SMTL ID : 5g3u.1

The structure of the L-tryptophan oxidase VioA from Chromobacterium violaceum in complex with its inhibitor 2-(1H-indol-3-ylmethyl)prop-2- enoic acid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.38 Å

Oligo State

homo-dimer

Ligands

2 x FDA: DIHYDROFLAVINE-ADENINE DINUCLEOTIDE(Non-covalent)

FDA.1: 42 residues within 4Å: Chain A: V.15, G.16, A.17, G.18, I.19, S.20, G.21, F.42, D.43, M.44, Q.45, G.49, G.50, R.51, I.52, L.65, G.66, A.67, G.68, R.69, Y.70, Y.211, R.212, L.213, A.245, I.246, P.247, A.250, L.254, L.272, K.274, Y.314, W.364, G.367, S.393, D.394, G.401, W.402, M.403, E.404, G.406 Ligands: ITW.2 35 PLIP interactions: 35 interactions with chain A Hydrophobic interactions: A:R.51, A:L.272, A:W.364 Hydrogen bonds: A:G.18, A:S.20, A:S.20, A:S.20, A:M.44, A:G.49, A:R.51, A:R.51, A:G.68, A:R.69, A:R.69, A:R.69, A:L.213, A:L.213, A:D.394, A:D.394, A:W.402, A:M.403 Water bridges: A:I.19, A:I.19, A:G.21, A:D.43, A:D.43, A:Q.45, A:R.51, A:G.66, A:R.212, A:S.393, A:S.393, A:E.404 Salt bridges: A:R.51, A:R.51 FDA.3: 42 residues within 4Å: Chain B: V.15, G.16, A.17, G.18, I.19, S.20, G.21, F.42, D.43, M.44, Q.45, G.49, G.50, R.51, I.52, L.65, G.66, A.67, G.68, R.69, Y.70, W.182, Y.211, R.212, L.213, A.245, I.246, P.247, A.250, L.254, L.272, K.274, Y.314, W.364, G.367, S.393, D.394, G.401, W.402, M.403, E.404 Ligands: ITW.4 35 PLIP interactions: 35 interactions with chain B Hydrophobic interactions: B:R.51, B:L.272, B:W.364 Hydrogen bonds: B:G.18, B:S.20, B:S.20, B:S.20, B:D.43, B:M.44, B:G.49, B:R.51, B:R.51, B:G.68, B:R.69, B:R.69, B:R.69, B:L.213, B:L.213, B:D.394, B:D.394, B:D.394, B:M.403 Water bridges: B:I.19, B:G.21, B:D.43, B:G.50, B:R.51, B:I.52, B:G.66, B:R.212, B:S.393, B:S.393, B:E.404 Salt bridges: B:R.51, B:R.51

2 x ITW: 2-[(1H-indol-3-yl)methyl]prop-2-enoic acid(Non-covalent)

ITW.2: 14 residues within 4Å: Chain A: R.69, Y.148, A.150, I.164, H.168, L.270, L.272, Y.314, D.316, V.368, C.400, G.401, W.402 Ligands: FDA.1 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.148, A:A.150, A:I.164, A:L.272, A:V.368, A:W.402 Hydrogen bonds: A:Y.314 Water bridges: A:C.400 Salt bridges: A:R.69, A:H.168 pi-Stacking: A:H.168, A:H.168 ITW.4: 14 residues within 4Å: Chain B: R.69, Y.148, A.150, I.164, H.168, L.270, L.272, Y.314, D.316, V.368, C.400, G.401, W.402 Ligands: FDA.3 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:Y.148, B:A.150, B:L.272, B:D.316, B:V.368, B:W.402 Hydrogen bonds: B:H.168, B:Y.314 Water bridges: B:W.402 Salt bridges: B:R.69, B:H.168 pi-Stacking: B:H.168, B:H.168

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 3 residues within 4Å: Chain B: V.140, R.144, D.297 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.144, B:R.144 Water bridges: B:D.297

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fuller, J.J. et al., Biosynthesis of Violacein, Structure and Function of l-Tryptophan Oxidase VioA from Chromobacterium violaceum. J.Biol.Chem. (2016)

Release Date

2016-08-03

Peptides

L-TRYPTOPHAN OXIDASE VIOA: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

L-TRYPTOPHAN OXIDASE VIOA

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