Zinc in PDB 2cim: Crystal Structure of Methanosarcina Barkeri Seryl-Trna Synthetase

All present enzymatic activity of Crystal Structure of Methanosarcina Barkeri Seryl-Trna Synthetase:
6.1.1.11;

The structure of Crystal Structure of Methanosarcina Barkeri Seryl-Trna Synthetase, PDB code: 2cim was solved by S.Bilokapic, T.Maier, D.Ahel, I.Gruic-Sovulj, D.Soll, I.Weygand-Durasevic, N.Ban, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	19.94 / 2.51
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	97.150, 97.150, 268.500, 90.00, 90.00, 120.00
R / Rfree (%)	19.9 / 25.2

The structure of Crystal Structure of Methanosarcina Barkeri Seryl-Trna Synthetase also contains other interesting chemical elements:

Platinum	(Pt)	1 atom
Chlorine	(Cl)	2 atoms

The binding sites of Zinc atom in the Crystal Structure of Methanosarcina Barkeri Seryl-Trna Synthetase (pdb code 2cim). 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 Methanosarcina Barkeri Seryl-Trna Synthetase, PDB code: 2cim:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Methanosarcina Barkeri Seryl-Trna Synthetase


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 Methanosarcina Barkeri Seryl-Trna Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1503 b:70.8 occ:1.00 OE2 A:GLU355 1.9 64.9 1.0 SG A:CYS306 2.6 68.5 1.0 SG A:CYS461 2.6 70.3 1.0 O A:HOH2070 2.7 43.5 1.0 CD A:GLU355 3.1 64.2 1.0 CB A:CYS461 3.1 64.6 1.0 O A:HOH2089 3.4 53.5 1.0 CB A:CYS306 3.4 65.2 1.0 OE1 A:GLU355 3.7 65.0 1.0 O A:ALA304 4.1 64.2 1.0 CG A:GLU355 4.2 62.0 1.0 O A:HOH2071 4.4 53.4 1.0 N A:CYS306 4.4 65.2 1.0 CA A:CYS306 4.5 65.6 1.0 CA A:CYS461 4.6 64.7 1.0 C A:CYS461 5.0 64.2 1.0 C A:ALA304 5.0 63.8 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Methanosarcina Barkeri Seryl-Trna Synthetase


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 Methanosarcina Barkeri Seryl-Trna Synthetase within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1503 b:73.2 occ:1.00 OE2 B:GLU355 1.9 64.8 1.0 SG B:CYS461 2.4 70.2 1.0 SG B:CYS306 2.5 70.3 1.0 CB B:CYS461 3.0 66.4 1.0 CD B:GLU355 3.0 64.8 1.0 O B:HOH2098 3.3 47.4 1.0 CB B:CYS306 3.4 65.6 1.0 OE1 B:GLU355 3.6 65.0 1.0 O B:HOH2114 3.9 62.0 1.0 O B:HOH2079 4.1 56.5 1.0 O B:ALA304 4.1 64.2 1.0 CG B:GLU355 4.2 63.5 1.0 CA B:CYS461 4.4 66.4 1.0 N B:CYS306 4.5 64.7 1.0 CA B:CYS306 4.6 65.8 1.0 C B:CYS461 4.8 66.0 1.0 N B:SER462 4.8 65.7 1.0

S.Bilokapic, T.Maier, D.Ahel, I.Gruic-Sovulj, D.Soll, I.Weygand-Durasevic, N.Ban. Structure of the Unusual Seryl-Trna Synthetase Reveals A Distinct Zinc-Dependent Mode of Substrate Recognition Embo J. V. 25 2498 2006.
ISSN: ISSN 0261-4189
PubMed: 16675947
DOI: 10.1038/SJ.EMBOJ.7601129