Zinc in PDB 1z1n: Crystal Structure of the Sixteen Heme Cytochrome From Desulfovibrio Gigas

The structure of Crystal Structure of the Sixteen Heme Cytochrome From Desulfovibrio Gigas, PDB code: 1z1n was solved by T.Santos-Silva, J.M.Dias, M.J.Romao, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	25.00 / 2.10
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	88.889, 90.799, 83.934, 90.00, 90.00, 90.00
R / Rfree (%)	19.4 / 26

The structure of Crystal Structure of the Sixteen Heme Cytochrome From Desulfovibrio Gigas also contains other interesting chemical elements:

Iron

(Fe)

16 atoms

The binding sites of Zinc atom in the Crystal Structure of the Sixteen Heme Cytochrome From Desulfovibrio Gigas (pdb code 1z1n). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Crystal Structure of the Sixteen Heme Cytochrome From Desulfovibrio Gigas, PDB code: 1z1n:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Crystal Structure of the Sixteen Heme Cytochrome From Desulfovibrio Gigas


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 Sixteen Heme Cytochrome From Desulfovibrio Gigas within 5.0Å range: probe atom residue distance (Å) B Occ X:Zn701 b:42.9 occ:1.00 O X:HOH1264 1.9 46.8 1.0 O X:HOH1229 2.1 39.6 1.0 ND1 X:HIS454 2.1 34.0 1.0 O X:HOH1036 2.2 40.2 1.0 O X:HOH1035 2.3 47.7 1.0 O X:HOH1034 2.3 42.5 1.0 CE1 X:HIS454 3.0 34.2 1.0 CG X:HIS454 3.1 30.7 1.0 CB X:HIS454 3.5 30.6 1.0 O X:HOH1073 3.9 49.9 1.0 CA X:HIS454 4.0 32.6 1.0 O X:HOH956 4.0 41.9 1.0 O1A X:HEC610 4.1 44.4 1.0 O X:HOH1014 4.1 41.8 1.0 NE2 X:HIS454 4.1 29.7 1.0 CD2 X:HIS454 4.2 27.8 1.0 O X:HOH1204 4.4 53.4 1.0 O X:HOH907 4.5 39.5 1.0 CD X:LYS400 4.8 47.7 1.0 O X:LYS400 4.8 59.6 1.0 CAA X:HEC610 4.9 28.2 1.0 N X:HIS454 4.9 32.5 1.0 CBA X:HEC610 5.0 39.9 1.0 CGA X:HEC610 5.0 44.4 1.0

Zinc binding site 2 out of 3 in the Crystal Structure of the Sixteen Heme Cytochrome From Desulfovibrio Gigas


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 Sixteen Heme Cytochrome From Desulfovibrio Gigas within 5.0Å range: probe atom residue distance (Å) B Occ X:Zn702 b:72.8 occ:1.00 OE1 X:GLU390 2.1 45.9 1.0 O X:HOH1305 2.2 20.0 1.0 O X:HOH1304 2.3 20.0 1.0 OE1 X:GLU387 2.5 62.0 1.0 O X:HOH1303 2.8 20.0 1.0 CD X:GLU390 3.0 39.7 1.0 OE2 X:GLU390 3.2 38.7 1.0 CD X:GLU387 3.7 63.4 1.0 OE2 X:GLU387 4.1 69.4 1.0 CG X:GLU390 4.3 39.0 1.0 O X:HOH1059 4.6 48.1 1.0 O X:HOH1072 4.6 47.2 1.0 CB X:GLU390 4.6 37.1 1.0 CG X:GLU387 5.0 53.0 1.0 CD X:LYS386 5.0 55.2 1.0 CA X:GLU387 5.0 46.8 1.0

Zinc binding site 3 out of 3 in the Crystal Structure of the Sixteen Heme Cytochrome From Desulfovibrio Gigas


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 the Sixteen Heme Cytochrome From Desulfovibrio Gigas within 5.0Å range: probe atom residue distance (Å) B Occ X:Zn703 b:70.0 occ:1.00 O2A X:HEC616 1.8 40.6 1.0 O X:HOH1311 1.9 20.0 1.0 O X:HOH1312 2.1 20.0 1.0 O X:HOH1046 2.3 42.5 1.0 O X:TRP428 2.4 52.0 1.0 CGA X:HEC616 2.9 41.9 1.0 O2D X:HEC616 3.1 57.3 1.0 O X:MET421 3.2 63.6 1.0 C X:TRP428 3.4 52.3 1.0 CBA X:HEC616 3.5 39.1 1.0 O X:GLN429 3.8 51.2 1.0 O1A X:HEC616 3.9 42.4 1.0 N X:TRP428 4.0 57.2 1.0 CB X:ASP426 4.0 70.2 1.0 CA X:TRP428 4.0 53.4 1.0 CG X:ASP426 4.2 72.2 1.0 C X:GLN429 4.2 51.0 1.0 CB X:TRP428 4.3 52.2 1.0 N X:GLN429 4.4 51.9 1.0 OD2 X:ASP426 4.4 73.6 1.0 CGD X:HEC616 4.4 58.0 1.0 C X:MET421 4.4 63.2 1.0 CA X:GLN429 4.5 52.1 1.0 OD1 X:ASN419 4.5 66.4 1.0 OD1 X:ASP426 4.6 75.2 1.0 N X:ALA430 4.8 49.2 1.0 CE X:LYS528 4.9 74.5 1.0 N X:GLU427 4.9 65.2 1.0

T.Santos-Silva, J.M.Dias, M.J.Romao. Crystal Structure of the Sixteen Heme Cytochrome From Desulfovibrio Gigas To Be Published.