SMTL ID : 5wmx.2 (1 other biounit)

Structural Insights into Substrate and Inhibitor Binding Sites in Human Indoleamine 2,3-Dioxygenase 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.69 Å

Oligo State

monomer

Ligands

1 x CYN: CYANIDE ION(Non-covalent)

CYN.1: 6 residues within 4Å: Chain A: S.253, A.254, G.255, H.336 Ligands: HEM.2, TRP.3 3 PLIP interactions: 1 Ligand-Ligand interactions, 2 interactions with chain A Hydrogen bonds: W.3, A:A.254, A:G.255

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

HEM.2: 25 residues within 4Å: Chain A: F.153, V.160, F.204, I.207, F.216, A.254, G.255, G.260, R.333, H.336, I.339, V.340, Y.343, I.344, G.368, T.369, G.370, T.372, L.374, F.377, L.378, V.381 Ligands: CYN.1, TRP.3, ZCW.4 25 PLIP interactions: 22 interactions with chain A, 3 Ligand-Ligand interactions Hydrophobic interactions: A:F.153, A:V.160, A:F.204, A:I.207, A:F.216, A:A.254, A:I.339, A:V.340, A:Y.343, A:Y.343, A:F.377, A:F.377 Hydrogen bonds: A:G.368, A:T.369, A:G.370, A:T.372, A:T.372, W.3 Water bridges: A:R.333 Salt bridges: A:R.333 pi-Stacking: A:H.336, W.3, W.3 pi-Cation interactions: A:H.336 Metal complexes: A:H.336

1 x TRP: TRYPTOPHAN(Non-covalent)

TRP.3: 15 residues within 4Å: Chain A: Y.116, C.119, V.120, F.153, F.216, R.221, L.224, G.252, S.253, A.254, I.344, G.368, T.369 Ligands: CYN.1, HEM.2 8 PLIP interactions: 8 interactions with chain A, Hydrophobic interactions: A:Y.116, A:V.120, A:F.153, A:L.224 Hydrogen bonds: A:A.254, A:T.369 Salt bridges: A:R.221 pi-Stacking: A:F.153

1 x ZCW: 2-(1H-indol-3-yl)ethanol(Non-covalent)

ZCW.4: 9 residues within 4Å: Chain A: L.197, V.259, G.260, F.263, L.329, L.332, R.333, H.336 Ligands: HEM.2 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.197, A:V.259, A:F.263, A:L.329, A:L.332 Hydrogen bonds: A:H.336

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lewis-Ballester, A. et al., Structural insights into substrate and inhibitor binding sites in human indoleamine 2,3-dioxygenase 1. Nat Commun (2017)

Release Date

2017-12-06

Peptides

Indoleamine 2,3-dioxygenase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Indoleamine 2,3-dioxygenase 1

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