SMTL ID : 7ah6.1

Crystal structure of indoleamine 2,3-dioxygenase 1 (IDO1) in complex with ferric heme and MMG-0752

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.00 Å

Oligo State

homo-dimer

Ligands

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

HEM.1: 24 residues within 4Å: Chain A: F.183, S.187, V.190, F.234, I.237, F.246, S.283, A.284, G.285, 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: RCW.2, RCW.3, GOL.4 19 PLIP interactions: 19 interactions with chain A, Hydrophobic interactions: A:F.183, A:V.190, A:F.234, A:I.237, A:F.246, A:F.290, A:F.290, A:F.311, A:I.369, A:V.370, A:Y.373, A:Y.373, A:I.374, A:L.404, A:F.407, A:L.408 Hydrogen bonds: A:S.283 Salt bridges: A:R.363 Metal complexes: A:H.366 HEM.5: 23 residues within 4Å: Chain B: F.183, S.187, V.190, F.234, I.237, F.246, S.283, A.284, G.285, 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: RCW.6, RCW.7 19 PLIP interactions: 19 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:I.369, B:V.370, B:Y.373, B:Y.373, B:I.374, B:I.374, B:L.404, B:F.407, B:L.408 Salt bridges: B:R.363 Metal complexes: B:H.366

4 x RCW: 4-bromanyl-2-(4~{H}-1,2,4-triazol-3-yl)aniline(Non-covalent)

RCW.2: 9 residues within 4Å: Chain A: Y.146, C.149, V.150, F.183, S.187, G.282, S.283, A.284 Ligands: HEM.1 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.146, A:V.150, A:F.183, A:F.183, A:A.284 Hydrogen bonds: A:S.187, A:S.187, A:S.283, A:A.284 RCW.3: 8 residues within 4Å: Chain A: F.234, V.289, F.290, F.293, L.362, R.363, H.366 Ligands: HEM.1 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.290, A:F.290, A:L.362 Hydrogen bonds: A:R.363 pi-Stacking: A:F.234 RCW.6: 9 residues within 4Å: Chain B: Y.146, C.149, V.150, F.183, S.187, G.282, S.283, A.284 Ligands: HEM.5 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:V.150, B:F.183, B:F.183, B:A.284 Hydrogen bonds: B:S.187, B:S.187, B:S.283, B:A.284 pi-Stacking: B:Y.146 RCW.7: 8 residues within 4Å: Chain B: F.234, F.290, F.293, L.359, L.362, R.363, H.366 Ligands: HEM.5 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:F.290 Hydrogen bonds: B:L.362, B:H.366 pi-Stacking: B:F.234, B:F.290 pi-Cation interactions: B:H.366

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 4 residues within 4Å: Chain A: H.307, F.311, F.407 Ligands: HEM.1 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rohrig, U.F. et al., Azole-Based Indoleamine 2,3-Dioxygenase 1 (IDO1) Inhibitors. J.Med.Chem. (2021)

Release Date

2021-02-17

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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