SMTL ID : 8p0i.2 (1 other biounit)

Crystal structure of the open conformation of insulin-regulated aminopeptidase in complex with a small-MW inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.50 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA: beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA.1: 4 residues within 4Å: Chain A: N.424, H.425, D.437, E.441 No protein-ligand interaction detected (PLIP)

3 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG.2: 3 residues within 4Å: Chain A: Y.567, N.606, M.662 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain A: Q.650, N.680 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 2 residues within 4Å: Chain A: L.21, N.102 No protein-ligand interaction detected (PLIP)

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose

NAG.5: 2 residues within 4Å: Chain A: H.28, N.30 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:N.30 NAG.6: 1 residues within 4Å: Chain A: N.61 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.61 NAG.7: 3 residues within 4Å: Chain A: N.696, K.726, S.729 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.726, A:S.729 NAG.8: 1 residues within 4Å: Chain A: N.112 No protein-ligand interaction detected (PLIP) NAG.9: 2 residues within 4Å: Chain A: N.220, Q.257 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.220 NAG.10: 2 residues within 4Å: Chain A: N.371, R.844 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.844, A:R.844

1 x WC3: 2-[2-(3,5-dimethylpyrazol-1-yl)-6-(4-methoxyphenyl)pyrimidin-4-yl]oxy-N-methyl-N-[(2-methylpyridin-3-yl)methyl]ethanamide

WC3.11: 21 residues within 4Å: Chain A: Y.118, Q.139, E.141, P.142, Y.203, A.275, M.276, E.277, H.310, E.311, H.314, F.317, G.318, L.329, N.332, E.333, E.387, F.390, Y.395, S.806 Ligands: ZN.12 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:Y.118, A:A.275, A:L.329, A:F.390

1 x ZN: ZINC ION

ZN.12: 5 residues within 4Å: Chain A: H.310, E.311, H.314, E.333 Ligands: WC3.11 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.310, A:H.314, A:E.333, A:E.333

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mpakali, A. et al., Stabilization of the open conformation omicron f insulin-regulated aminopeptidase by a novel substrate-selective small-molecule inhibitor. Protein Sci. (2024)

Release Date

2024-09-04

Peptides

Leucyl-cystinyl aminopeptidase, pregnancy serum form: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Leucyl-cystinyl aminopeptidase, pregnancy serum form

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