SMTL ID : 4zo6.1

Crystal Structure of mutant (D270A) beta-glucosidase from Listeria innocua in complex with cellobiose

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-dimer

Ligands

1 x BGC- BGC: beta-D-glucopyranose-(1-4)-beta-D-glucopyranose(Non-covalent)

BGC-BGC.1: 8 residues within 4Å: Chain A: Y.583 Chain B: G.408, W.409, N.410, V.411, G.472, E.473 Ligands: BGC.7 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:W.409, B:E.473 Water bridges: B:G.407, B:N.410, B:G.471, A:R.582

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

BGC.2: 8 residues within 4Å: Chain A: F.238, W.271, W.409, E.473 Chain B: R.572, Y.583 Ligands: BGC.3, BGC.4 2 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.473 Salt bridges: B:R.572 BGC.3: 13 residues within 4Å: Chain A: D.91, F.135, R.149, K.191, H.192, M.235, F.238, A.270, W.271, M.302, W.409, E.473 Ligands: BGC.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.149, A:R.149, A:K.191, A:H.192, A:W.271 Water bridges: A:K.191 BGC.4: 6 residues within 4Å: Chain A: G.408, W.409, G.472, E.473 Chain B: Y.583 Ligands: BGC.2 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:W.409, A:N.468, A:E.473 Water bridges: A:N.410, A:N.410, A:G.471, B:R.582 BGC.7: 6 residues within 4Å: Chain A: R.572, Y.583 Chain B: F.238, W.271, E.473 Ligands: BGC-BGC.1 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.572, A:R.572, B:E.473 Water bridges: A:Y.583, B:W.271 Salt bridges: A:R.572

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 8 residues within 4Å: Chain A: R.143, E.214, N.218, Y.564, N.566, L.568 Chain B: T.207, N.209 8 PLIP interactions: 7 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.564 Water bridges: A:R.143, A:R.143, A:R.213, A:N.218, A:Y.564, A:L.568, B:V.208

2 x MG: MAGNESIUM ION(Non-covalent)

MG.6: 2 residues within 4Å: Chain A: D.648, T.650 6 PLIP interactions: 2 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:D.648, A:T.650, H2O.3, H2O.7, H2O.9, H2O.12 MG.8: 2 residues within 4Å: Chain B: D.648, T.650 6 PLIP interactions: 2 interactions with chain B, 4 Ligand-Water interactions Metal complexes: B:D.648, B:T.650, H2O.19, H2O.20, H2O.20, H2O.30

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nakajima, M. et al., Functional and Structural Analysis of a beta-Glucosidase Involved in beta-1,2-Glucan Metabolism in Listeria innocua. Plos One (2016)

Release Date

2016-05-18

Peptides

Lin1840 protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Lin1840 protein

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