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Zinc in PDB 8wo2: Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Val-Amp

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

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

Protein crystallography data

The structure of Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Val-Amp, PDB code: 8wo2 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) 50.97 / 2.34
Space group P 1
Cell size a, b, c (Å), α, β, γ (°) 52.972, 53.084, 102.947, 97.15, 92.61, 105.11
R / Rfree (%) 21 / 24.5

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Val-Amp (pdb code 8wo2). 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 Val-Amp, PDB code: 8wo2:

Zinc binding site 1 out of 1 in 8wo2

Go back to Zinc Binding Sites List in 8wo2
Zinc binding site 1 out of 1 in the Crystal Structure of H. Pylori Isoleucyl-Trna Synthetase (Hpilers) in Complex with Val-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 Val-Amp within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn1001

b:1.7
occ:1.00
 SG A:CYS898 2.3 23.6 1.0
SG A:CYS913 2.3 24.8 1.0
SG A:CYS895 2.3 24.9 1.0
SG A:CYS910 2.3 25.7 1.0
CB A:CYS895 3.2 27.9 1.0
CB A:CYS913 3.3 26.8 1.0
CB A:CYS898 3.3 23.0 1.0
CB A:CYS910 3.4 29.7 1.0
N A:CYS898 3.6 23.4 1.0
N A:CYS910 3.8 26.6 1.0
NH2 A:ARG912 4.0 23.7 1.0
CA A:CYS898 4.1 22.8 1.0
CA A:CYS910 4.1 26.9 1.0
N A:CYS913 4.3 27.4 1.0
CB A:ARG897 4.4 30.4 1.0
CA A:CYS913 4.4 29.2 1.0
NE A:ARG912 4.5 24.9 1.0
CA A:CYS895 4.6 26.5 1.0
C A:ARG897 4.7 26.4 1.0
C A:CYS910 4.7 31.3 1.0
O A:CYS910 4.7 27.6 1.0
CZ A:ARG912 4.8 25.3 1.0
NH2 A:ARG900 4.8 26.4 1.0
N A:ARG897 4.9 24.6 1.0
C A:CYS898 4.9 27.3 1.0
CA A:ARG897 4.9 28.1 1.0
C A:PRO909 5.0 29.2 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: Fri Aug 22 15:15:34 2025

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