SMTL ID : 2igo.2 (1 other biounit)

Crystal structure of pyranose 2-oxidase H167A mutant with 2-fluoro-2-deoxy-D-glucose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-tetramer

Ligands

4 x SHG: 2-deoxy-2-fluoro-beta-D-glucopyranose(Non-covalent)

SHG.1: 11 residues within 4Å: Chain A: T.169, Q.448, H.450, D.452, R.472, F.474, L.545, V.546, H.548, N.593 Ligands: FAD.2 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Q.448, A:L.545, A:H.548, A:N.593 Salt bridges: A:H.450, A:R.472 SHG.3: 11 residues within 4Å: Chain B: T.169, Q.448, H.450, D.452, R.472, F.474, L.545, V.546, H.548, N.593 Ligands: FAD.4 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:Q.448, B:L.545, B:H.548, B:N.593 Water bridges: B:R.472 Salt bridges: B:H.450, B:R.472 SHG.5: 11 residues within 4Å: Chain C: T.169, Q.448, H.450, D.452, R.472, F.474, L.545, V.546, H.548, N.593 Ligands: FAD.6 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:Q.448, C:H.548, C:N.593 Salt bridges: C:H.450, C:R.472 SHG.7: 10 residues within 4Å: Chain D: T.169, Q.448, H.450, D.452, R.472, F.474, V.546, H.548, N.593 Ligands: FAD.8 7 PLIP interactions: 7 interactions with chain D Hydrogen bonds: D:Q.448, D:H.548, D:N.593 Water bridges: D:R.472, D:R.472 Salt bridges: D:H.450, D:R.472

4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.2: 34 residues within 4Å: Chain A: V.52, G.53, G.55, P.56, I.57, D.76, I.77, I.107, T.158, R.159, V.160, G.163, M.164, S.165, A.167, W.168, T.169, C.170, A.171, V.281, A.282, C.283, T.319, A.320, G.321, H.324, L.547, H.548, G.582, C.583, N.593, P.594, T.595 Ligands: SHG.1 26 PLIP interactions: 26 interactions with chain A Hydrophobic interactions: A:I.107, A:M.164, A:W.168, A:L.547 Hydrogen bonds: A:G.55, A:I.57, A:I.77, A:G.78, A:T.158, A:V.160, A:M.164, A:T.169, A:T.169, A:A.171, A:A.171, A:C.283, A:C.283, A:N.593, A:T.595, A:T.595 Water bridges: A:G.58, A:G.321, A:L.547, A:L.596 pi-Stacking: A:W.168, A:H.548 FAD.4: 34 residues within 4Å: Chain B: V.52, G.53, G.55, P.56, I.57, F.75, D.76, I.77, I.107, T.158, R.159, V.160, G.163, M.164, S.165, A.167, W.168, T.169, C.170, A.171, V.281, A.282, C.283, T.319, A.320, G.321, H.324, L.547, G.582, C.583, N.593, P.594, T.595 Ligands: SHG.3 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:I.107, B:M.164, B:W.168, B:L.547 Hydrogen bonds: B:G.55, B:I.57, B:I.77, B:G.78, B:T.158, B:V.160, B:M.164, B:M.164, B:S.165, B:T.169, B:T.169, B:A.171, B:A.171, B:C.283, B:C.283, B:N.593, B:T.595, B:T.595 Water bridges: B:G.58, B:L.596 pi-Stacking: B:W.168, B:H.548 FAD.6: 33 residues within 4Å: Chain C: V.52, G.53, G.55, P.56, I.57, D.76, I.77, I.107, T.158, R.159, V.160, G.163, M.164, S.165, A.167, W.168, T.169, C.170, A.171, V.281, A.282, C.283, T.319, A.320, G.321, H.324, L.547, G.582, C.583, N.593, P.594, T.595 Ligands: SHG.5 28 PLIP interactions: 28 interactions with chain C Hydrophobic interactions: C:I.107, C:M.164, C:W.168, C:L.547 Hydrogen bonds: C:G.55, C:I.57, C:G.58, C:I.77, C:G.78, C:T.158, C:V.160, C:G.163, C:M.164, C:S.165, C:T.169, C:T.169, C:A.171, C:A.171, C:C.283, C:C.283, C:N.593, C:T.595, C:T.595 Water bridges: C:G.321, C:A.322, C:L.596 pi-Stacking: C:W.168, C:H.548 FAD.8: 34 residues within 4Å: Chain D: V.52, G.53, G.55, P.56, I.57, D.76, I.77, I.107, L.111, T.158, R.159, V.160, G.163, M.164, S.165, A.167, W.168, T.169, C.170, A.171, V.281, A.282, C.283, T.319, A.320, G.321, H.324, L.547, G.582, C.583, N.593, P.594, T.595 Ligands: SHG.7 25 PLIP interactions: 25 interactions with chain D Hydrophobic interactions: D:I.107, D:L.111, D:W.168, D:L.547 Hydrogen bonds: D:G.55, D:I.57, D:G.58, D:I.77, D:T.158, D:V.160, D:G.163, D:M.164, D:T.169, D:A.171, D:A.171, D:C.283, D:C.283, D:N.593, D:T.595, D:T.595 Water bridges: D:G.321, D:L.547, D:L.596 pi-Stacking: D:W.168, D:H.548

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kujawa, M. et al., Structural basis for substrate binding and regioselective oxidation of monosaccharides at c3 by pyranose 2-oxidase. J.Biol.Chem. (2006)

Release Date

2006-10-10

Peptides

Pyranose oxidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
F

C
H

D
G

Pyranose oxidase

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