Atomistry » Zinc » PDB 3sbh-3siq » 3se6
Atomistry »
  Zinc »
    PDB 3sbh-3siq »
      3se6 »

Zinc in PDB 3se6: Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2

Protein crystallography data

The structure of Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2, PDB code: 3se6 was solved by J.R.Birtley, E.Saridakis, 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 / 3.08
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 74.579, 134.362, 128.009, 90.00, 90.71, 90.00
R / Rfree (%) 21.2 / 27.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2 (pdb code 3se6). 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, PDB code: 3se6:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 3se6

Go back to Zinc Binding Sites List in 3se6
Zinc binding site 1 out of 2 in the Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2


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 within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn5000

b:31.1
occ:1.00
OE1 A:GLU393 2.0 40.3 1.0
NE2 A:HIS374 2.1 36.5 1.0
NE2 A:HIS370 2.1 39.9 1.0
OXT A:LYS968 2.1 32.9 1.0
CD A:GLU393 2.8 45.5 1.0
C A:LYS968 2.9 45.4 1.0
OE2 A:GLU393 3.0 46.3 1.0
CE1 A:HIS370 3.0 40.1 1.0
CD2 A:HIS374 3.0 36.8 1.0
CE1 A:HIS374 3.1 40.1 1.0
CD2 A:HIS370 3.2 38.9 1.0
O A:LYS968 3.4 51.6 1.0
N A:LYS968 3.9 37.8 1.0
CA A:LYS968 3.9 46.9 1.0
CE2 A:TYR455 3.9 49.3 1.0
OH A:TYR455 4.0 53.1 1.0
OE2 A:GLU337 4.1 43.0 1.0
CG A:GLU393 4.1 48.0 1.0
ND1 A:HIS370 4.1 44.8 1.0
OE1 A:GLU371 4.2 32.3 1.0
CG A:HIS374 4.2 38.9 1.0
ND1 A:HIS374 4.2 43.1 1.0
CG A:HIS370 4.3 38.7 1.0
CA A:GLU393 4.4 47.3 1.0
CZ A:TYR455 4.4 51.6 1.0
CB A:GLU393 4.4 48.2 1.0
CB A:ALA396 4.5 38.2 1.0
CB A:LYS968 4.8 39.5 1.0
CD2 A:TYR455 4.9 51.4 1.0
CD A:GLU337 4.9 48.6 1.0

Zinc binding site 2 out of 2 in 3se6

Go back to Zinc Binding Sites List in 3se6
Zinc binding site 2 out of 2 in the Crystal Structure of the Human Endoplasmic Reticulum Aminopeptidase 2


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 within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn6000

b:36.6
occ:1.00
OE1 B:GLU393 2.0 48.0 1.0
NE2 B:HIS374 2.1 38.9 1.0
OXT B:LYS968 2.1 36.0 1.0
NE2 B:HIS370 2.1 43.0 1.0
CD B:GLU393 2.7 50.5 1.0
C B:LYS968 2.7 43.6 1.0
O B:LYS968 2.9 42.1 1.0
CE1 B:HIS370 2.9 43.6 1.0
OE2 B:GLU393 2.9 45.3 1.0
CE1 B:HIS374 3.1 43.9 1.0
CD2 B:HIS374 3.1 38.8 1.0
CD2 B:HIS370 3.2 39.7 1.0
CE2 B:TYR455 3.9 49.9 1.0
CA B:LYS968 4.0 52.9 1.0
CG B:GLU393 4.0 55.9 1.0
OH B:TYR455 4.1 54.1 1.0
N B:LYS968 4.1 52.0 1.0
ND1 B:HIS370 4.1 45.4 1.0
CA B:GLU393 4.2 51.6 1.0
ND1 B:HIS374 4.2 44.9 1.0
CG B:HIS374 4.2 41.5 1.0
CB B:GLU393 4.2 54.0 1.0
CG B:HIS370 4.3 37.2 1.0
OE2 B:GLU337 4.3 51.4 1.0
CB B:ALA396 4.3 38.3 1.0
CZ B:TYR455 4.3 53.1 1.0
OE1 B:GLU371 4.4 32.8 1.0
CD2 B:TYR455 4.8 52.0 1.0
O B:GLU393 4.8 59.7 1.0
CB B:LYS968 4.9 51.5 1.0
O B:ASN392 5.0 52.6 1.0

Reference:

J.R.Birtley, E.Saridakis, E.Stratikos, I.M.Mavridis. The Crystal Structure of Human Endoplasmic Reticulum Aminopeptidase 2 Reveals the Atomic Basis For Distinct Roles in Antigen Processing. Biochemistry V. 51 286 2012.
ISSN: ISSN 0006-2960
PubMed: 22106953
DOI: 10.1021/BI201230P
Page generated: Wed Dec 16 04:50:01 2020

Last articles

Zn in 7M6U
Zn in 7NNG
Zn in 7NEE
Zn in 7NEU
Zn in 7M3K
Zn in 7KWD
Zn in 7KYH
Zn in 7KNG
Zn in 7KY2
Zn in 7KYF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy