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Zinc in PDB 5urb: Crystal Structure of Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine

Enzymatic activity of Crystal Structure of Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine

All present enzymatic activity of Crystal Structure of Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine:
6.1.1.10;

Protein crystallography data

The structure of Crystal Structure of Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine, PDB code: 5urb was solved by Seattle Structural Genomics Center For Infectious Disease (Ssgcid), with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 37.73 / 1.90
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 69.910, 108.410, 78.570, 90.00, 90.69, 90.00
R / Rfree (%) 15.6 / 19.4

Other elements in 5urb:

The structure of Crystal Structure of Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine also contains other interesting chemical elements:

Sodium (Na) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine (pdb code 5urb). 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 Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine, PDB code: 5urb:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5urb

Go back to Zinc Binding Sites List in 5urb
Zinc binding site 1 out of 2 in the Crystal Structure of Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine


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 Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn602

b:28.3
occ:1.00
 SG A:CYS155 2.3 27.4 1.0
SG A:CYS142 2.3 28.3 1.0
SG A:CYS158 2.3 30.1 1.0
SG A:CYS145 2.4 28.7 1.0
CB A:CYS155 3.0 24.8 1.0
CB A:CYS142 3.1 25.5 1.0
CB A:CYS145 3.3 31.9 1.0
CB A:CYS158 3.4 29.1 1.0
N A:CYS145 3.7 28.3 1.0
N A:CYS158 3.8 31.4 1.0
CA A:CYS145 4.1 34.1 1.0
CA A:CYS158 4.1 31.8 1.0
CA A:CYS155 4.5 28.1 1.0
CA A:CYS142 4.5 27.1 1.0
CB A:LYS144 4.6 27.5 1.0
OG1 A:THR160 4.6 38.8 1.0
CB A:VAL157 4.7 29.8 1.0
C A:CYS145 4.7 29.4 1.0
C A:CYS158 4.8 35.1 1.0
C A:VAL157 4.8 33.8 1.0
C A:LYS144 4.8 38.2 1.0
N A:GLY159 4.8 34.3 1.0
N A:LYS146 4.9 30.9 1.0
OG A:SER147 4.9 29.8 1.0
CB A:SER147 4.9 31.8 1.0
CB A:THR160 5.0 30.5 1.0
N A:VAL157 5.0 28.2 1.0
C A:CYS155 5.0 30.4 1.0

Zinc binding site 2 out of 2 in 5urb

Go back to Zinc Binding Sites List in 5urb
Zinc binding site 2 out of 2 in the Crystal Structure of Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine


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 Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn602

b:30.3
occ:1.00
 SG B:CYS155 2.3 26.3 1.0
SG B:CYS142 2.3 27.1 1.0
SG B:CYS145 2.4 27.2 1.0
SG B:CYS158 2.4 29.6 1.0
CB B:CYS142 3.0 30.4 1.0
CB B:CYS155 3.1 22.3 1.0
CB B:CYS158 3.3 26.8 1.0
CB B:CYS145 3.3 33.8 1.0
N B:CYS145 3.7 30.1 1.0
N B:CYS158 3.8 32.3 1.0
CA B:CYS145 4.1 33.4 1.0
CA B:CYS158 4.1 31.7 1.0
CA B:CYS142 4.5 28.7 1.0
CB B:LYS144 4.5 30.3 1.0
CA B:CYS155 4.6 32.3 1.0
OG1 B:THR160 4.6 40.3 1.0
CB B:VAL157 4.7 29.2 1.0
C B:CYS145 4.7 33.6 1.0
C B:CYS158 4.8 34.9 1.0
C B:LYS144 4.8 35.7 1.0
C B:VAL157 4.8 29.9 1.0
N B:LYS146 4.8 35.6 1.0
OG B:SER147 4.9 32.7 1.0
N B:GLY159 4.9 31.9 1.0
CB B:SER147 4.9 31.7 1.0
CB B:THR160 5.0 34.0 1.0
CG B:LYS144 5.0 41.9 1.0

Reference:

D.M.Dranow, D.D.Lorimer, T.E.Edwards. Crystal Structure of Methionyl-Trna Synthetase (Metrs) From Acinetobacter Baumannii with Bound L-Methionine To Be Published.
Page generated: Mon Oct 28 12:18:09 2024

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