SMTL ID : 6dpr.1 (1 other biounit)

Mapping the binding trajectory of a suicide inhibitor in human indoleamine 2,3-dioxygenase 1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.20 Å

Oligo State

monomer

Ligands

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

HEM.1: 19 residues within 4Å: Chain A: F.152, S.156, V.159, F.203, F.215, A.253, G.254, F.259, R.332, H.335, I.338, V.339, Y.342, I.343, L.373, F.376, L.377, V.380 Ligands: H7P.2 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:F.152, A:V.159, A:F.203, A:F.215, A:A.253, A:F.259, A:I.338, A:V.339, A:Y.342, A:Y.342, A:I.343, A:L.373, A:L.373, A:L.377 Water bridges: A:H.335, A:L.377 Salt bridges: A:R.332 Metal complexes: A:H.335

1 x H7P: (2R)-N-(4-chlorophenyl)-2-[cis-4-(6-fluoroquinolin-4-yl)cyclohexyl]propanamide(Non-covalent)

H7P.2: 12 residues within 4Å: Chain A: F.152, F.215, L.223, S.224, G.225, W.226, K.227, S.252, A.253, Y.287, I.343 Ligands: HEM.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.152, A:F.215, A:W.226, A:K.227 Hydrogen bonds: A:W.226

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 3 residues within 4Å: Chain A: P.290, R.293, N.294 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.293 EDO.4: 4 residues within 4Å: Chain A: P.110, P.111, W.226, R.286 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.286 EDO.5: 2 residues within 4Å: Chain A: E.300, N.302 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.300, A:N.302 EDO.6: 7 residues within 4Å: Chain A: V.264, G.267, L.299, E.300, N.302, P.303, S.304 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.264, A:N.302 EDO.7: 3 residues within 4Å: Chain A: L.310, R.318, K.390 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.318

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pham, K.N. et al., Mapping the Binding Trajectory of a Suicide Inhibitor in Human Indoleamine 2,3-Dioxygenase 1. J. Am. Chem. Soc. (2018)

Release Date

2018-11-07

Peptides

Indoleamine 2,3-dioxygenase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Indoleamine 2,3-dioxygenase 1

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