Zinc in PDB 6zlw: Sars-Cov-2 NSP1 Bound to the Human 40S Ribosomal Subunit

All present enzymatic activity of Sars-Cov-2 NSP1 Bound to the Human 40S Ribosomal Subunit:
2.7.7.48; 3.4.19.12; 3.4.22.69; 3.6.4.12; 3.6.4.13; 4.2.99.18;

The binding sites of Zinc atom in the Sars-Cov-2 NSP1 Bound to the Human 40S Ribosomal Subunit (pdb code 6zlw). 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 Bound to the Human 40S Ribosomal Subunit, PDB code: 6zlw:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Sars-Cov-2 NSP1 Bound to the Human 40S Ribosomal Subunit


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 Bound to the Human 40S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ c:Zn201 b:45.1 occ:1.00 SG c:CYS74 2.4 19.7 1.0 CB c:CYS26 2.4 26.1 1.0 SG c:CYS77 2.5 20.0 1.0 SG c:CYS23 2.5 22.5 1.0 CB c:CYS77 3.2 20.0 1.0 CB c:CYS23 3.3 22.5 1.0 N c:CYS26 3.4 26.1 1.0 CA c:CYS26 3.5 26.1 1.0 SG c:CYS26 3.7 26.1 1.0 CB c:CYS74 3.7 19.7 1.0 N c:CYS74 4.2 19.7 1.0 CB c:ARG28 4.3 21.1 1.0 N c:CYS77 4.3 20.0 1.0 CA c:CYS77 4.4 20.0 1.0 C c:ASN25 4.5 25.4 1.0 CA c:CYS74 4.5 19.7 1.0 CB c:ASN25 4.5 25.4 1.0 C c:CYS26 4.5 26.1 1.0 CA c:CYS23 4.8 22.5 1.0 N c:ARG28 4.8 21.1 1.0 CA c:ASN25 4.9 25.4 1.0 N c:ALA27 4.9 23.4 1.0 N c:ASN25 4.9 25.4 1.0

Zinc binding site 2 out of 3 in the Sars-Cov-2 NSP1 Bound to the Human 40S Ribosomal Subunit


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 Bound to the Human 40S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ f:Zn201 b:31.2 occ:1.00 SG f:CYS42 2.4 17.1 1.0 SG f:CYS24 2.4 12.8 1.0 SG f:CYS21 2.4 9.7 1.0 CB f:CYS39 2.8 14.0 1.0 CB f:CYS42 3.1 17.1 1.0 CB f:CYS21 3.3 9.7 1.0 CB f:CYS24 3.3 12.8 1.0 SG f:CYS39 3.8 14.0 1.0 N f:CYS24 3.9 12.8 1.0 N f:CYS39 4.0 14.0 1.0 CA f:CYS39 4.0 14.0 1.0 CA f:CYS24 4.1 12.8 1.0 CA f:CYS42 4.3 17.1 1.0 N f:CYS42 4.3 17.1 1.0 CB f:VAL23 4.4 10.7 1.0 O2' 2:G1495 4.7 13.2 1.0 CA f:CYS21 4.7 9.7 1.0 C f:CYS39 4.7 14.0 1.0 C f:CYS24 4.8 12.8 1.0 C f:VAL23 4.8 10.7 1.0 O f:CYS39 4.8 14.0 1.0 CB f:ASN26 4.9 14.3 1.0 N f:SER25 5.0 16.2 1.0

Zinc binding site 3 out of 3 in the Sars-Cov-2 NSP1 Bound to the Human 40S Ribosomal Subunit


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 Bound to the Human 40S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ g:Zn500 b:56.8 occ:1.00 SG g:CYS141 2.4 32.1 1.0 CG1 g:VAL130 2.5 36.2 1.0 O g:PHE131 3.0 34.0 1.0 N g:GLY142 3.1 30.1 1.0 C5' 2:U1310 3.3 29.6 1.0 CB g:CYS141 3.5 32.1 1.0 CA g:CYS141 3.6 32.1 1.0 N g:LYS143 3.7 33.3 1.0 C g:CYS141 3.7 32.1 1.0 C4' 2:U1310 3.8 29.6 1.0 O2' 2:C1309 4.0 30.5 1.0 CB g:VAL130 4.0 36.2 1.0 C g:PHE131 4.1 34.0 1.0 CA g:GLY142 4.1 30.1 1.0 CB g:LYS143 4.2 33.3 1.0 C g:VAL130 4.3 36.2 1.0 C g:GLY142 4.3 30.1 1.0 N g:PHE131 4.4 34.0 1.0 O g:VAL130 4.5 36.2 1.0 CB g:CYS121 4.5 39.7 1.0 O5' 2:U1310 4.5 29.6 1.0 CA g:LYS143 4.6 33.3 1.0 O4' 2:U1310 4.6 29.6 1.0 SG g:CYS126 4.6 41.1 1.0 O g:CYS141 4.7 32.1 1.0 CA g:VAL130 4.7 36.2 1.0 CB g:CYS126 4.8 41.1 1.0 OP1 2:U1310 4.8 29.6 1.0 O3' 2:C1309 4.8 30.5 1.0 CA g:PHE131 4.9 34.0 1.0 CG2 g:VAL130 4.9 36.2 1.0 N g:CYS141 5.0 32.1 1.0 N g:MET132 5.0 34.6 1.0

M.Thoms, R.Buschauer, M.Ameismeier, L.Koepke, T.Denk, M.Hirschenberger, H.Kratzat, M.Hayn, T.Mackens-Kiani, J.Cheng, J.H.Straub, C.M.Sturzel, T.Frohlich, O.Berninghausen, T.Becker, F.Kirchhoff, K.M.J.Sparrer, R.Beckmann. Structural Basis For Translational Shutdown and Immune Evasion By the NSP1 Protein of Sars-Cov-2. Science V. 369 1249 2020.
ISSN: ESSN 1095-9203
PubMed: 32680882
DOI: 10.1126/SCIENCE.ABC8665