Atomistry » Zinc » PDB 4ggk-4gsz » 4gri
Atomistry »
  Zinc »
    PDB 4ggk-4gsz »
      4gri »

Zinc in PDB 4gri: Crystal Structure of A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc

Enzymatic activity of Crystal Structure of A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc

All present enzymatic activity of Crystal Structure of A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc:
6.1.1.17;

Protein crystallography data

The structure of Crystal Structure of A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc, PDB code: 4gri 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) 48.17 / 2.60
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 61.460, 110.310, 197.880, 90.00, 90.00, 90.00
R / Rfree (%) 22.3 / 28.5

Other elements in 4gri:

The structure of Crystal Structure of A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc also contains other interesting chemical elements:

Chlorine (Cl) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc (pdb code 4gri). 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 A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc, PDB code: 4gri:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 4gri

Go back to Zinc Binding Sites List in 4gri
Zinc binding site 1 out of 2 in the Crystal Structure of A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc


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 A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn501

b:44.8
occ:1.00
 OH A:TYR130 2.1 7.1 1.0
SG A:CYS109 2.3 38.8 1.0
SG A:CYS134 2.4 39.6 1.0
SG A:CYS107 2.4 32.0 1.0
N A:CYS109 3.0 4.2 1.0
CB A:CYS109 3.0 6.4 1.0
CZ A:TYR130 3.2 50.7 1.0
N A:TYR108 3.2 23.9 1.0
CB A:CYS134 3.4 11.8 1.0
CB A:CYS107 3.4 24.2 1.0
CA A:CYS109 3.5 22.2 1.0
CA A:CYS107 3.6 10.6 1.0
CE1 A:TYR130 3.7 31.7 1.0
C A:CYS107 3.8 31.5 1.0
C A:TYR108 3.9 50.8 1.0
CA A:TYR108 4.2 37.6 1.0
N A:CYS134 4.2 23.5 1.0
CE2 A:TYR130 4.3 45.2 1.0
ND1 A:HIS133 4.3 24.3 1.0
CA A:CYS134 4.4 20.2 1.0
CB A:HIS133 4.6 11.8 1.0
O A:CYS107 4.8 39.2 1.0
C A:CYS109 4.8 24.3 1.0
C A:HIS133 4.9 29.5 1.0
CG A:HIS133 4.9 36.4 1.0
O A:TYR108 5.0 18.6 1.0

Zinc binding site 2 out of 2 in 4gri

Go back to Zinc Binding Sites List in 4gri
Zinc binding site 2 out of 2 in the Crystal Structure of A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc


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 A Glutamyl-Trna Synthetase Glurs From Borrelia Burgdorferi Bound to Glutamic Acid and Zinc within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn501

b:45.6
occ:1.00
 OH B:TYR130 2.1 15.5 1.0
SG B:CYS107 2.3 37.0 1.0
SG B:CYS134 2.4 42.4 1.0
SG B:CYS109 2.4 37.7 1.0
N B:CYS109 2.9 11.9 1.0
CB B:CYS109 3.0 12.0 1.0
N B:TYR108 3.1 20.2 1.0
CZ B:TYR130 3.3 88.6 1.0
CB B:CYS134 3.3 15.6 1.0
CB B:CYS107 3.4 24.4 1.0
CA B:CYS109 3.5 12.0 1.0
CA B:CYS107 3.6 22.4 1.0
C B:CYS107 3.6 31.5 1.0
C B:TYR108 3.8 48.7 1.0
CE1 B:TYR130 3.8 80.8 1.0
CA B:TYR108 4.0 31.1 1.0
N B:CYS134 4.3 35.4 1.0
CE2 B:TYR130 4.3 36.0 1.0
CA B:CYS134 4.4 38.8 1.0
ND1 B:HIS133 4.5 39.5 1.0
O B:CYS107 4.6 34.9 1.0
CB B:HIS133 4.7 19.8 1.0
C B:CYS109 4.8 12.8 1.0
O B:TYR108 4.8 49.1 1.0
CB B:TYR108 4.9 11.8 1.0
C B:HIS133 5.0 39.5 1.0

Reference:

S.O.Moen, T.E.Edwards, D.M.Dranow, M.C.Clifton, B.Sankaran, W.C.Van Voorhis, A.Sharma, C.Manoil, B.L.Staker, P.J.Myler, D.D.Lorimer. Ligand Co-Crystallization of Aminoacyl-Trna Synthetases From Infectious Disease Organisms. Sci Rep V. 7 223 2017.
ISSN: ESSN 2045-2322
PubMed: 28303005
DOI: 10.1038/S41598-017-00367-6
Page generated: Sat Oct 26 23:28:06 2024

Last articles

Zn in 9MJ5
Zn in 9HNW
Zn in 9G0L
Zn in 9FNE
Zn in 9DZN
Zn in 9E0I
Zn in 9D32
Zn in 9DAK
Zn in 8ZXC
Zn in 8ZUF
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy