SMTL ID : 1tt0.1

Crystal Structure of Pyranose 2-Oxidase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

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

ACT.1: 7 residues within 4Å: Chain A: T.169, Q.448, F.454, F.474, H.548, N.593 Ligands: FAD.2 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.454, A:F.474 Hydrogen bonds: A:N.593 Salt bridges: A:H.548 ACT.8: 7 residues within 4Å: Chain B: T.169, Q.448, F.454, F.474, H.548, N.593 Ligands: FAD.9 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.454, B:F.474 Hydrogen bonds: B:N.593 Salt bridges: B:H.548 ACT.16: 7 residues within 4Å: Chain C: T.169, Q.448, F.454, F.474, H.548, N.593 Ligands: FAD.17 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:F.454, C:F.474 Hydrogen bonds: C:N.593 Salt bridges: C:H.548 ACT.22: 7 residues within 4Å: Chain D: T.169, Q.448, F.454, F.474, H.548, N.593 Ligands: FAD.23 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:F.454, D:F.474 Hydrogen bonds: D:N.593 Salt bridges: D:H.548

4 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Covalent)

FAD.2: 31 residues within 4Å: Chain A: 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, H.167, W.168, T.169, C.170, A.171, V.281, C.283, T.319, A.320, G.321, H.324, L.547, N.593, P.594, T.595 Ligands: ACT.1 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:I.107, A:L.111, 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:G.163, A:M.164, 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:Q.448, A:L.547, A:L.596 pi-Stacking: A:W.168, A:H.548 FAD.9: 34 residues within 4Å: Chain B: V.52, G.53, G.55, P.56, I.57, F.75, D.76, I.77, G.78, I.107, T.158, R.159, V.160, G.163, M.164, S.165, H.167, W.168, T.169, C.170, A.171, V.281, C.283, T.319, A.320, G.321, H.324, L.547, G.582, C.583, N.593, P.594, T.595 Ligands: ACT.8 26 PLIP interactions: 26 interactions with chain B Hydrophobic interactions: B:I.107, 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:G.163, B:M.164, B:S.165, 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:Q.448, B:L.547, B:L.596 pi-Stacking: B:W.168, B:H.548 FAD.17: 33 residues within 4Å: Chain C: V.52, G.53, G.55, P.56, I.57, F.75, D.76, I.77, I.107, L.111, T.158, R.159, V.160, G.163, M.164, S.165, H.167, W.168, T.169, C.170, A.171, V.281, C.283, T.319, A.320, G.321, H.324, L.547, G.582, N.593, P.594, T.595 Ligands: ACT.16 29 PLIP interactions: 29 interactions with chain C Hydrophobic interactions: C:I.107, C:L.111, C:W.168, C:L.547 Hydrogen bonds: C:G.55, C:I.57, 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.58, C:G.321, C:Q.448, C:L.547, C:L.596 pi-Stacking: C:W.168, C:H.548 FAD.23: 33 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, H.167, W.168, T.169, C.170, A.171, V.281, C.283, T.319, A.320, G.321, H.324, L.547, G.582, C.583, N.593, P.594, T.595 Ligands: ACT.22 27 PLIP interactions: 27 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:I.77, D:G.78, D:T.158, D:V.160, D:G.163, D:M.164, D:T.169, 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.58, D:Q.448, D:L.547, D:L.596 pi-Stacking: D:W.168 pi-Cation interactions: D:H.548

20 x 12P: DODECAETHYLENE GLYCOL(Non-covalent)

12P.3: 9 residues within 4Å: Chain A: P.144, E.145, Q.146, D.147, P.148, R.339 Chain D: S.134, F.136 Ligands: 12P.24 Ligand excluded by PLIP 12P.4: 5 residues within 4Å: Chain A: S.293, R.571, G.574, K.576, Y.608 Ligand excluded by PLIP 12P.5: 9 residues within 4Å: Chain A: F.363, Y.456, G.457, A.458, Q.460, G.535, S.536, Q.539, M.541 Ligand excluded by PLIP 12P.6: 3 residues within 4Å: Chain A: L.84, K.85, Q.263 Ligand excluded by PLIP 12P.7: 8 residues within 4Å: Chain A: S.134, T.135, F.136 Chain D: P.144, E.145, Q.146, D.147, P.148 Ligand excluded by PLIP 12P.10: 9 residues within 4Å: Chain B: P.144, E.145, Q.146, D.147, P.148, R.339 Chain C: S.134, T.135, F.136 Ligand excluded by PLIP 12P.11: 3 residues within 4Å: Chain B: R.571, G.574, K.576 Ligand excluded by PLIP 12P.12: 9 residues within 4Å: Chain B: F.363, Y.456, G.457, A.458, Q.460, G.535, S.536, Q.539, M.541 Ligand excluded by PLIP 12P.13: 2 residues within 4Å: Chain B: L.84, Q.263 Ligand excluded by PLIP 12P.14: 4 residues within 4Å: Chain B: Q.611, N.612, F.613, T.614 Ligand excluded by PLIP 12P.15: 8 residues within 4Å: Chain B: S.134, T.135 Chain C: P.144, E.145, Q.146, D.147, P.148, R.339 Ligand excluded by PLIP 12P.18: 5 residues within 4Å: Chain C: S.293, R.571, G.574, K.576, Y.608 Ligand excluded by PLIP 12P.19: 8 residues within 4Å: Chain C: F.363, Y.456, G.457, A.458, G.535, S.536, Q.539, M.541 Ligand excluded by PLIP 12P.20: 3 residues within 4Å: Chain C: L.84, K.85, Q.263 Ligand excluded by PLIP 12P.21: 6 residues within 4Å: Chain C: R.288, N.289, A.290, N.292, G.333, E.347 Ligand excluded by PLIP 12P.24: 2 residues within 4Å: Chain D: T.135 Ligands: 12P.3 Ligand excluded by PLIP 12P.25: 4 residues within 4Å: Chain D: S.293, R.571, G.574, K.576 Ligand excluded by PLIP 12P.26: 9 residues within 4Å: Chain D: F.363, Y.456, G.457, A.458, Q.460, G.535, S.536, Q.539, M.541 Ligand excluded by PLIP 12P.27: 2 residues within 4Å: Chain D: L.84, Q.263 Ligand excluded by PLIP 12P.28: 6 residues within 4Å: Chain D: R.288, N.289, A.290, N.292, G.333, E.347 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hallberg, B.M. et al., Crystal structure of the 270 kDa homotetrameric lignin-degrading enzyme pyranose 2-oxidase. J.Mol.Biol. (2004)

Release Date

2005-06-21

Peptides

pyranose oxidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

pyranose oxidase

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