SMTL ID : 2nox.3 (3 other biounits)

Crystal structure of tryptophan 2,3-dioxygenase from Ralstonia metallidurans

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-tetramer

Ligands

4 x HEM: PROTOPORPHYRIN IX CONTAINING FE(Non-covalent)

HEM.1: 24 residues within 4Å: Chain A: F.50, Q.53, H.54, T.57, W.101, L.104, S.123, G.124, F.125, Y.130, R.131, W.235, H.239, V.243, V.246, G.252, G.254, G.255, T.256, G.258, Y.261, L.262, M.265 Chain B: Y.25 23 PLIP interactions: 23 interactions with chain A, Hydrophobic interactions: A:F.50, A:Q.53, A:T.57, A:W.101, A:L.104, A:Y.130, A:Y.130, A:W.235, A:V.243, A:V.246, A:T.256, A:Y.261, A:L.262 Hydrogen bonds: A:S.123, A:S.123, A:G.254, A:T.256, A:Y.261 Water bridges: A:R.131, A:R.131 Salt bridges: A:R.131 pi-Stacking: A:H.54 Metal complexes: A:H.239 HEM.2: 22 residues within 4Å: Chain A: Y.25 Chain B: F.50, Q.53, H.54, T.57, W.101, L.104, S.123, G.124, F.125, Y.130, R.131, W.235, H.239, V.243, V.246, I.247, E.257, G.258, Y.261, L.262, M.265 22 PLIP interactions: 22 interactions with chain B, Hydrophobic interactions: B:F.50, B:Q.53, B:T.57, B:W.101, B:L.104, B:F.125, B:Y.130, B:W.235, B:V.243, B:V.246, B:I.247, B:Y.261, B:Y.261, B:L.262, B:L.262 Hydrogen bonds: B:S.123, B:G.258 Water bridges: B:R.131, B:R.131 Salt bridges: B:R.131 pi-Stacking: B:H.54 Metal complexes: B:H.239 HEM.3: 21 residues within 4Å: Chain C: F.50, Q.53, H.54, T.57, W.101, L.104, S.123, G.124, F.125, Y.130, R.131, E.134, W.235, H.239, V.243, E.257, G.258, Y.261, L.262, M.265 Chain D: Y.25 17 PLIP interactions: 17 interactions with chain C, Hydrophobic interactions: C:F.50, C:Q.53, C:T.57, C:W.101, C:L.104, C:Y.130, C:W.235, C:V.243, C:L.262 Hydrogen bonds: C:S.123, C:Y.130, C:G.258 Water bridges: C:R.131, C:R.236 Salt bridges: C:R.131 pi-Stacking: C:H.54 Metal complexes: C:H.239 HEM.4: 21 residues within 4Å: Chain C: Y.25 Chain D: F.50, Q.53, H.54, T.57, W.101, L.104, S.123, G.124, F.125, Y.130, R.131, H.239, V.243, V.246, I.247, E.257, G.258, Y.261, L.262, M.265 25 PLIP interactions: 25 interactions with chain D, Hydrophobic interactions: D:F.50, D:Q.53, D:T.57, D:W.101, D:L.104, D:F.125, D:Y.130, D:Y.130, D:V.243, D:V.246, D:I.247, D:E.257, D:Y.261, D:L.262, D:L.262 Hydrogen bonds: D:S.123, D:S.123, D:Y.130, D:G.258, D:Y.261 Water bridges: D:R.131, D:R.131 Salt bridges: D:R.131 pi-Stacking: D:H.54 Metal complexes: D:H.239

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Y. et al., Crystal structure and mechanism of tryptophan 2,3-dioxygenase, a heme enzyme involved in tryptophan catabolism and in quinolinate biosynthesis. Biochemistry (2007)

Release Date

2006-12-19

Peptides

Tryptophan 2,3-dioxygenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
I

B
J

C
K

D
L

Tryptophan 2,3-dioxygenase

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