Zinc in PDB 2vqk: Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV)

The structure of Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV), PDB code: 2vqk was solved by K.Ziegler, R.Benz, G.E.Schulz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	52.705 / 4.2
Space group	P 64 2 2
Cell size a, b, c (Å), α, β, γ (°)	81.370, 81.370, 80.140, 90.00, 90.00, 120.00
R / Rfree (%)	41.86 / n/a

The structure of Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV) also contains other interesting chemical elements:

Arsenic

(As)

3 atoms

The binding sites of Zinc atom in the Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV) (pdb code 2vqk). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV), PDB code: 2vqk:
Jump to Zinc binding site number: 1; 2; 3; 4; 5; 6;

Zinc binding site 1 out of 6 in the Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV)


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 Porb From Corynebacterium Glutamicum ( Crystal Form IV) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1093 b:0.5 occ:1.00 OD2 A:ASP76 2.0 0.6 1.0 O1 A:CAC1092 2.2 0.2 0.5 O1 A:CAC1090 2.6 0.2 0.5 CG A:ASP76 2.6 0.9 1.0 OD1 A:ASP76 2.7 0.5 1.0 AS A:CAC1092 3.5 0.2 0.5 AS A:CAC1090 3.5 0.2 0.5 C1 A:CAC1090 3.8 0.2 0.5 CB A:ASP76 4.0 1.0 1.0 O2 A:CAC1090 4.0 0.2 0.5 O2 A:CAC1092 4.0 0.2 0.5 C2 A:CAC1092 4.1 0.2 0.5 O A:ALA72 4.8 0.5 1.0

Zinc binding site 2 out of 6 in the Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV)


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 Porb From Corynebacterium Glutamicum ( Crystal Form IV) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1094 b:0.5 occ:0.50 OE2 A:GLU26 2.0 0.4 1.0 O2 A:CAC1091 2.2 0.2 1.0 CD A:GLU26 3.1 0.2 1.0 AS A:CAC1091 3.3 0.2 1.0 OE1 A:GLU26 3.7 0.2 1.0 C2 A:CAC1091 3.8 0.2 1.0 ZN A:ZN1095 3.8 0.5 0.5 O1 A:CAC1091 3.8 0.2 1.0 CG A:GLU26 4.4 0.9 1.0

Zinc binding site 3 out of 6 in the Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1095 b:0.5 occ:0.50 OE1 A:GLU37 2.1 0.0 1.0 O1 A:CAC1091 2.4 0.2 1.0 O2 A:CAC1091 2.7 0.2 1.0 CD A:GLU37 2.8 0.4 1.0 AS A:CAC1091 3.0 0.2 1.0 OE2 A:GLU37 3.0 0.9 1.0 C1 A:CAC1091 3.7 0.2 1.0 ZN A:ZN1094 3.8 0.5 0.5 CG A:GLU37 4.2 0.1 1.0 C2 A:CAC1091 4.8 0.2 1.0 CB A:GLU37 4.8 0.2 1.0

Zinc binding site 4 out of 6 in the Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1096 b:0.5 occ:1.00 OE1 A:GLU46 3.2 0.8 1.0 OE2 A:GLU46 3.2 0.3 1.0 CD A:GLU46 3.6 0.2 1.0

Zinc binding site 5 out of 6 in the Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 5 of Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1097 b:0.5 occ:1.00 OE1 A:GLN62 2.3 0.4 1.0 CD A:GLN62 3.2 1.0 1.0 NE2 A:GLN62 3.8 0.1 1.0 CG A:GLN62 4.2 0.1 1.0 CB A:GLN62 4.9 0.4 1.0 CD1 A:PHE60 5.0 0.4 1.0

Zinc binding site 6 out of 6 in the Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 6 of Crystal Structure of Porb From Corynebacterium Glutamicum ( Crystal Form IV) within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1098 b:0.5 occ:1.00 OE2 A:GLU68 2.6 0.7 1.0 CD A:GLU68 3.8 0.1 1.0 OE2 A:GLU53 4.4 0.5 1.0 CG A:GLU68 4.4 0.4 1.0 OE1 A:GLU68 4.8 0.9 1.0

K.Ziegler, R.Benz, G.E.Schulz. A Putative Alpha-Helical Porin From Corynebacterium Glutamicum. J.Mol.Biol. V. 379 482 2008.
ISSN: ISSN 0022-2836
PubMed: 18462756
DOI: 10.1016/J.JMB.2008.04.017