Zinc in PDB 8wnj: Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Ile-Amp

Enzymatic activity of Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Ile-Amp

All present enzymatic activity of Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Ile-Amp:
6.1.1.5;

Protein crystallography data

The structure of Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Ile-Amp, PDB code: 8wnj was solved by Y.Guo, S.Li, T.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 25.60 / 1.78
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 52.783, 52.912, 103.054, 92.41, 97.37, 104.35
R / Rfree (%) 18.5 / 21.7

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Ile-Amp (pdb code 8wnj). 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 Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Ile-Amp, PDB code: 8wnj:

Zinc binding site 1 out of 1 in 8wnj

Go back to Zinc Binding Sites List in 8wnj
Zinc binding site 1 out of 1 in the Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Ile-Amp


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 H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Ile-Amp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:2.9
occ:1.00
 SG A:CYS910 2.3 19.6 1.0
SG A:CYS898 2.3 18.4 1.0
SG A:CYS895 2.4 19.4 1.0
SG A:CYS913 2.4 18.7 1.0
CB A:CYS895 3.2 19.6 1.0
CB A:CYS898 3.3 17.9 1.0
CB A:CYS913 3.3 19.4 1.0
CB A:CYS910 3.5 20.2 1.0
N A:CYS898 3.7 18.4 1.0
N A:CYS910 3.9 20.3 1.0
NH2 A:ARG912 4.0 18.0 1.0
CA A:CYS898 4.1 17.9 1.0
CA A:CYS910 4.2 20.9 1.0
N A:CYS913 4.3 19.9 1.0
CA A:CYS913 4.4 19.7 1.0
NE A:ARG912 4.5 18.6 1.0
NH2 A:ARG900 4.6 22.1 1.0
CA A:CYS895 4.6 20.0 1.0
CB A:ARG897 4.6 19.0 1.0
CZ A:ARG912 4.7 18.2 1.0
C A:ARG897 4.8 18.5 1.0
C A:CYS910 4.8 20.8 1.0
NE A:ARG900 4.9 18.6 1.0
O A:CYS910 4.9 20.7 1.0
C A:CYS898 4.9 18.1 1.0
C A:PRO909 5.0 20.7 1.0
N A:ARG897 5.0 19.4 1.0

Reference:

X.Chen, Y.Guo, J.Shi, Y.Wang, X.Guo, G.Wu, S.Li, T.Zhang. Structural Basis For Substrate and Antibiotic Recognition By Helicobacter Pylori Isoleucyl-Trna Synthetase. Febs Lett. 2024.
ISSN: ISSN 0014-5793
PubMed: 38246751
DOI: 10.1002/1873-3468.14805
Page generated: Thu Oct 31 13:35:01 2024

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