Atomistry » Zinc » PDB 6zki-6zpu » 6zoj
Atomistry »
  Zinc »
    PDB 6zki-6zpu »
      6zoj »

Zinc in PDB 6zoj: Sars-Cov-2-NSP1-40S Complex, Composite Map

Enzymatic activity of Sars-Cov-2-NSP1-40S Complex, Composite Map

All present enzymatic activity of Sars-Cov-2-NSP1-40S Complex, Composite Map:
2.7.7.48; 3.4.19.12; 3.4.22.69; 3.6.4.12; 3.6.4.13; 4.2.99.18;

Other elements in 6zoj:

The structure of Sars-Cov-2-NSP1-40S Complex, Composite Map also contains other interesting chemical elements:

Magnesium (Mg) 166 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Sars-Cov-2-NSP1-40S Complex, Composite Map (pdb code 6zoj). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Sars-Cov-2-NSP1-40S Complex, Composite Map, PDB code: 6zoj:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in 6zoj

Go back to Zinc Binding Sites List in 6zoj
Zinc binding site 1 out of 3 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range:
probe atom residue distance (Å) B Occ
a:Zn201

b:69.2
occ:1.00
SG a:CYS26 2.3 27.9 1.0
SG a:CYS74 2.3 26.4 1.0
SG a:CYS77 2.3 28.1 1.0
SG a:CYS23 2.3 27.0 1.0
CB a:CYS77 3.2 28.1 1.0
CB a:CYS23 3.3 27.0 1.0
CB a:CYS26 3.5 27.9 1.0
CB a:CYS74 3.8 26.4 1.0
N a:CYS26 3.8 27.9 1.0
N a:CYS74 4.1 26.4 1.0
CA a:CYS26 4.2 27.9 1.0
CB a:ASN25 4.3 28.0 1.0
N a:CYS77 4.3 28.1 1.0
CA a:CYS77 4.3 28.1 1.0
CA a:CYS74 4.5 26.4 1.0
CB a:ARG28 4.7 24.3 1.0
C a:ASN25 4.7 28.0 1.0
CA a:CYS23 4.8 27.0 1.0
C a:CYS26 4.8 27.9 1.0
CA a:ASN25 4.9 28.0 1.0
N a:ASN25 4.9 28.0 1.0
N a:ALA27 5.0 26.0 1.0

Zinc binding site 2 out of 3 in 6zoj

Go back to Zinc Binding Sites List in 6zoj
Zinc binding site 2 out of 3 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range:
probe atom residue distance (Å) B Occ
d:Zn201

b:38.8
occ:1.00
SG d:CYS39 2.2 19.7 1.0
SG d:CYS24 2.3 22.4 1.0
SG d:CYS42 2.3 18.4 1.0
SG d:CYS21 2.3 22.3 1.0
CB d:CYS42 3.2 18.4 1.0
CB d:CYS21 3.3 22.3 1.0
CB d:CYS24 3.6 22.4 1.0
CB d:CYS39 3.7 19.7 1.0
N d:CYS24 3.8 22.4 1.0
N d:CYS39 4.0 19.7 1.0
CA d:CYS24 4.2 22.4 1.0
CA d:CYS39 4.4 19.7 1.0
CB d:VAL23 4.4 20.7 1.0
N d:CYS42 4.4 18.4 1.0
CA d:CYS42 4.4 18.4 1.0
C d:VAL23 4.7 20.7 1.0
CA d:CYS21 4.8 22.3 1.0
O d:CYS39 4.9 19.7 1.0
N d:VAL23 4.9 20.7 1.0
CA d:VAL23 4.9 20.7 1.0
C d:CYS24 4.9 22.4 1.0
C d:CYS39 4.9 19.7 1.0

Zinc binding site 3 out of 3 in 6zoj

Go back to Zinc Binding Sites List in 6zoj
Zinc binding site 3 out of 3 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range:
probe atom residue distance (Å) B Occ
f:Zn500

b:0.3
occ:1.00
SG f:CYS144 2.3 69.3 1.0
SG f:CYS141 2.3 66.4 1.0
SG f:CYS121 2.4 74.1 1.0
SG f:CYS126 2.4 77.4 1.0
CB f:CYS126 3.2 77.4 1.0
CB f:CYS141 3.2 66.4 1.0
CB f:CYS121 3.2 74.1 1.0
CB f:CYS144 3.5 69.3 1.0
OG f:SER123 3.6 78.1 1.0
CB f:SER123 3.9 78.1 1.0
N f:CYS144 4.1 69.3 1.0
CA f:CYS144 4.4 69.3 1.0
CA f:CYS126 4.6 77.4 1.0
CA f:CYS141 4.7 66.4 1.0
CB f:LEU146 4.7 67.8 1.0
CA f:CYS121 4.7 74.1 1.0
O f:CYS126 4.8 77.4 1.0
C f:LYS143 4.9 67.1 1.0
CB f:LYS143 4.9 67.1 1.0
N f:SER123 5.0 78.1 1.0
N f:CYS126 5.0 77.4 1.0

Reference:

K.Schubert, E.D.Karousis, A.Jomaa, A.Scaiola, B.Echeverria, L.A.Gurzeler, M.Leibundgut, V.Thiel, O.Muhlemann, N.Ban. Sars-Cov-2 NSP1 Binds the Ribosomal Mrna Channel to Inhibit Translation. Nat.Struct.Mol.Biol. V. 27 959 2020.
ISSN: ESSN 1545-9985
PubMed: 32908316
DOI: 10.1038/S41594-020-0511-8
Page generated: Tue Oct 29 15:51:14 2024

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy