Magnesium in PDB 6zoj: 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;

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

Zinc

(Zn)

3 atoms

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 20; Page 3, Binding sites: 21 - 30; Page 4, Binding sites: 31 - 40; Page 5, Binding sites: 41 - 50; Page 6, Binding sites: 51 - 60; Page 7, Binding sites: 61 - 70; Page 8, Binding sites: 71 - 80; Page 9, Binding sites: 81 - 90; Page 10, Binding sites: 91 - 100; Page 11, Binding sites: 101 - 110; Page 12, Binding sites: 111 - 120; Page 13, Binding sites: 121 - 130; Page 14, Binding sites: 131 - 140; Page 15, Binding sites: 141 - 150; Page 16, Binding sites: 151 - 160; Page 17, Binding sites: 161 - 166;

Binding sites:

The binding sites of Magnesium 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 Magnesium atom.
In total 166 binding sites of Magnesium where determined in the Sars-Cov-2-NSP1-40S Complex, Composite Map, PDB code: 6zoj:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Magnesium binding site 1 out of 166 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg2001 b:18.9 occ:1.00 O6 2:G1517 2.0 17.4 1.0 OP2 2:C1262 2.1 24.7 1.0 OP1 2:C1261 2.8 23.3 1.0 O4 2:U1263 2.8 23.9 1.0 O5' 2:C1261 3.1 23.3 1.0 C6 2:G1517 3.2 17.4 1.0 P 2:C1262 3.4 24.7 1.0 P 2:C1261 3.5 23.3 1.0 C4 2:U1263 3.9 23.9 1.0 OP1 2:C1262 3.9 24.7 1.0 C5 2:G1517 3.9 17.4 1.0 O6 2:G1516 4.0 17.8 1.0 O3' 2:C1261 4.0 23.3 1.0 N7 2:G1517 4.0 17.4 1.0 N1 2:G1517 4.3 17.4 1.0 C5' 2:C1261 4.4 23.3 1.0 C5 2:U1263 4.4 23.9 1.0 N4 2:C1518 4.4 18.4 1.0 C3' 2:C1261 4.5 23.3 1.0 OP2 2:C1261 4.6 23.3 1.0 O2 2:C1264 4.6 23.5 1.0 O5' 2:C1262 4.6 24.7 1.0 O3' 2:A1260 4.7 17.8 1.0 C6 2:G1516 4.7 17.8 1.0 N7 2:G1516 4.8 17.8 1.0 N3 2:C1264 4.9 23.5 1.0

Magnesium binding site 2 out of 166 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg2002 b:23.9 occ:1.00 OP2 2:G1387 2.6 18.2 1.0 N7 2:A1388 3.6 22.4 1.0 N6 2:A1388 3.9 22.4 1.0 P 2:G1387 4.0 18.2 1.0 N4 2:C1389 4.3 25.0 1.0 N7 2:G1387 4.3 18.2 1.0 C8 2:G1387 4.4 18.2 1.0 OP2 2:A1386 4.4 32.8 1.0 C5 2:A1388 4.4 22.4 1.0 O6 2:G1481 4.4 16.8 1.0 C4 2:C1389 4.5 25.0 1.0 N3 2:C1482 4.5 19.5 1.0 OP1 2:A1386 4.5 32.8 1.0 C8 2:A1388 4.6 22.4 1.0 OP1 2:G1387 4.6 18.2 1.0 C6 2:A1388 4.6 22.4 1.0 O2 2:C1482 4.7 19.5 1.0 P 2:A1386 4.8 32.8 1.0 C5 2:C1389 4.8 25.0 1.0 O3' 2:A1386 4.9 32.8 1.0 N3 2:C1389 4.9 25.0 1.0 OP2 2:A1388 4.9 22.4 1.0 O5' 2:G1387 4.9 18.2 1.0 O5' 2:A1386 5.0 32.8 1.0

