SMTL ID : 3se6.1 (1 other biounit)

Crystal structure of the human Endoplasmic Reticulum Aminopeptidase 2

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.08 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: 7 residues within 4Å: Chain A: H.83, P.84, N.85, R.226, E.227, G.246, L.248 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.246 NAG-NAG.2: 5 residues within 4Å: Chain A: H.77, N.219, V.257, K.258, Y.487 No protein-ligand interaction detected (PLIP)

1 x ZN: ZINC ION(Non-covalent)

ZN.3: 5 residues within 4Å: Chain A: H.370, H.374, E.393, Y.455 Ligands: LYS.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.370, A:H.374, A:E.393, A:E.393

1 x LYS: LYSINE(Non-covalent)

LYS.4: 14 residues within 4Å: Chain A: D.198, E.200, P.333, A.335, M.336, E.337, H.370, E.371, H.374, E.393, F.450, Y.455 Ligands: ZN.3, MES.7 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.333, A:F.450 Hydrogen bonds: A:E.200, A:E.337 Salt bridges: A:H.370, A:H.374

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

NAG.5: 3 residues within 4Å: Chain A: L.401, N.405, K.466 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.405, A:K.466 NAG.6: 1 residues within 4Å: Chain A: N.650 No protein-ligand interaction detected (PLIP)

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.7: 9 residues within 4Å: Chain A: A.332, P.333, G.334, F.450, D.451, E.452, Y.455, Y.892 Ligands: LYS.4 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: A:A.332, A:G.334, A:E.452, K.4 pi-Cation interactions: A:Y.455

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Birtley, J.R. et al., The crystal structure of human endoplasmic reticulum aminopeptidase 2 reveals the atomic basis for distinct roles in antigen processing. Biochemistry (2012)

Release Date

2011-12-21

Peptides

Endoplasmic reticulum aminopeptidase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Endoplasmic reticulum aminopeptidase 2

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