SMTL ID : 6r63.1

Crystal structure of indoleamine 2,3-dioxygenase 1 (IDO1) in complex with ferric heme and MMG-0358

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.89 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 20 residues within 4Å: Chain A: F.183, S.187, V.190, F.234, F.246, S.283, A.284, F.290, F.311, R.363, H.366, I.369, V.370, Y.373, I.374, L.404, F.407, L.408, V.411 Ligands: JTB.2 18 PLIP interactions: 18 interactions with chain A, Hydrophobic interactions: A:F.183, A:V.190, A:F.234, A:F.234, A:F.246, A:F.290, A:F.290, A:F.311, A:I.369, A:V.370, A:Y.373, A:I.374, A:L.404, A:F.407, A:F.407 Hydrogen bonds: A:S.283 Salt bridges: A:R.363 Metal complexes: A:H.366 HEM.3: 22 residues within 4Å: Chain B: F.183, S.187, V.190, F.234, I.237, F.246, S.283, A.284, F.290, F.311, R.363, H.366, I.369, V.370, Y.373, I.374, L.404, F.407, L.408, V.411 Ligands: JTB.4, JTB.5 15 PLIP interactions: 15 interactions with chain B, Hydrophobic interactions: B:F.183, B:V.190, B:F.234, B:I.237, B:F.246, B:A.284, B:F.290, B:F.290, B:F.311, B:I.369, B:V.370, B:Y.373, B:Y.373 Salt bridges: B:R.363 Metal complexes: B:H.366

3 x JTB: 4-chloranyl-2-(2~{H}-1,2,3-triazol-4-yl)phenol(Non-covalent)

JTB.2: 10 residues within 4Å: Chain A: Y.146, C.149, V.150, F.183, S.187, L.254, G.282, S.283, A.284 Ligands: HEM.1 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.150, A:F.183, A:F.183 Hydrogen bonds: A:S.187, A:S.187, A:A.284 pi-Stacking: A:Y.146 JTB.4: 11 residues within 4Å: Chain B: Y.146, C.149, V.150, F.183, F.184, S.187, L.254, G.282, S.283, A.284 Ligands: HEM.3 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:V.150, B:F.183, B:F.183, B:F.184, B:F.184, B:A.284 Hydrogen bonds: B:S.187, B:S.187, B:A.284 pi-Stacking: B:Y.146 JTB.5: 8 residues within 4Å: Chain B: A.194, L.227, F.290, L.359, L.362, R.363, H.366 Ligands: HEM.3 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.290, B:L.359 Hydrogen bonds: B:F.290, B:H.366 pi-Stacking: B:H.366

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rohrig, U.F. et al., Inhibition Mechanisms of Indoleamine 2,3-Dioxygenase 1 (IDO1). J.Med.Chem. (2019)

Release Date

2019-10-02

Peptides

Indoleamine 2,3-dioxygenase 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Indoleamine 2,3-dioxygenase 1

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