SMTL ID : 5ysf.1 (1 other biounit)

Crystal structure of beta-1,2-glucooligosaccharide binding protein in complex with sophoropentaose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x BGC- BGC- BGC- BGC- BGC: beta-D-glucopyranose-(1-2)-beta-D-glucopyranose-(1-2)-beta-D-glucopyranose-(1-2)-beta-D-glucopyranose-(1-2)-beta-D-glucopyranose

BGC-BGC-BGC-BGC-BGC.1: 19 residues within 4Å: Chain A: D.19, E.20, W.46, G.69, T.70, T.71, W.72, Y.120, E.122, D.168, N.170, E.171, Q.172, F.238, M.239, S.240, W.243, G.275, G.276 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:T.70, A:T.70, A:T.71, A:E.122, A:E.122, A:E.122, A:Q.172, A:Q.172, A:G.276 Water bridges: A:T.71, A:R.124, A:R.124

2 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.2: 5 residues within 4Å: Chain A: G.137, Y.138, N.139, E.140, E.147 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.138, A:N.139 Hydrogen bonds: A:G.137, A:N.139, A:E.140 MPD.3: 5 residues within 4Å: Chain A: P.301, L.305, D.319, E.322, D.323 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:P.301, A:E.322, A:D.323 Hydrogen bonds: A:R.317, A:D.319

1 x MG: MAGNESIUM ION(Non-covalent)

MG.4: 4 residues within 4Å: Chain A: S.156, G.159, K.160, M.162 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.156, A:G.159, A:M.162, H2O.6, H2O.10

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Abe, K. et al., Structural and thermodynamic insights into beta-1,2-glucooligosaccharide capture by a solute-binding protein inListeria innocua. J. Biol. Chem. (2018)

Release Date

2018-05-02

Peptides

Lin1841 protein: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Lin1841 protein

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