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Zinc in PDB 7ap2: Neisseria Gonorrhoeae Leucyl-Trna Synthetase in Complex with Compound LEUS7HMDDA

Enzymatic activity of Neisseria Gonorrhoeae Leucyl-Trna Synthetase in Complex with Compound LEUS7HMDDA

All present enzymatic activity of Neisseria Gonorrhoeae Leucyl-Trna Synthetase in Complex with Compound LEUS7HMDDA:
6.1.1.4;

Protein crystallography data

The structure of Neisseria Gonorrhoeae Leucyl-Trna Synthetase in Complex with Compound LEUS7HMDDA, PDB code: 7ap2 was solved by L.Pang, S.De Graef, S.V.Strelkov, S.D.Weeks, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 56.25 / 2.25
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 49.237, 80.987, 224.983, 90.00, 90.00, 90.00
R / Rfree (%) 18.8 / 23.5

Other elements in 7ap2:

The structure of Neisseria Gonorrhoeae Leucyl-Trna Synthetase in Complex with Compound LEUS7HMDDA also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Neisseria Gonorrhoeae Leucyl-Trna Synthetase in Complex with Compound LEUS7HMDDA (pdb code 7ap2). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Neisseria Gonorrhoeae Leucyl-Trna Synthetase in Complex with Compound LEUS7HMDDA, PDB code: 7ap2:

Zinc binding site 1 out of 1 in 7ap2

Go back to Zinc Binding Sites List in 7ap2
Zinc binding site 1 out of 1 in the Neisseria Gonorrhoeae Leucyl-Trna Synthetase in Complex with Compound LEUS7HMDDA


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Neisseria Gonorrhoeae Leucyl-Trna Synthetase in Complex with Compound LEUS7HMDDA within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1204

b:42.5
occ:1.00
 SG A:CYS452 2.2 42.4 1.0
SG A:CYS490 2.3 35.5 1.0
SG A:CYS449 2.3 39.8 1.0
SG A:CYS493 2.4 41.7 1.0
CB A:CYS490 3.1 38.3 1.0
CB A:CYS452 3.3 38.4 1.0
CB A:CYS493 3.3 41.1 1.0
CB A:CYS449 3.3 38.9 1.0
N A:CYS493 3.6 37.1 1.0
N A:CYS452 3.9 49.1 1.0
CA A:CYS493 4.0 36.7 1.0
CA A:CYS452 4.2 48.1 1.0
CB A:LYS451 4.4 48.9 1.0
CA A:CYS490 4.5 34.3 1.0
CB A:CYS492 4.5 50.7 1.0
C A:CYS492 4.6 40.6 1.0
C A:CYS493 4.7 44.8 1.0
C A:LYS451 4.8 52.0 1.0
CA A:CYS449 4.8 39.4 1.0
N A:GLY494 4.9 41.8 1.0
CA A:CYS492 4.9 43.4 1.0
N A:CYS492 4.9 45.1 1.0
CA A:LYS451 5.0 49.4 1.0

Reference:

B.Zhang, L.Pang, M.Nautiyal, S.De Graef, B.Gadakh, E.Lescrinier, J.Rozenski, S.V.Strelkov, S.D.Weeks, A.Van Aerschot. Synthesis and Biological Evaluation of 1,3-Dideazapurine-Like 7-Amino-5-Hydroxymethyl-Benzimidazole Ribonucleoside Analogues As Aminoacyl-Trna Synthetase Inhibitors. Molecules V. 25 2020.
ISSN: ESSN 1420-3049
PubMed: 33081246
DOI: 10.3390/MOLECULES25204751
Page generated: Tue Oct 29 17:01:58 2024

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