Atomistry » Zinc » PDB 5wgu-5wob » 5wnv
Atomistry »
  Zinc »
    PDB 5wgu-5wob »
      5wnv »

Zinc in PDB 5wnv: Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus

Protein crystallography data

The structure of Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus, PDB code: 5wnv was solved by H.Demirci, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 39.80 / 3.30
Space group P 41 21 2
Cell size a, b, c (Å), α, β, γ (°) 400.000, 400.000, 173.000, 90.00, 90.00, 90.00
R / Rfree (%) 17.9 / 20.3

Other elements in 5wnv:

The structure of Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus also contains other interesting chemical elements:

Magnesium (Mg) 251 atoms
Potassium (K) 22 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus (pdb code 5wnv). 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 30S Ribosomal Subunit From Thermus Thermophilus, PDB code: 5wnv:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 5wnv

Go back to Zinc Binding Sites List in 5wnv
Zinc binding site 1 out of 2 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn301

b:0.7
occ:1.00
SG D:CYS31 2.3 0.8 1.0
SG D:CYS9 2.3 0.4 1.0
SG D:CYS26 2.3 0.4 1.0
SG D:CYS12 2.3 0.1 1.0
CB D:CYS12 3.5 0.4 1.0
CB D:CYS9 3.6 0.5 1.0
O D:LEU19 3.6 0.7 1.0
CB D:CYS31 3.7 0.2 1.0
CB D:CYS26 3.7 0.4 1.0
O D:CYS31 3.8 0.6 1.0
CA D:CYS9 4.0 0.6 1.0
CA D:CYS31 4.2 0.6 1.0
CA D:CYS26 4.3 0.9 1.0
C D:CYS31 4.4 0.5 1.0
C D:LEU19 4.6 0.8 1.0
N D:CYS9 4.8 0.6 1.0
CA D:CYS12 4.9 0.3 1.0
O D:ARG25 5.0 0.8 1.0
N D:CYS26 5.0 0.7 1.0

Zinc binding site 2 out of 2 in 5wnv

Go back to Zinc Binding Sites List in 5wnv
Zinc binding site 2 out of 2 in the Crystal Structure of 30S Ribosomal Subunit From Thermus Thermophilus


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 30S Ribosomal Subunit From Thermus Thermophilus within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn102

b:0.8
occ:1.00
SG N:CYS40 2.3 1.0 1.0
SG N:CYS27 2.3 0.2 1.0
SG N:CYS24 2.3 0.2 1.0
SG N:CYS43 2.3 0.6 1.0
CB N:CYS43 3.2 0.6 1.0
CB N:CYS27 3.2 0.4 1.0
CB N:CYS40 3.3 0.8 1.0
CB N:CYS24 3.4 0.1 1.0
N N:CYS27 3.7 0.9 1.0
N N:CYS40 3.8 0.0 1.0
N N:CYS43 4.0 0.5 1.0
CA N:CYS27 4.0 0.6 1.0
CA N:CYS40 4.1 0.1 1.0
CA N:CYS43 4.2 0.4 1.0
CB N:ARG29 4.2 0.6 1.0
CB N:ARG26 4.7 0.9 1.0
C N:CYS27 4.7 1.0 1.0
N2 A:G1202 4.7 0.2 1.0
C N:CYS40 4.8 0.8 1.0
N N:ARG29 4.8 0.9 1.0
CA N:CYS24 4.8 0.9 1.0
C N:ARG26 4.9 1.0 1.0
N N:GLY28 4.9 0.6 1.0
C N:LEU39 4.9 0.2 1.0

Reference:

J.Choi, G.Indrisiunaite, H.Demirci, K.W.Ieong, J.Wang, A.Petrov, A.Prabhakar, G.Rechavi, D.Dominissini, C.He, M.Ehrenberg, J.D.Puglisi. 2'-O-Methylation in Mrna Disrupts Trna Decoding During Translation Elongation. Nat. Struct. Mol. Biol. V. 25 208 2018.
ISSN: ESSN 1545-9985
PubMed: 29459784
DOI: 10.1038/S41594-018-0030-Z
Page generated: Mon Oct 28 14:27:42 2024

Last articles

Zn in 9JYW
Zn in 9IR4
Zn in 9IR3
Zn in 9GMX
Zn in 9GMW
Zn in 9JEJ
Zn in 9ERF
Zn in 9ERE
Zn in 9EGV
Zn in 9EGW
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy