SMTL ID : 3qom.1

Crystal structure of 6-phospho-beta-glucosidase from Lactobacillus plantarum

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.1: 9 residues within 4Å: Chain A: E.183, N.186, A.246, C.248, R.270, S.318, Y.320, W.352 Ligands: PO4.2 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:N.186, A:R.270, A:R.270, A:S.318, A:S.318, A:E.335 Water bridges: A:E.183, A:E.183, A:E.183, A:E.335 BGC.7: 9 residues within 4Å: Chain B: E.183, N.186, A.246, C.248, R.270, S.318, Y.320, W.352 Ligands: PO4.8 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:N.186, B:R.270, B:R.270, B:S.318, B:S.318, B:E.335 Water bridges: B:E.183, B:E.183, B:E.335, B:E.335, B:E.335

8 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.2: 7 residues within 4Å: Chain A: W.352, A.433, A.434, S.435, K.441, Y.443 Ligands: BGC.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.25, A:A.434, A:S.435, A:S.435, A:Y.443 Water bridges: A:S.435 Salt bridges: A:K.441 PO4.3: 4 residues within 4Å: Chain A: H.204, P.206, G.207, R.210 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.207, A:R.210 Salt bridges: A:H.204 PO4.4: 3 residues within 4Å: Chain A: Y.30, H.67, Q.68 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.30, A:Y.30 Salt bridges: A:H.67 PO4.5: 1 residues within 4Å: Chain A: H.337 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.337 PO4.8: 7 residues within 4Å: Chain B: W.352, A.433, A.434, S.435, K.441, Y.443 Ligands: BGC.7 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Q.25, B:A.434, B:S.435, B:S.435 Water bridges: B:S.435 Salt bridges: B:K.441 PO4.9: 4 residues within 4Å: Chain B: H.204, P.206, G.207, R.210 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.207, B:R.210 Salt bridges: B:H.204 PO4.10: 3 residues within 4Å: Chain B: Y.30, H.67, Q.68 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Y.30 Salt bridges: B:H.67 PO4.11: 1 residues within 4Å: Chain B: H.337 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:H.337

2 x ACT: ACETATE ION(Non-functional Binders)

ACT.6: 3 residues within 4Å: Chain A: W.365 Chain B: W.365 Ligands: ACT.12 1 PLIP interactions: 1 interactions with chain B Water bridges: B:Y.361 ACT.12: 3 residues within 4Å: Chain A: W.365 Chain B: W.365 Ligands: ACT.6 1 PLIP interactions: 1 interactions with chain B Water bridges: B:Y.361

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Michalska, K. et al., GH1-family 6-P-beta-glucosidases from human microbiome lactic acid bacteria. Acta Crystallogr.,Sect.D (2013)

Release Date

2011-03-09

Peptides

6-phospho-beta-glucosidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

6-phospho-beta-glucosidase

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