SMTL ID : 3gsm.1

Vibrio cholerae family 3 glycoside hydrolase (NagZ) bound to N-Valeryl-PUGNAc

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

1 x VPU: [[(3R,4R,5S,6R)-4,5-dihydroxy-6-(hydroxymethyl)-3-(pentanoylamino)oxan-2-ylidene]amino] N-phenylcarbamate(Non-covalent)

VPU.1: 10 residues within 4Å: Chain A: I.30, F.32, D.62, F.114, A.126, R.130, K.160, H.161, M.204 Ligands: GOL.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.130, A:R.130, A:K.160, A:H.161

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 5 residues within 4Å: Chain A: D.7, V.8, A.9, R.34, R.276 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:D.7, A:R.34, A:R.276 Water bridges: A:D.7, A:A.9, A:K.275 GOL.3: 4 residues within 4Å: Chain A: C.124, K.125, A.126 Ligands: VPU.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:A.126 Water bridges: A:K.125, A:A.170

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Balcewich, M.D. et al., Insight into a strategy for attenuating AmpC-mediated beta-lactam resistance: structural basis for selective inhibition of the glycoside hydrolase NagZ. Protein Sci. (2009)

Release Date

2009-06-30

Peptides

Beta-hexosaminidase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Beta-hexosaminidase

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