SMTL ID : 3k4c.1

Pyranose 2-oxidase H167A/T169G mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-tetramer

Ligands

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

FAD.1: 33 residues within 4Å: Chain A: V.52, G.53, S.54, 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, G.169, C.170, A.171, V.281, C.283, T.319, A.320, G.321, H.324, F.454, L.547, H.548, C.583, N.593, P.594, T.595 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:I.107, A:W.168, A:F.454, A:L.547 Hydrogen bonds: A:G.55, A:I.57, A:G.58, A:I.77, A:G.78, A:T.158, A:V.160, A:G.163, A:M.164, A:M.164, A:S.165, A:G.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.321, A:Q.448, A:L.547, A:L.596 pi-Stacking: A:W.168, A:H.548 FAD.4: 35 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, A.167, W.168, G.169, C.170, A.171, V.281, C.283, T.319, A.320, G.321, H.324, F.454, L.547, H.548, G.582, C.583, N.593, P.594, T.595 28 PLIP interactions: 28 interactions with chain B Hydrophobic interactions: B:I.107, B:M.164, B:W.168, B:F.454, B:L.547 Hydrogen bonds: B:G.55, B:I.57, B:G.58, B:I.77, B:G.78, B:T.158, B:V.160, B:G.163, B:M.164, B:G.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.321, B:G.321, B:L.547, B:L.596 pi-Stacking: B:W.168, B:H.548 FAD.7: 35 residues within 4Å: Chain C: 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, G.169, C.170, A.171, V.281, A.282, C.283, T.319, A.320, G.321, H.324, F.454, L.547, H.548, G.582, C.583, N.593, P.594, T.595 25 PLIP interactions: 25 interactions with chain C Hydrophobic interactions: C:I.107, C:F.454, 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:G.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:Q.448, C:L.596 pi-Stacking: C:W.168, C:H.548 FAD.9: 36 residues within 4Å: Chain D: 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, A.167, W.168, G.169, C.170, A.171, V.281, A.282, C.283, T.319, A.320, G.321, H.324, F.454, L.547, H.548, G.582, C.583, N.593, P.594, T.595 28 PLIP interactions: 28 interactions with chain D Hydrophobic interactions: D:I.107, D:W.168, D:F.454, D:L.547 Hydrogen bonds: D:G.53, 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:S.165, D:G.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:G.321, D:L.547, D:L.596 pi-Stacking: D:W.168 pi-Cation interactions: D:H.548

4 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.2: 6 residues within 4Å: Chain A: S.134 Chain C: P.144, E.145, Q.146, D.147, P.148 No protein-ligand interaction detected (PLIP) 1PE.3: 8 residues within 4Å: Chain A: P.144, E.145, Q.146, D.147, P.148, R.339 Chain C: S.134, T.135 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:T.135 1PE.6: 8 residues within 4Å: Chain B: P.144, E.145, Q.146, D.147, P.148, R.339 Chain D: S.134, F.136 No protein-ligand interaction detected (PLIP) 1PE.10: 9 residues within 4Å: Chain B: S.134, T.135, F.136 Chain D: P.144, E.145, Q.146, D.147, P.148, R.339 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain D Water bridges: B:F.136 Hydrogen bonds: D:R.339

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.5: 13 residues within 4Å: Chain A: S.462, I.463, D.464 Chain B: L.121, V.122, V.123, W.131, Q.132, A.133, T.135, F.137, R.139 Chain D: L.149 7 PLIP interactions: 5 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:V.123, B:Q.132, B:Q.132, B:A.133, A:S.462, A:D.464 Salt bridges: B:R.139 MES.8: 13 residues within 4Å: Chain A: L.149 Chain C: L.121, V.122, V.123, W.131, Q.132, A.133, T.135, F.137, R.139 Chain D: S.462, I.463, D.464 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:V.123, C:Q.132, C:Q.132, D:D.464 Salt bridges: C:R.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pitsawong, W. et al., A conserved active-site threonine is important for both sugar and flavin oxidations of pyranose 2-oxidase. J.Biol.Chem. (2010)

Release Date

2010-02-02

Peptides

Pyranose 2-oxidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Pyranose 2-oxidase