Magnesium binding site 3 out of 166 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg2003 b:27.8 occ:1.00 O4 2:U1492 2.9 22.1 1.0 O6 2:G1335 3.0 22.1 1.0 N4 2:C1336 3.5 18.0 1.0 O6 2:G1491 3.6 21.9 1.0 N2 2:G1330 3.6 24.4 1.0 C4 2:U1492 4.0 22.1 1.0 C6 2:G1335 4.0 22.1 1.0 OP2 2:G1334 4.2 23.7 1.0 N3 2:U1492 4.2 22.1 1.0 C2 2:G1330 4.3 24.4 1.0 N7 2:G1335 4.3 22.1 1.0 N3 2:G1330 4.5 24.4 1.0 C6 2:G1491 4.5 21.9 1.0 C5 2:G1335 4.6 22.1 1.0 C4 2:C1336 4.6 18.0 1.0

Magnesium binding site 4 out of 166 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg2004 b:17.1 occ:1.00 MG 2:MG2031 2.3 23.2 1.0 O6 2:G1605 2.5 16.1 1.0 OP2 2:G1603 2.6 23.3 1.0 OP2 2:G1604 3.1 17.1 1.0 O6 2:G1606 3.2 16.5 1.0 O5' 2:G1603 3.3 23.3 1.0 C6 2:G1605 3.4 16.1 1.0 N7 2:G1605 3.4 16.1 1.0 P 2:G1603 3.5 23.3 1.0 C5 2:G1605 3.7 16.1 1.0 C6 2:G1606 4.1 16.5 1.0 NH2 S:ARG38 4.3 19.5 1.0 OP1 2:G1603 4.3 23.3 1.0 N7 2:G1604 4.4 17.1 1.0 N1 2:G1606 4.4 16.5 1.0 P 2:G1604 4.5 17.1 1.0 C5' 2:G1603 4.6 23.3 1.0 C8 2:G1605 4.6 16.1 1.0 N1 2:G1605 4.7 16.1 1.0 C8 2:G1604 4.7 17.1 1.0 O5' 2:G1604 4.8 17.1 1.0 O3' 2:U1602 4.8 22.2 1.0 C4' 2:G1603 5.0 23.3 1.0

Magnesium binding site 5 out of 166 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg2005 b:28.1 occ:1.00 O6 2:G1540 3.4 18.7 1.0 O4 2:U1539 3.9 20.1 1.0 N7 2:G1540 4.0 18.7 1.0 O6 2:G1541 4.1 19.1 1.0 C6 2:G1540 4.2 18.7 1.0 C4 2:U1539 4.4 20.1 1.0 C5 2:G1540 4.5 18.7 1.0 N4 2:C1592 4.6 21.2 1.0 C5 2:U1539 4.8 20.1 1.0

Magnesium binding site 6 out of 166 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 6 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg2006 b:26.7 occ:1.00 O6 2:G1656 2.7 39.2 1.0 O4 2:U1668 3.0 17.6 1.0 O4 2:U1667 3.1 15.3 1.0 N4 2:C1655 3.3 39.2 1.0 O6 2:G1669 3.4 24.2 1.0 C6 2:G1656 3.8 39.2 1.0 O6 2:G1657 4.0 20.0 1.0 C4 2:U1668 4.0 17.6 1.0 C4 2:U1667 4.1 15.3 1.0 C6 2:G1669 4.2 24.2 1.0 N3 2:U1668 4.3 17.6 1.0 C4 2:C1655 4.3 39.2 1.0 N7 2:G1656 4.3 39.2 1.0 C5 2:G1656 4.5 39.2 1.0 N3 2:U1667 4.8 15.3 1.0 N1 2:G1669 4.8 24.2 1.0 N3 2:C1655 4.8 39.2 1.0 C6 2:G1657 5.0 20.0 1.0 C5 2:G1669 5.0 24.2 1.0 N1 2:G1656 5.0 39.2 1.0

