SMTL ID : 4mos.1

Pyranose 2-oxidase H450G/V546C double mutant with 2-fluorinated galactose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

4 x FDA: DIHYDROFLAVINE-ADENINE DINUCLEOTIDE(Covalent)

FDA.1: 36 residues within 4Å: Chain A: V.52, G.53, G.55, P.56, I.57, F.75, D.76, I.77, G.78, 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, A.282, C.283, T.319, A.320, G.321, H.324, F.454, L.547, C.583, N.593, P.594, T.595 Ligands: GAF.2 27 PLIP interactions: 27 interactions with chain A Hydrophobic interactions: A:I.107, A:L.111, 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:T.169, A:A.171, A:A.171, A:C.283, A:C.283, A:N.593, A:T.595, A:T.595, A:T.595 Water bridges: A:L.547, A:L.596 pi-Stacking: A:W.168, A:H.548 FDA.5: 36 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, 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, A.282, C.283, T.319, A.320, G.321, H.324, F.454, L.547, C.583, N.593, P.594, T.595 Ligands: GAF.6 27 PLIP interactions: 27 interactions with chain B Hydrophobic interactions: B:I.107, B:L.111, 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:T.169, B:A.171, B:A.171, B:C.283, B:C.283, B:N.593, B:T.595, B:T.595, B:T.595 Water bridges: B:L.547, B:L.596 pi-Stacking: B:W.168, B:H.548 FDA.9: 36 residues within 4Å: Chain C: V.52, G.53, G.55, P.56, I.57, F.75, D.76, I.77, G.78, 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, A.282, C.283, T.319, A.320, G.321, H.324, F.454, L.547, C.583, N.593, P.594, T.595 Ligands: GAF.10 29 PLIP interactions: 29 interactions with chain C Hydrophobic interactions: C:I.107, C:L.111, C:W.168, 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: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, C:T.595 Water bridges: C:H.324, C:L.547, C:L.596 pi-Stacking: C:W.168, C:H.548 FDA.13: 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, 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, A.282, C.283, T.319, A.320, G.321, H.324, F.454, L.547, C.583, N.593, P.594, T.595 Ligands: GAF.14 29 PLIP interactions: 29 interactions with chain D Hydrophobic interactions: D:I.107, D:L.111, D:W.168, D:F.454, D:L.547 Hydrogen bonds: D:G.55, D:I.57, D:G.58, 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, D:T.595 Water bridges: D:H.324, D:L.547, D:L.596 pi-Stacking: D:W.168, D:H.548

4 x GAF: 2-deoxy-2-fluoro-alpha-D-galactopyranose(Non-covalent)

GAF.2: 12 residues within 4Å: Chain A: T.169, Q.448, D.452, F.454, Y.456, R.472, F.474, L.545, C.546, H.548, N.593 Ligands: FDA.1 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:T.169, A:T.169, A:L.545, A:H.548, A:N.593 Salt bridges: A:R.472 GAF.6: 12 residues within 4Å: Chain B: T.169, Q.448, D.452, F.454, Y.456, R.472, F.474, L.545, C.546, H.548, N.593 Ligands: FDA.5 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:T.169, B:T.169, B:L.545, B:H.548, B:N.593 Salt bridges: B:R.472 GAF.10: 12 residues within 4Å: Chain C: T.169, Q.448, D.452, F.454, Y.456, R.472, F.474, L.545, C.546, H.548, N.593 Ligands: FDA.9 6 PLIP interactions: 6 interactions with chain C Hydrogen bonds: C:T.169, C:Y.456, C:L.545, C:H.548, C:N.593 Salt bridges: C:R.472 GAF.14: 12 residues within 4Å: Chain D: T.169, Q.448, D.452, F.454, Y.456, R.472, F.474, L.545, C.546, H.548, N.593 Ligands: FDA.13 6 PLIP interactions: 6 interactions with chain D Hydrogen bonds: D:T.169, D:Y.456, D:L.545, D:H.548, D:N.593 Salt bridges: D:R.472

