SMTL ID : 4pj6.1

Crystal Structure of Human Insulin Regulated Aminopeptidase with Lysine in Active Site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.96 Å

Oligo State

homo-dimer

Ligands

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

NAG-NAG.1: 4 residues within 4Å: Chain B: R.23, Q.46, G.101, N.103 No protein-ligand interaction detected (PLIP)

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 5 residues within 4Å: Chain A: E.278, H.311, H.315, E.334 Ligands: LYS.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.311, A:H.315, A:E.334, A:E.334, LYS.3 ZN.11: 4 residues within 4Å: Chain B: H.311, H.315, E.334 Ligands: LYS.12 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.311, B:H.315, B:E.334, B:E.334

2 x LYS: LYSINE(Non-covalent)

LYS.3: 9 residues within 4Å: Chain A: Q.140, E.142, A.276, E.278, H.311, E.312, E.334, F.391 Ligands: ZN.2 3 PLIP interactions: 3 interactions with chain A, Hydrogen bonds: A:E.142 Water bridges: A:E.388, A:E.388 LYS.12: 9 residues within 4Å: Chain B: E.142, A.276, M.277, E.278, H.311, E.312, E.334, F.391 Ligands: ZN.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.142, B:E.142

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

NAG.4: 7 residues within 4Å: Chain A: H.29, P.30, N.31, T.33, R.168, D.169, L.190 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:D.169, A:L.190 Hydrogen bonds: A:N.31, A:T.33, A:D.169, A:D.169 NAG.5: 4 residues within 4Å: Chain A: G.60, N.62, S.111, N.113 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:N.62 Hydrogen bonds: A:N.113 NAG.6: 4 residues within 4Å: Chain A: N.372, K.461, D.494, Y.497 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.372, A:K.461, A:D.494, A:Y.497, A:Y.497 NAG.7: 1 residues within 4Å: Chain A: N.529 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.529 NAG.8: 2 residues within 4Å: Chain A: N.697, K.727 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.727 NAG.9: 4 residues within 4Å: Chain A: L.22, Q.46, G.101, N.103 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.46 NAG.10: 3 residues within 4Å: Chain A: Y.568, N.607, H.608 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.607 NAG.13: 6 residues within 4Å: Chain B: H.29, N.31, T.33, I.167, D.169, L.190 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:L.190 Hydrogen bonds: B:N.31, B:T.33, B:D.169, B:D.169 NAG.14: 5 residues within 4Å: Chain B: G.60, N.62, S.111, A.112, N.113 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:N.62 Hydrogen bonds: B:N.113 NAG.15: 3 residues within 4Å: Chain B: N.215, L.216, S.217 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.216 Hydrogen bonds: B:S.217, B:S.217 NAG.16: 2 residues within 4Å: Chain B: N.221, Q.258 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.258 NAG.17: 4 residues within 4Å: Chain B: L.421, N.425, H.426, E.442 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:L.421 NAG.18: 2 residues within 4Å: Chain B: V.527, N.529 No protein-ligand interaction detected (PLIP) NAG.19: 3 residues within 4Å: Chain B: Y.568, N.607, H.608 No protein-ligand interaction detected (PLIP) NAG.20: 1 residues within 4Å: Chain B: N.697 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.697

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hermans, S.J. et al., Crystal structure of human insulin-regulated aminopeptidase with specificity for cyclic peptides. Protein Sci. (2015)

Release Date

2014-12-03

Peptides

Leucyl-cystinyl aminopeptidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Leucyl-cystinyl aminopeptidase

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