Zinc in PDB 1rqg: Methionyl-Trna Synthetase From Pyrococcus Abyssi

All present enzymatic activity of Methionyl-Trna Synthetase From Pyrococcus Abyssi:
6.1.1.10;

The structure of Methionyl-Trna Synthetase From Pyrococcus Abyssi, PDB code: 1rqg was solved by T.Crepin, E.Schmitt, S.Blanquet, Y.Mechulam, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	72.50 / 2.90
Space group	I 41 2 2
Cell size a, b, c (Å), α, β, γ (°)	113.150, 113.150, 287.016, 90.00, 90.00, 90.00
R / Rfree (%)	24.4 / 29.7

The binding sites of Zinc atom in the Methionyl-Trna Synthetase From Pyrococcus Abyssi (pdb code 1rqg). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Methionyl-Trna Synthetase From Pyrococcus Abyssi, PDB code: 1rqg:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Methionyl-Trna Synthetase From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Methionyl-Trna Synthetase From Pyrococcus Abyssi within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn801 b:84.9 occ:1.00 SG A:CYS127 2.5 77.3 1.0 SG A:CYS173 2.6 90.7 1.0 OD1 A:ASP130 2.7 86.1 1.0 SG A:CYS176 2.7 74.2 1.0 CB A:CYS173 3.2 88.5 1.0 CG A:ASP130 3.3 86.5 1.0 CB A:CYS127 3.5 77.3 1.0 N A:CYS176 3.6 82.0 1.0 CB A:CYS176 3.7 79.3 1.0 CB A:ASP130 3.8 87.9 1.0 CB A:ILE175 4.0 83.8 1.0 OD2 A:ASP130 4.1 85.6 1.0 CA A:CYS176 4.2 81.3 1.0 C A:ILE175 4.4 83.0 1.0 CB A:ARG178 4.5 90.6 1.0 CG2 A:ILE175 4.5 83.0 1.0 CA A:CYS173 4.6 88.9 1.0 CA A:ILE175 4.6 83.7 1.0 N A:ILE175 4.7 84.2 1.0 ND1 A:HIS129 4.7 94.0 1.0 N A:ASP130 4.7 89.6 1.0 C A:CYS176 4.8 82.3 1.0 CA A:CYS127 4.8 77.7 1.0 C A:CYS173 4.8 88.9 1.0 N A:ARG178 4.9 88.4 1.0 N A:GLY177 4.9 83.7 1.0 O A:CYS173 4.9 88.8 1.0 CG A:ARG178 4.9 92.3 1.0 CA A:ASP130 4.9 88.8 1.0 CD2 A:LEU134 5.0 71.6 1.0

Zinc binding site 2 out of 2 in the Methionyl-Trna Synthetase From Pyrococcus Abyssi


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Methionyl-Trna Synthetase From Pyrococcus Abyssi within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn802 b:0.6 occ:1.00 SG A:CYS143 2.5 0.7 1.0 CB A:VAL158 2.9 0.7 1.0 CB A:CYS143 3.1 0.8 1.0 SG A:CYS146 3.3 0.3 1.0 SG A:CYS159 3.4 0.1 1.0 SG A:CYS156 3.5 0.5 1.0 CB A:CYS146 3.7 1.0 1.0 N A:GLY160 3.8 0.4 1.0 CA A:GLY160 4.1 0.7 1.0 N A:CYS159 4.2 0.9 1.0 CA A:VAL158 4.2 0.4 1.0 N A:CYS146 4.2 0.6 1.0 CA A:CYS146 4.4 0.1 1.0 N A:GLY147 4.5 0.3 1.0 C A:VAL158 4.5 0.8 1.0 CB A:ALA148 4.6 0.1 1.0 CA A:CYS143 4.6 0.3 1.0 N A:VAL158 4.7 0.6 1.0 C A:CYS146 4.8 0.9 1.0 CB A:CYS159 4.8 0.3 1.0 N A:ALA148 4.9 0.6 1.0 CB A:CYS156 4.9 0.7 1.0 C A:CYS159 4.9 0.4 1.0 CA A:CYS159 5.0 0.9 1.0

T.Crepin, E.Schmitt, S.Blanquet, Y.Mechulam. Three-Dimensional Structure of Methionyl-Trna Synthetase From Pyrococcus Abyssi. Biochemistry V. 43 2635 2004.
ISSN: ISSN 0006-2960
PubMed: 14992601
DOI: 10.1021/BI0356247