N O6
Name5-fluoro-N-acetyl-alpha-D-glucosamine;
N-[(2S,3R,4R,5S,6S)-6-fluoro-2,4,5-trihydroxy-6-(hydroxymethyl)tetrahydro-2H-pyran-3-yl]acetamide
ChEMBL
DrugBank
ZINC
PDB chain4gvh Chain A Residue 401 [Download ligand structure] [Download structure with residue number starting from 1] [View ligand structure]
Receptor-Ligand Complex Structure
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PDB4gvh Active Site Plasticity within the Glycoside Hydrolase NagZ Underlies a Dynamic Mechanism of Substrate Distortion.
Resolution1.45 Å
Binding residue
(original residue number in PDB)
I30 D62 R133 K163 H164 M210 D248
Binding residue
(residue number reindexed from 1)
I30 D62 R133 K163 H164 M210 D248
Annotation score1
Enzymatic activity
Enzyme Commision number 3.2.1.52: beta-N-acetylhexosaminidase.
Gene Ontology
Molecular Function
GO:0004553 hydrolase activity, hydrolyzing O-glycosyl compounds
GO:0004563 beta-N-acetylhexosaminidase activity
GO:0016798 hydrolase activity, acting on glycosyl bonds
Biological Process
GO:0005975 carbohydrate metabolic process
GO:0008360 regulation of cell shape
GO:0009252 peptidoglycan biosynthetic process
GO:0009254 peptidoglycan turnover
GO:0046677 response to antibiotic
GO:0051301 cell division
GO:0071555 cell wall organization
Cellular Component
GO:0005737 cytoplasm

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Molecular Function

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Biological Process

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Cellular Component
External links
PDB RCSB:4gvh, PDBe:4gvh, PDBj:4gvh
PDBsum4gvh
PubMed23177201
UniProtQ8ZQ06|NAGZ_SALTY Beta-hexosaminidase (Gene Name=nagZ)

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