Zinc in PDB 2q2l: Crystal Structure of Superoxide Dismutase From P. Atrosanguina

All present enzymatic activity of Crystal Structure of Superoxide Dismutase From P. Atrosanguina:
1.15.1.1;

The structure of Crystal Structure of Superoxide Dismutase From P. Atrosanguina, PDB code: 2q2l was solved by Y.Manickam, J.Gill, P.C.Mishra, A.Sharma, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 2.37
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	89.140, 64.120, 63.620, 90.00, 124.33, 90.00
R / Rfree (%)	16.7 / 23.4

The structure of Crystal Structure of Superoxide Dismutase From P. Atrosanguina also contains other interesting chemical elements:

Iodine

(I)

10 atoms

The binding sites of Zinc atom in the Crystal Structure of Superoxide Dismutase From P. Atrosanguina (pdb code 2q2l). 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 Superoxide Dismutase From P. Atrosanguina, PDB code: 2q2l:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Superoxide Dismutase From P. Atrosanguina


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 Superoxide Dismutase From P. Atrosanguina within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1001 b:24.2 occ:1.00 ND1 A:HIS79 2.0 17.0 1.0 ND1 A:HIS62 2.1 13.0 1.0 OD1 A:ASP82 2.1 19.6 1.0 ND1 A:HIS70 2.2 14.4 1.0 CG A:ASP82 2.8 18.8 1.0 CE1 A:HIS79 2.9 13.0 1.0 OD2 A:ASP82 2.9 18.3 1.0 CE1 A:HIS62 3.0 11.2 1.0 CG A:HIS62 3.1 15.5 1.0 CG A:HIS79 3.1 18.8 1.0 CE1 A:HIS70 3.1 14.6 1.0 CG A:HIS70 3.2 15.5 1.0 CB A:HIS62 3.4 16.8 1.0 CB A:HIS79 3.5 18.4 1.0 CB A:HIS70 3.6 16.7 1.0 O A:SER135 4.0 21.1 1.0 CA A:HIS70 4.0 17.2 1.0 NE2 A:HIS79 4.1 13.0 1.0 NE2 A:HIS62 4.1 12.2 1.0 CD2 A:HIS79 4.2 18.2 1.0 CD2 A:HIS62 4.2 13.7 1.0 CB A:ASP82 4.3 17.5 1.0 NE2 A:HIS70 4.3 14.8 1.0 CD2 A:HIS70 4.4 13.6 1.0 CA A:ASP82 4.7 19.3 1.0 N A:HIS79 4.7 21.3 1.0 O A:HOH2092 4.7 24.6 1.0 CA A:HIS79 4.8 19.9 1.0 N A:GLY71 4.9 17.9 1.0 C A:SER135 4.9 20.6 1.0 CD2 A:HIS45 4.9 17.7 1.0 CA A:HIS62 4.9 16.0 1.0 N A:ASP82 4.9 19.0 1.0 N A:HIS70 5.0 17.9 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Superoxide Dismutase From P. Atrosanguina


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 Superoxide Dismutase From P. Atrosanguina within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1002 b:23.0 occ:1.00 ND1 B:HIS79 1.9 14.1 1.0 OD1 B:ASP82 2.0 17.1 0.5 OD2 B:ASP82 2.0 17.1 0.5 ND1 B:HIS70 2.1 13.6 1.0 ND1 B:HIS62 2.1 18.7 1.0 CE1 B:HIS79 2.7 15.4 1.0 CG B:ASP82 2.8 20.7 0.5 CG B:ASP82 2.8 20.7 0.5 OD2 B:ASP82 2.8 20.1 0.5 OD1 B:ASP82 2.8 20.1 0.5 CE1 B:HIS70 2.9 15.8 1.0 CE1 B:HIS62 3.0 16.8 1.0 CG B:HIS79 3.0 17.3 1.0 CG B:HIS70 3.2 16.7 1.0 CG B:HIS62 3.2 17.5 1.0 CB B:HIS79 3.6 17.7 1.0 CB B:HIS62 3.6 18.5 1.0 CB B:HIS70 3.6 16.4 1.0 NE2 B:HIS79 3.8 16.2 1.0 O B:SER135 3.9 21.1 1.0 CA B:HIS70 4.0 18.9 1.0 CD2 B:HIS79 4.0 15.5 1.0 NE2 B:HIS70 4.1 13.8 1.0 NE2 B:HIS62 4.2 24.2 1.0 CD2 B:HIS70 4.2 17.3 1.0 CB B:ASP82 4.3 20.6 0.5 CB B:ASP82 4.3 20.6 0.5 CD2 B:HIS62 4.3 21.6 1.0 N B:HIS79 4.6 19.6 1.0 CA B:HIS79 4.7 19.3 1.0 N B:GLY71 4.7 18.4 1.0 CD2 B:HIS45 4.8 11.2 1.0 C B:SER135 4.8 21.5 1.0 O B:HOH2070 4.8 20.4 1.0 CA B:ASP82 4.8 20.6 1.0 C B:HIS70 4.9 18.4 1.0 CA B:THR136 4.9 17.8 1.0 O B:GLY71 5.0 18.7 1.0

M.Yogavel, J.Gill, P.C.Mishra, A.Sharma. Sad Phasing of A Structure Based on Cocrystallized Iodides Using An in-House Cu Kalpha X-Ray Source: Effects of Data Redundancy and Completeness on Structure Solution Acta Crystallogr.,Sect.D V. 63 931 2007.
ISSN: ISSN 0907-4449
PubMed: 17642520
DOI: 10.1107/S0907444907029174