SMTL ID : 7nge.4 (3 other biounits)

Crystal structure of L-Trp/Indoleamine 2,3-dioxygenagse 1 (hIDO1) complex with the JK-loop refined in the closed conformation

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

1 x NFK: N'-Formylkynurenine(Non-covalent)

NFK.1: 5 residues within 4Å: Chain A: R.107, G.253, F.254, W.255, E.256 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:E.256 Hydrogen bonds: A:R.107, A:R.107, A:E.256, A:E.256

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 7 residues within 4Å: Chain A: V.277, G.280, L.312, E.313, N.315, P.316, S.317 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.313 GOL.3: 8 residues within 4Å: Chain A: S.155, R.157, D.158, G.159, D.160, C.161, S.162, K.163 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:D.158, A:D.158, A:G.159, A:D.160, A:C.161, A:S.162, A:K.163 Water bridges: A:G.164 GOL.4: 2 residues within 4Å: Chain A: I.69, D.70 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.70 Water bridges: A:Q.115, A:Q.115 GOL.5: 4 residues within 4Å: Chain A: E.121, P.303, R.306, N.307 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.121, A:R.306, A:N.307, A:N.307 Water bridges: A:N.307 GOL.6: 6 residues within 4Å: Chain A: K.96, G.97, H.98, R.157, K.226, S.230 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.96, A:G.97, A:R.157, A:K.226, A:K.226

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

HEM.7: 20 residues within 4Å: Chain A: F.165, S.169, V.172, F.216, I.219, F.228, A.266, G.267, F.272, F.293, R.345, H.348, I.351, V.352, Y.355, I.356, L.386, F.389, L.390, V.393 16 PLIP interactions: 16 interactions with chain A, Hydrophobic interactions: A:F.165, A:V.172, A:F.216, A:F.216, A:I.219, A:F.228, A:F.272, A:F.272, A:F.293, A:I.351, A:V.352, A:Y.355, A:L.386, A:F.389 Salt bridges: A:R.345 Metal complexes: A:H.348

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mirgaux, M. et al., Temporary Intermediates of L-Trp Along the Reaction Pathway of Human Indoleamine 2,3-Dioxygenase 1 and Identification of an Exo Site. Int J Tryptophan Res (2021)

Release Date

2021-12-29

Peptides

Indoleamine 2,3-dioxygenase 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
D

Indoleamine 2,3-dioxygenase 1

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