Zinc in PDB 4e36: Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2 Variant N392K

The structure of Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2 Variant N392K, PDB code: 4e36 was solved by J.R.Birtley, E.Saridakis, P.Pegias, E.Stratikos, I.M.Mavridis, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	11.00 / 3.22
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	74.340, 134.450, 127.370, 90.00, 90.85, 90.00
R / Rfree (%)	20.9 / 26.1

The binding sites of Zinc atom in the Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2 Variant N392K (pdb code 4e36). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2 Variant N392K, PDB code: 4e36:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2 Variant N392K


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2 Variant N392K within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1010 b:32.5 occ:1.00 OE1 A:GLU393 2.1 49.4 1.0 OXT A:LYS1001 2.1 34.5 1.0 NE2 A:HIS370 2.1 37.0 1.0 NE2 A:HIS374 2.1 39.8 1.0 OE2 A:GLU393 2.7 45.8 1.0 CD A:GLU393 2.7 49.8 1.0 CE1 A:HIS370 3.0 43.1 1.0 CD2 A:HIS374 3.0 39.4 1.0 C A:LYS1001 3.0 42.4 1.0 CE1 A:HIS374 3.1 44.4 1.0 CD2 A:HIS370 3.2 38.6 1.0 N A:LYS1001 3.5 49.5 1.0 O A:LYS1001 3.8 45.7 1.0 OH A:TYR455 3.8 51.6 1.0 CE2 A:TYR455 3.8 59.9 1.0 CA A:LYS1001 3.9 53.4 1.0 ND1 A:HIS370 4.2 44.3 1.0 CG A:GLU393 4.2 48.9 1.0 CG A:HIS374 4.2 36.6 1.0 ND1 A:HIS374 4.2 43.5 1.0 CZ A:TYR455 4.2 60.7 1.0 CG A:HIS370 4.3 42.0 1.0 OE2 A:GLU337 4.3 44.6 1.0 OE1 A:GLU371 4.4 41.1 1.0 CB A:ALA396 4.5 41.9 1.0 CA A:GLU393 4.7 55.7 1.0 CB A:GLU393 4.7 47.0 1.0 CD2 A:TYR455 4.9 56.9 1.0 NZ A:LYS392 5.0 50.2 1.0 CD A:GLU337 5.0 51.1 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2 Variant N392K


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2 Variant N392K within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1006 b:46.6 occ:1.00 NE2 B:HIS374 2.0 40.9 1.0 OE1 B:GLU393 2.0 54.4 1.0 NE2 B:HIS370 2.1 41.3 1.0 OXT B:LYS1005 2.1 56.0 1.0 C B:LYS1005 2.6 50.7 1.0 CD B:GLU393 2.7 55.0 1.0 OE2 B:GLU393 2.7 46.9 1.0 O B:LYS1005 2.8 47.0 1.0 CD2 B:HIS374 2.9 40.9 1.0 CE1 B:HIS370 3.0 49.1 1.0 CE1 B:HIS374 3.0 48.1 1.0 CD2 B:HIS370 3.1 38.6 1.0 CA B:LYS1005 3.7 70.0 1.0 N B:LYS1005 3.7 59.5 1.0 CE2 B:TYR455 3.9 64.4 1.0 OH B:TYR455 3.9 52.6 1.0 ND1 B:HIS374 4.1 51.0 1.0 CG B:HIS374 4.1 42.3 1.0 ND1 B:HIS370 4.1 48.6 1.0 CG B:GLU393 4.1 52.6 1.0 CG B:HIS370 4.2 45.0 1.0 CB B:ALA396 4.3 46.0 1.0 CZ B:TYR455 4.3 61.9 1.0 OE2 B:GLU337 4.3 47.0 1.0 OE1 B:GLU371 4.5 44.2 1.0 CA B:GLU393 4.6 59.0 1.0 CB B:GLU393 4.7 51.2 1.0 CB B:LYS1005 4.8 65.9 1.0 CD2 B:TYR455 4.9 61.0 1.0 NZ B:LYS392 4.9 55.4 1.0 CD B:GLU337 5.0 52.3 1.0

I.Evnouchidou, J.Birtley, S.Seregin, A.Papakyriakou, E.Zervoudi, M.Samiotaki, G.Panayotou, P.Giastas, O.Petrakis, D.Georgiadis, A.Amalfitano, E.Saridakis, I.M.Mavridis, E.Stratikos. A Common Single Nucleotide Polymorphism in Endoplasmic Reticulum Aminopeptidase 2 Induces A Specificity Switch That Leads to Altered Antigen Processing. J.Immunol. V. 189 2383 2012.
ISSN: ISSN 0022-1767
PubMed: 22837489
DOI: 10.4049/JIMMUNOL.1200918