SMTL ID : 2yd0.1

Crystal structure of the soluble domain of human endoplasmic reticulum aminopeptidase 1 ERAP1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

2 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: 6 residues within 4Å: Chain A: H.23, A.24, N.25, T.28, E.165, E.184 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 3 residues within 4Å: Chain A: H.54, Q.56, N.109 No protein-ligand interaction detected (PLIP)

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

NAG.3: 1 residues within 4Å: Chain A: N.369 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.369

1 x ZN: ZINC ION(Non-covalent)

ZN.4: 5 residues within 4Å: Chain A: H.308, H.312, E.331, Y.393 Ligands: BES.8 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.308, A:H.312, A:E.331, A:E.331

2 x K: POTASSIUM ION(Non-covalent)

K.5: 2 residues within 4Å: Chain A: E.386, R.861 No protein-ligand interaction detected (PLIP) K.6: 2 residues within 4Å: Chain A: D.250, S.253 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.250, A:D.250

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

EDO.7: 4 residues within 4Å: Chain A: Y.406, P.521, T.523, R.534 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Y.406

1 x BES: 2-(3-AMINO-2-HYDROXY-4-PHENYL-BUTYRYLAMINO)-4-METHYL-PENTANOIC ACID(Non-covalent)

BES.8: 16 residues within 4Å: Chain A: Q.136, E.138, S.271, G.272, A.273, M.274, E.275, H.308, E.309, H.312, E.331, K.335, E.338, F.388, Y.393 Ligands: ZN.4 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:E.138, A:Y.393 Hydrogen bonds: A:E.138, A:G.272, A:A.273, A:A.273, A:A.273, A:Y.393 pi-Stacking: A:F.388

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kochan, G. et al., Crystal Structures of the Endoplasmic Reticulum Aminopeptidase-1 (Erap1) Reveal the Molecular Basis for N-Terminal Peptide Trimming. Proc.Natl.Acad.Sci.USA (2011)

Release Date

2011-04-13

Peptides

ENDOPLASMIC RETICULUM AMINOPEPTIDASE 1: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ENDOPLASMIC RETICULUM AMINOPEPTIDASE 1