Magnesium binding site 7 out of 166 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 7 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg2007 b:15.0 occ:1.00 OP1 2:U1519 2.3 23.3 1.0 P 2:U1519 3.4 23.3 1.0 OP2 2:U1519 3.7 23.3 1.0 OP1 2:G1233 4.3 18.2 1.0 C5' 2:G1233 4.4 18.2 1.0 O3' 2:C1518 4.4 18.4 1.0 N7 2:A1259 4.5 16.8 1.0 O5' 2:U1519 4.5 23.3 1.0 O2' 2:C1518 4.7 18.4 1.0 N6 2:A1259 4.7 16.8 1.0 OP2 2:C1234 4.7 19.1 1.0 O5' 2:G1233 4.7 18.2 1.0 C2' 2:C1518 4.7 18.4 1.0 C5' 2:U1519 4.8 23.3 1.0 MG 2:MG2047 4.8 23.0 1.0 N2 2:G1257 4.8 21.1 1.0 P 2:G1233 5.0 18.2 1.0

Magnesium binding site 8 out of 166 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 8 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg2008 b:20.1 occ:1.00 OP1 2:G1226 2.3 24.4 1.0 OP2 2:G1227 2.8 19.1 1.0 P 2:G1226 3.3 24.4 1.0 OP2 2:G1226 3.6 24.4 1.0 P 2:G1227 3.8 19.1 1.0 OP1 2:G1227 3.8 19.1 1.0 O5' 2:G1226 3.9 24.4 1.0 C5' 2:G1226 4.2 24.4 1.0 OP2 2:A1228 4.3 17.6 1.0 N7 2:A1228 4.3 17.6 1.0 O6 2:G1528 4.6 17.6 1.0 O3' 2:U1225 4.7 23.0 1.0 O5' 2:G1227 4.8 19.1 1.0 O6 2:G1229 4.8 19.6 1.0 N6 2:A1228 4.9 17.6 1.0 O3' 2:G1226 4.9 24.4 1.0

Magnesium binding site 9 out of 166 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 9 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg2009 b:16.5 occ:1.00 OP1 2:C1262 2.3 24.7 1.0 P 2:C1262 3.8 24.7 1.0 O6 2:G1515 3.9 20.8 1.0 O3' 2:C1261 4.4 23.3 1.0 MG 2:MG2054 4.4 31.3 1.0 N7 2:G1515 4.4 20.8 1.0 C5' 2:C1262 4.5 24.7 1.0 O5' 2:C1262 4.7 24.7 1.0 OP2 2:C1262 4.7 24.7 1.0 O6 2:G1516 4.8 17.8 1.0 C6 2:G1515 4.8 20.8 1.0 N7 2:G1514 4.8 24.4 1.0 O6 2:G1514 4.9 24.4 1.0

Magnesium binding site 10 out of 166 in the Sars-Cov-2-NSP1-40S Complex, Composite Map


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 10 of Sars-Cov-2-NSP1-40S Complex, Composite Map within 5.0Å range: probe atom residue distance (Å) B Occ 2:Mg2010 b:13.4 occ:1.00 OP1 2:A1259 2.4 16.8 1.0 OP2 2:A1260 2.5 17.8 1.0 P 2:A1259 3.5 16.8 1.0 OP2 2:A1259 3.6 16.8 1.0 P 2:A1260 3.8 17.8 1.0 OP1 2:A1260 4.3 17.8 1.0 N1 2:A1663 4.4 17.0 1.0 O5' 2:A1259 4.6 16.8 1.0 O3' 2:A1258 4.6 18.6 1.0 C5' 2:A1259 4.6 16.8 1.0 C2 2:A1663 4.7 17.0 1.0 N3 2:A1259 4.8 16.8 1.0 C2 2:A1259 4.8 16.8 1.0 C3' 2:A1259 4.8 16.8 1.0 O3' 2:A1259 4.8 16.8 1.0 O2' 2:A1258 4.8 18.6 1.0 O5' 2:A1260 4.8 17.8 1.0 C2' 2:A1258 4.9 18.6 1.0

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