4 x 2FG: 2-deoxy-2-fluoro-beta-D-galactopyranose(Non-covalent)

2FG.3: 9 residues within 4Å: Chain A: K.513, E.516, D.517 Chain C: K.225, E.229, E.371, A.527, K.528 Chain D: T.129 8 PLIP interactions: 4 interactions with chain C, 1 interactions with chain D, 3 interactions with chain A Hydrogen bonds: C:K.528, D:T.129, A:K.513 Water bridges: C:E.371, C:E.371, A:K.513 Salt bridges: C:K.225, A:K.513 2FG.7: 9 residues within 4Å: Chain B: K.513, E.516, D.517 Chain C: T.129 Chain D: K.225, E.229, E.371, A.527, K.528 8 PLIP interactions: 1 interactions with chain C, 3 interactions with chain B, 4 interactions with chain D Hydrogen bonds: C:T.129, B:K.513, D:K.528 Water bridges: B:K.513, D:E.371, D:E.371 Salt bridges: B:K.513, D:K.225 2FG.11: 9 residues within 4Å: Chain A: K.225, E.229, E.371, A.527, K.528 Chain B: T.129 Chain C: K.513, E.516, D.517 7 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B, 3 interactions with chain C Hydrogen bonds: A:K.528, B:T.129, B:T.129, C:K.513 Salt bridges: A:K.225, C:K.513 Water bridges: C:K.513 2FG.15: 9 residues within 4Å: Chain A: T.129 Chain B: K.225, E.229, E.371, A.527, K.528 Chain D: K.513, E.516, D.517 7 PLIP interactions: 2 interactions with chain B, 3 interactions with chain D, 2 interactions with chain A Hydrogen bonds: B:K.528, D:K.513, A:T.129, A:T.129 Salt bridges: B:K.225, D:K.513 Water bridges: D:K.513

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

MES.4: 15 residues within 4Å: Chain A: L.121, V.122, V.123, W.131, Q.132, A.133, T.135, F.136, F.137, R.139 Chain B: S.462, I.463, D.464, L.467 Chain D: L.149 7 PLIP interactions: 6 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:V.123, A:Q.132, A:Q.132, A:Q.132, A:A.133, B:D.464 Salt bridges: A:R.139 MES.8: 15 residues within 4Å: Chain A: S.462, I.463, D.464, L.467 Chain B: L.121, V.122, V.123, W.131, Q.132, A.133, T.135, F.136, F.137, R.139 Chain C: L.149 7 PLIP interactions: 1 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:D.464, B:V.123, B:Q.132, B:Q.132, B:Q.132, B:A.133 Salt bridges: B:R.139 MES.12: 15 residues within 4Å: Chain B: L.149 Chain C: L.121, V.122, V.123, W.131, Q.132, A.133, T.135, F.136, F.137, R.139 Chain D: S.462, I.463, D.464, L.467 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:V.123, C:Q.132, C:Q.132, C:Q.132, C:A.133, D:D.464 Salt bridges: C:R.139 MES.16: 15 residues within 4Å: Chain A: L.149 Chain C: S.462, I.463, D.464, L.467 Chain D: L.121, V.122, V.123, W.131, Q.132, A.133, T.135, F.136, F.137, R.139 7 PLIP interactions: 6 interactions with chain D, 1 interactions with chain C Hydrogen bonds: D:V.123, D:Q.132, D:Q.132, D:Q.132, D:A.133, C:D.464 Salt bridges: D:R.139

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Tan, T.C. et al., Structural Basis for Binding of Fluorinated Glucose and Galactose to Trametes multicolor Pyranose 2-Oxidase Variants with Improved Galactose Conversion. Plos One (2014)

Release Date

2014-02-05

Peptides

Pyranose 2-oxidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Pyranose 2-oxidase

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