SMTL ID : 4e36.1 (1 other biounit)

Crystal structure of the human Endoplasmic Reticulum Aminopeptidase 2 variant N392K

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 3.22 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, T.87, R.226, E.227, L.248 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 6 residues within 4Å: Chain A: H.77, N.219, T.255, V.257, K.258, Y.487 No protein-ligand interaction detected (PLIP)

1 x LYS: LYSINE(Non-covalent)

LYS.3: 13 residues within 4Å: Chain A: D.198, E.200, P.333, A.335, E.337, H.370, E.371, H.374, K.392, E.393, Y.455 Ligands: MES.7, ZN.8 5 PLIP interactions: 5 interactions with chain A, Hydrophobic interactions: A:P.333 Hydrogen bonds: A:D.198, A:E.200 Water bridges: A:D.198 Salt bridges: A:H.370

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

NAG.4: 4 residues within 4Å: Chain A: L.401, I.402, N.405, K.466 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.405 NAG.5: 3 residues within 4Å: Chain A: N.650, T.652, L.653 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.653 NAG.6: 1 residues within 4Å: Chain A: N.103 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.103

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

MES.7: 6 residues within 4Å: Chain A: P.333, G.334, W.363, Y.455, Y.892 Ligands: LYS.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.334, A:R.345

1 x ZN: ZINC ION(Non-covalent)

ZN.8: 5 residues within 4Å: Chain A: H.370, H.374, E.393, Y.455 Ligands: LYS.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.370, A:H.374, A:E.393, A:E.393

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Evnouchidou, I. et al., A common single nucleotide polymorphism in endoplasmic reticulum aminopeptidase 2 induces a specificity switch that leads to altered antigen processing. J.Immunol. (2012)

Release Date

2012-08-29

Peptides

Endoplasmic reticulum aminopeptidase 2: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Endoplasmic reticulum aminopeptidase 2

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