SMTL ID : 5dgr.1

Crystal structure of GH9 exo-beta-D-glucosaminidase PBPRA0520, glucosamine complex

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x NA: SODIUM ION(Non-functional Binders)

NA.1: 5 residues within 4Å: Chain A: M.213, D.241, Q.243, Q.248, Y.301 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.241, A:Q.248 NA.3: 5 residues within 4Å: Chain B: M.213, D.241, Q.243, Q.248, Y.301 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.248, B:Y.301 Water bridges: B:Q.243

2 x GCS: 2-amino-2-deoxy-beta-D-glucopyranose(Non-covalent)

GCS.2: 12 residues within 4Å: Chain A: D.139, A.140, D.143, Y.147, H.150, W.219, W.446, Q.448, N.524, W.551, E.555, W.557 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:D.143, A:H.150, A:W.219, A:W.446, A:Q.448, A:N.524, A:W.551 GCS.4: 11 residues within 4Å: Chain B: A.140, D.143, Y.147, H.150, W.219, W.446, Q.448, N.524, W.551, E.555, W.557 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:D.143, B:H.150, B:W.219, B:W.219, B:W.446, B:Q.448, B:N.524, B:W.551, B:E.555 Water bridges: B:Y.445

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Honda, Y. et al., The crystal structure of an inverting glycoside hydrolase family 9 exo-beta-D-glucosaminidase and the design of glycosynthase. Biochem.J. (2016)

Release Date

2015-12-09

Peptides

Putative endoglucanase-related protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Putative endoglucanase-related protein

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