SMTL ID : 4zoa.1

Crystal Structure of beta-glucosidase from Listeria innocua in complex with isofagomine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.17 Å

Oligo State

homo-dimer

Ligands

2 x IFM: 5-HYDROXYMETHYL-3,4-DIHYDROXYPIPERIDINE(Non-covalent)

IFM.1: 14 residues within 4Å: Chain A: T.40, L.61, D.91, F.135, R.149, K.191, H.192, M.235, F.238, D.270, W.271, M.302, W.409, E.473 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.149, A:K.191, A:K.191, A:D.270 Water bridges: A:K.191 IFM.4: 14 residues within 4Å: Chain B: T.40, L.61, D.91, F.135, R.149, K.191, H.192, M.235, F.238, D.270, W.271, M.302, W.409, E.473 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.40, B:R.149, B:K.191, B:K.191, B:D.270 Water bridges: B:K.191

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 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.2, H2O.4, H2O.4, H2O.10 MG.5: 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.14, H2O.15, H2O.16, H2O.21

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.3: 6 residues within 4Å: Chain A: W.470, L.477, R.481, P.483 Chain B: L.588, D.589 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.481

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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