SMTL ID : 8cgp.1 (1 other biounit)

Insulin regulated aminopeptidase (IRAP) in complex with an allosteric aryl sulfonamide inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.62 Å

Oligo State

monomer

Ligands

1 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN-MAN.1: 10 residues within 4Å: Chain A: H.28, P.29, N.30, T.32, D.168, E.169, Q.170, D.187, G.188, L.189 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.170 Hydrophobic interactions: A:D.187

6 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 4 residues within 4Å: Chain A: K.213, N.214, L.215, S.216 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 2 residues within 4Å: Chain A: N.220, Q.257 No protein-ligand interaction detected (PLIP) NAG-NAG.4: 1 residues within 4Å: Chain A: N.371 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 6 residues within 4Å: Chain A: L.420, N.424, H.425, D.434, D.437, E.441 No protein-ligand interaction detected (PLIP) NAG-NAG.8: 3 residues within 4Å: Chain A: N.696, K.726, S.729 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 2 residues within 4Å: Chain A: N.528, T.530 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.6: 5 residues within 4Å: Chain A: N.510, Y.514, N.528, T.530, E.531 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.528, A:E.531 Hydrophobic interactions: A:Y.514

1 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.7: 2 residues within 4Å: Chain A: Y.567, N.606 No protein-ligand interaction detected (PLIP)

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.10: 2 residues within 4Å: Chain A: L.21, N.102 No protein-ligand interaction detected (PLIP)

3 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.11: 2 residues within 4Å: Chain A: R.37, N.61 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.37 NAG.12: 3 residues within 4Å: Chain A: G.59, N.61, N.112 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:N.61 Hydrogen bonds: A:N.112 NAG.13: 3 residues within 4Å: Chain A: Q.650, N.680, T.684 No protein-ligand interaction detected (PLIP)

1 x MLT: D-MALATE(Non-covalent)

MLT.14: 11 residues within 4Å: Chain A: A.273, G.274, A.275, E.277, H.310, E.311, H.314, E.333, Y.395 Ligands: ZN.15, UKG.16 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:G.274, A:A.275, A:A.275, A:Y.395 Water bridges: A:E.141, A:A.275 Salt bridges: A:H.310, A:H.314

1 x ZN: ZINC ION(Non-covalent)

ZN.15: 5 residues within 4Å: Chain A: H.310, H.314, E.333, Y.395 Ligands: MLT.14 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.310, A:H.314, A:E.333, A:E.333

1 x UKG: 4-bromanyl-5-chloranyl-~{N}-[3-(1~{H}-1,2,3,4-tetrazol-5-yl)phenyl]thiophene-2-sulfonamide(Non-covalent)

UKG.16: 12 residues within 4Å: Chain A: G.274, K.306, I.307, H.310, E.340, Y.341, F.390, D.391, Y.395, F.396, Y.807 Ligands: MLT.14 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.274, A:K.306, A:E.340 pi-Stacking: A:H.310, A:Y.807 Halogen bonds: A:D.391

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.17: 6 residues within 4Å: Chain A: E.272, S.771, F.772, R.775, T.808, N.811 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.272, A:S.771 Water bridges: A:S.771

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

EDO.18: 4 residues within 4Å: Chain A: K.366, L.620, N.856, W.859 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:W.859 EDO.19: 4 residues within 4Å: Chain A: T.58, L.143, R.146, S.147 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.58, A:T.58 Water bridges: A:R.146, A:S.147 EDO.20: 7 residues within 4Å: Chain A: I.12, L.143, R.146, D.153, W.325, S.383, I.386 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.146, A:R.146, A:D.153, A:S.383

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Mpakali, A. et al., Mechanisms of Allosteric Inhibition of Insulin-Regulated Aminopeptidase. J.Mol.Biol. (2024)

Release Date

2024-01-31

Peptides

Leucyl-cystinyl aminopeptidase, pregnancy serum form: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Leucyl-cystinyl aminopeptidase, pregnancy serum form

Related Entries With Identical Sequence