SMTL ID : 5l7u.1

Crystal structure of BvGH123 with bound GalNAc

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-dimer

Ligands

2 x NGA: 2-acetamido-2-deoxy-beta-D-galactopyranose(Non-covalent)

NGA.1: 10 residues within 4Å: Chain A: Q.271, W.321, D.376, A.402, Y.442, C.444, C.445, W.479, W.497, D.501 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:A.402, A:Y.442 Hydrogen bonds: A:Q.271, A:Q.271, A:D.376, A:D.376, A:C.445, A:D.501 NGA.2: 11 residues within 4Å: Chain B: W.221, Q.271, W.321, D.376, A.402, Y.442, C.444, C.445, W.479, W.497, D.501 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:W.221, B:A.402 Hydrogen bonds: B:Q.271, B:Q.271, B:D.376, B:C.445, B:D.501

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 6 residues within 4Å: Chain B: K.266, P.267, W.268, N.269, G.270, F.276 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Roth, C. et al., Structural and mechanistic insights into a Bacteroides vulgatus retaining N-acetyl-beta-galactosaminidase that uses neighbouring group participation. Chem. Commun. (Camb.) (2016)

Release Date

2017-03-22

Peptides

Glycoside hydrolase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Glycoside hydrolase

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