Atomistry » Zinc » PDB 6kv1-6l72 » 6l2p
Atomistry »
  Zinc »
    PDB 6kv1-6l72 »
      6l2p »

Zinc in PDB 6l2p: Threonyl-Trna Synthetase From Salmonella Enterica in the Apo Form

Enzymatic activity of Threonyl-Trna Synthetase From Salmonella Enterica in the Apo Form

All present enzymatic activity of Threonyl-Trna Synthetase From Salmonella Enterica in the Apo Form:
6.1.1.3;

Protein crystallography data

The structure of Threonyl-Trna Synthetase From Salmonella Enterica in the Apo Form, PDB code: 6l2p was solved by J.Guo, B.Chen, H.Zhou, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 50.00 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 83.988, 101.859, 106.047, 90.00, 90.00, 90.00
R / Rfree (%) 22.1 / 26.1

Zinc Binding Sites:

The binding sites of Zinc atom in the Threonyl-Trna Synthetase From Salmonella Enterica in the Apo Form (pdb code 6l2p). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Threonyl-Trna Synthetase From Salmonella Enterica in the Apo Form, PDB code: 6l2p:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6l2p

Go back to Zinc Binding Sites List in 6l2p
Zinc binding site 1 out of 2 in the Threonyl-Trna Synthetase From Salmonella Enterica in the Apo Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Threonyl-Trna Synthetase From Salmonella Enterica in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn701

b:35.5
occ:1.00
SG A:CYS334 2.2 36.6 1.0
NE2 A:HIS385 2.2 37.8 1.0
ND1 A:HIS511 2.4 40.9 1.0
CE1 A:HIS385 2.9 37.0 1.0
CE1 A:HIS511 3.1 40.9 1.0
CG A:HIS511 3.3 39.0 1.0
CB A:CYS334 3.3 36.0 1.0
CD2 A:HIS385 3.4 38.1 1.0
CB A:HIS511 3.7 37.7 1.0
OD1 A:ASP383 3.8 55.8 1.0
O A:HOH809 4.0 27.8 1.0
OD2 A:ASP383 4.0 54.0 1.0
ND1 A:HIS385 4.1 36.7 1.0
NE2 A:HIS511 4.1 40.4 1.0
CA A:CYS334 4.1 35.9 1.0
CD2 A:HIS511 4.2 39.3 1.0
CG A:ASP383 4.3 52.0 1.0
N A:CYS334 4.3 36.2 1.0
CG A:HIS385 4.4 36.8 1.0
CA A:HIS511 4.5 36.7 1.0
O A:HOH866 4.7 55.5 1.0

Zinc binding site 2 out of 2 in 6l2p

Go back to Zinc Binding Sites List in 6l2p
Zinc binding site 2 out of 2 in the Threonyl-Trna Synthetase From Salmonella Enterica in the Apo Form


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Threonyl-Trna Synthetase From Salmonella Enterica in the Apo Form within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn701

b:46.1
occ:1.00
SG B:CYS334 2.3 49.4 1.0
NE2 B:HIS385 2.4 47.7 1.0
ND1 B:HIS511 2.6 50.0 1.0
CE1 B:HIS385 2.9 46.3 1.0
CG B:HIS511 3.3 48.9 1.0
CE1 B:HIS511 3.3 50.8 1.0
CB B:CYS334 3.5 49.6 1.0
CD2 B:HIS385 3.5 46.9 1.0
CB B:HIS511 3.7 47.9 1.0
OD2 B:ASP383 3.8 51.0 1.0
OD1 B:ASP383 3.9 49.6 1.0
ND1 B:HIS385 4.1 45.7 1.0
CA B:CYS334 4.2 48.6 1.0
CG B:ASP383 4.3 48.9 1.0
NE2 B:HIS511 4.3 50.2 1.0
CD2 B:HIS511 4.3 49.6 1.0
N B:CYS334 4.4 48.0 1.0
CG B:HIS385 4.4 46.0 1.0
CA B:HIS511 4.6 47.2 1.0

Reference:

J.Guo, B.Chen, Y.Yu, B.Cheng, Y.Cheng, Y.Ju, Q.Gu, J.Xu, H.Zhou. Discovery of Novel Trna-Amino Acid Dual-Site Inhibitors Against Threonyl-Trna Synthetase By Fragment-Based Target Hopping. Eur.J.Med.Chem. V. 187 11941 2019.
ISSN: ISSN 0223-5234
PubMed: 31821989
DOI: 10.1016/J.EJMECH.2019.111941
Page generated: Wed Dec 16 12:13:12 2020

Last articles

Zn in 7VD8
Zn in 7V1R
Zn in 7V1Q
Zn in 7VPF
Zn in 7T85
Zn in 7T5F
Zn in 7NF9
Zn in 7M4M
Zn in 7M4O
Zn in 7M4N
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy