SMTL ID : 1dzn.1

Asp170Ser mutant of vanillyl-alcohol oxidase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-octamer

Ligands

8 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Covalent)

FAD.1: 33 residues within 4Å: Chain A: W.98, P.99, I.100, S.101, I.102, G.103, R.104, N.105, S.106, G.110, P.144, P.169, S.170, L.171, G.174, S.175, L.177, G.178, N.179, V.181, E.182, G.184, V.185, Y.187, G.260, I.261, V.262, W.413, H.422, F.424, R.504, K.545 Ligands: EUG.2 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:L.171, A:W.413, A:F.424 Hydrogen bonds: A:S.101, A:S.101, A:I.102, A:G.103, A:R.104, A:N.105, A:S.170, A:S.175, A:N.179, A:N.179, A:V.185, A:V.185, A:V.262, A:R.504, A:R.504 Water bridges: A:L.171 pi-Stacking: A:F.424 FAD.3: 33 residues within 4Å: Chain B: W.98, P.99, I.100, S.101, I.102, G.103, R.104, N.105, S.106, G.110, P.169, S.170, L.171, G.174, S.175, L.177, G.178, N.179, E.182, G.184, V.185, Y.187, G.260, I.261, V.262, W.413, I.414, H.422, F.424, Y.503, R.504, K.545 Ligands: EUG.4 23 PLIP interactions: 23 interactions with chain B Hydrophobic interactions: B:L.171, B:W.413, B:I.414 Hydrogen bonds: B:S.101, B:S.101, B:I.102, B:G.103, B:R.104, B:N.105, B:N.105, B:S.106, B:S.170, B:S.175, B:N.179, B:V.185, B:V.185, B:Y.187, B:V.262, B:Y.503, B:R.504, B:R.504 Water bridges: B:L.171 pi-Stacking: B:F.424 FAD.5: 33 residues within 4Å: Chain C: W.98, P.99, I.100, S.101, I.102, G.103, R.104, N.105, S.106, G.110, P.144, P.169, S.170, L.171, G.174, S.175, L.177, G.178, N.179, V.181, E.182, G.184, V.185, Y.187, G.260, I.261, V.262, W.413, H.422, F.424, R.504, K.545 Ligands: EUG.6 20 PLIP interactions: 20 interactions with chain C Hydrophobic interactions: C:L.171, C:W.413, C:F.424 Hydrogen bonds: C:S.101, C:S.101, C:I.102, C:G.103, C:R.104, C:N.105, C:S.170, C:S.175, C:N.179, C:N.179, C:V.185, C:V.185, C:V.262, C:R.504, C:R.504 Water bridges: C:L.171 pi-Stacking: C:F.424 FAD.7: 33 residues within 4Å: Chain D: W.98, P.99, I.100, S.101, I.102, G.103, R.104, N.105, S.106, G.110, P.169, S.170, L.171, G.174, S.175, L.177, G.178, N.179, E.182, G.184, V.185, Y.187, G.260, I.261, V.262, W.413, I.414, H.422, F.424, Y.503, R.504, K.545 Ligands: EUG.8 23 PLIP interactions: 23 interactions with chain D Hydrophobic interactions: D:L.171, D:W.413, D:I.414 Hydrogen bonds: D:S.101, D:S.101, D:I.102, D:G.103, D:R.104, D:N.105, D:N.105, D:S.106, D:S.170, D:S.175, D:N.179, D:V.185, D:V.185, D:Y.187, D:V.262, D:Y.503, D:R.504, D:R.504 Water bridges: D:L.171 pi-Stacking: D:F.424 FAD.9: 33 residues within 4Å: Chain E: W.98, P.99, I.100, S.101, I.102, G.103, R.104, N.105, S.106, G.110, P.144, P.169, S.170, L.171, G.174, S.175, L.177, G.178, N.179, V.181, E.182, G.184, V.185, Y.187, G.260, I.261, V.262, W.413, H.422, F.424, R.504, K.545 Ligands: EUG.10 20 PLIP interactions: 20 interactions with chain E Hydrophobic interactions: E:L.171, E:W.413, E:F.424 Hydrogen bonds: E:S.101, E:S.101, E:I.102, E:G.103, E:R.104, E:N.105, E:S.170, E:S.175, E:N.179, E:N.179, E:V.185, E:V.185, E:V.262, E:R.504, E:R.504 Water bridges: E:L.171 pi-Stacking: E:F.424 FAD.11: 33 residues within 4Å: Chain F: W.98, P.99, I.100, S.101, I.102, G.103, R.104, N.105, S.106, G.110, P.169, S.170, L.171, G.174, S.175, L.177, G.178, N.179, E.182, G.184, V.185, Y.187, G.260, I.261, V.262, W.413, I.414, H.422, F.424, Y.503, R.504, K.545 Ligands: EUG.12 23 PLIP interactions: 23 interactions with chain F Hydrophobic interactions: F:L.171, F:W.413, F:I.414 Hydrogen bonds: F:S.101, F:S.101, F:I.102, F:G.103, F:R.104, F:N.105, F:N.105, F:S.106, F:S.170, F:S.175, F:N.179, F:V.185, F:V.185, F:Y.187, F:V.262, F:Y.503, F:R.504, F:R.504 Water bridges: F:L.171 pi-Stacking: F:F.424 FAD.13: 33 residues within 4Å: Chain G: W.98, P.99, I.100, S.101, I.102, G.103, R.104, N.105, S.106, G.110, P.144, P.169, S.170, L.171, G.174, S.175, L.177, G.178, N.179, V.181, E.182, G.184, V.185, Y.187, G.260, I.261, V.262, W.413, H.422, F.424, R.504, K.545 Ligands: EUG.14 20 PLIP interactions: 20 interactions with chain G Hydrophobic interactions: G:L.171, G:W.413, G:F.424 Hydrogen bonds: G:S.101, G:S.101, G:I.102, G:G.103, G:R.104, G:N.105, G:S.170, G:S.175, G:N.179, G:N.179, G:V.185, G:V.185, G:V.262, G:R.504, G:R.504 Water bridges: G:L.171 pi-Stacking: G:F.424 FAD.15: 33 residues within 4Å: Chain H: W.98, P.99, I.100, S.101, I.102, G.103, R.104, N.105, S.106, G.110, P.169, S.170, L.171, G.174, S.175, L.177, G.178, N.179, E.182, G.184, V.185, Y.187, G.260, I.261, V.262, W.413, I.414, H.422, F.424, Y.503, R.504, K.545 Ligands: EUG.16 23 PLIP interactions: 23 interactions with chain H Hydrophobic interactions: H:L.171, H:W.413, H:I.414 Hydrogen bonds: H:S.101, H:S.101, H:I.102, H:G.103, H:R.104, H:N.105, H:N.105, H:S.106, H:S.170, H:S.175, H:N.179, H:V.185, H:V.185, H:Y.187, H:V.262, H:Y.503, H:R.504, H:R.504 Water bridges: H:L.171 pi-Stacking: H:F.424

8 x EUG: 2-methoxy-4-[(1E)-prop-1-en-1-yl]phenol(Non-covalent)

EUG.2: 10 residues within 4Å: Chain A: Y.108, S.170, V.185, Y.187, F.424, T.459, I.468, Y.503, R.504 Ligands: FAD.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.468, A:I.468, A:I.468 Hydrogen bonds: A:Y.503 pi-Stacking: A:F.424 EUG.4: 10 residues within 4Å: Chain B: Y.108, S.170, V.185, Y.187, F.424, H.466, I.468, Y.503, R.504 Ligands: FAD.3 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:Y.108, B:I.468, B:I.468 Hydrogen bonds: B:Y.108, B:Y.503, B:Y.503 pi-Stacking: B:F.424 EUG.6: 10 residues within 4Å: Chain C: Y.108, S.170, V.185, Y.187, F.424, T.459, I.468, Y.503, R.504 Ligands: FAD.5 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:I.468, C:I.468, C:I.468 Hydrogen bonds: C:Y.503 pi-Stacking: C:F.424 EUG.8: 10 residues within 4Å: Chain D: Y.108, S.170, V.185, Y.187, F.424, H.466, I.468, Y.503, R.504 Ligands: FAD.7 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:Y.108, D:I.468, D:I.468 Hydrogen bonds: D:Y.108, D:Y.503, D:Y.503 pi-Stacking: D:F.424 EUG.10: 10 residues within 4Å: Chain E: Y.108, S.170, V.185, Y.187, F.424, T.459, I.468, Y.503, R.504 Ligands: FAD.9 5 PLIP interactions: 5 interactions with chain E Hydrophobic interactions: E:I.468, E:I.468, E:I.468 Hydrogen bonds: E:Y.503 pi-Stacking: E:F.424 EUG.12: 10 residues within 4Å: Chain F: Y.108, S.170, V.185, Y.187, F.424, H.466, I.468, Y.503, R.504 Ligands: FAD.11 7 PLIP interactions: 7 interactions with chain F Hydrophobic interactions: F:Y.108, F:I.468, F:I.468 Hydrogen bonds: F:Y.108, F:Y.503, F:Y.503 pi-Stacking: F:F.424 EUG.14: 10 residues within 4Å: Chain G: Y.108, S.170, V.185, Y.187, F.424, T.459, I.468, Y.503, R.504 Ligands: FAD.13 5 PLIP interactions: 5 interactions with chain G Hydrophobic interactions: G:I.468, G:I.468, G:I.468 Hydrogen bonds: G:Y.503 pi-Stacking: G:F.424 EUG.16: 10 residues within 4Å: Chain H: Y.108, S.170, V.185, Y.187, F.424, H.466, I.468, Y.503, R.504 Ligands: FAD.15 7 PLIP interactions: 7 interactions with chain H Hydrophobic interactions: H:Y.108, H:I.468, H:I.468 Hydrogen bonds: H:Y.108, H:Y.503, H:Y.503 pi-Stacking: H:F.424

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Van Den Heuvel, R.H.H. et al., Asp170 is Crucial for the Redox Properties of Vanillyl-Alcohol Oxidase. J.Biol.Chem. (2000)

Release Date

2000-03-07

Peptides

VANILLYL-ALCOHOL OXIDASE: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

G
A

H
B

VANILLYL-ALCOHOL OXIDASE