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Potassium in PDB 9npx: Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)

Other elements in 9npx:

The structure of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) also contains other interesting chemical elements:

Magnesium (Mg) 57 atoms
Zinc (Zn) 1 atom

Potassium Binding Sites:

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 13;

Binding sites:

The binding sites of Potassium atom in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) (pdb code 9npx). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 13 binding sites of Potassium where determined in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body), PDB code: 9npx:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 13 in 9npx

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Potassium binding site 1 out of 13 in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) within 5.0Å range:
probe atom residue distance (Å) B Occ
N:K201

b:86.9
occ:1.00
 O4 i:U960 2.7 83.6 1.0
O N:ASN38 2.8 82.2 1.0
OE1 N:GLU68 2.8 86.7 1.0
O i:HOH2079 2.8 81.0 1.0
O N:ASP65 2.9 86.2 1.0
O6 i:G959 3.1 82.7 1.0
CD N:GLU68 3.6 86.8 1.0
C6 i:G959 3.7 78.5 1.0
C N:ASN38 3.7 77.5 1.0
CB N:GLU68 3.7 79.1 1.0
MG i:MG1953 3.7 81.5 1.0
C N:ASP65 3.8 83.8 1.0
CB N:ASN38 3.8 72.1 1.0
C4 i:U960 3.8 76.8 1.0
CA N:ASN38 3.9 73.7 1.0
CG N:GLU68 4.1 82.6 1.0
OD1 N:ASN38 4.1 80.2 1.0
C5 i:G959 4.2 77.5 1.0
N7 i:G959 4.3 81.1 1.0
CG N:ASN38 4.3 76.2 1.0
CB N:ASP65 4.3 84.9 1.0
CA N:ASP65 4.3 85.7 1.0
C5 i:U960 4.4 76.0 1.0
OE2 N:GLU68 4.4 90.3 1.0
N1 i:G959 4.6 77.6 1.0
O N:HOH304 4.7 82.7 1.0
N N:ARG66 4.8 82.9 1.0
O N:HOH302 4.8 85.0 1.0
CA N:GLU68 4.8 80.2 1.0
N N:GLU68 4.8 83.3 1.0
N N:ASP39 4.9 76.1 1.0
N3 i:U960 5.0 74.3 1.0

Potassium binding site 2 out of 13 in 9npx

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Potassium binding site 2 out of 13 in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) within 5.0Å range:
probe atom residue distance (Å) B Occ
Z:K201

b:83.5
occ:1.00
 O2 i:U1864 2.6 66.8 1.0
O Z:HOH310 2.7 73.4 1.0
O Z:LYS34 2.9 65.4 1.0
OP2 i:A1866 3.2 72.4 1.0
O Z:GLY9 3.3 66.5 1.0
O Z:HOH309 3.3 69.8 1.0
O i:HOH2810 3.3 72.3 1.0
C2 i:U1864 3.7 58.6 1.0
C Z:LYS34 3.8 60.2 1.0
N3 i:U1864 4.1 55.0 1.0
C Z:GLY9 4.1 61.3 1.0
CA Z:LYS34 4.1 57.4 1.0
O i:HOH2806 4.2 76.7 1.0
P i:A1866 4.3 76.0 1.0
OP1 i:A1866 4.3 77.1 1.0
CG Z:LYS34 4.5 56.8 1.0
CA Z:ARG10 4.6 61.6 1.0
O Z:ASP33 4.6 70.4 1.0
CD1 Z:ILE36 4.6 61.5 1.0
N Z:ARG10 4.7 62.7 1.0
O Z:ALA35 4.8 68.1 1.0
N1 i:U1864 4.9 57.2 1.0
CG1 Z:ILE36 4.9 63.7 1.0
CB Z:LYS34 5.0 57.6 1.0
N Z:ALA35 5.0 62.1 1.0
C Z:ALA35 5.0 62.1 1.0

Potassium binding site 3 out of 13 in 9npx

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Potassium binding site 3 out of 13 in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) within 5.0Å range:
probe atom residue distance (Å) B Occ
i:K1957

b:87.4
occ:1.00
 OD1 W:ASN63 2.8 67.2 1.0
O6 i:G625 2.9 68.0 1.0
N7 i:G625 3.0 64.4 1.0
N3 i:C614 3.2 74.1 1.0
O W:PRO62 3.3 74.2 1.0
C6 i:G625 3.6 63.3 1.0
O2 i:C614 3.6 77.7 1.0
C5 i:G625 3.6 61.5 1.0
C2 i:C614 3.7 75.0 1.0
CA W:ASN63 3.9 64.2 1.0
CG W:ASN63 3.9 63.9 1.0
C W:PRO62 4.0 69.6 1.0
C4 i:C614 4.0 75.5 1.0
C5 i:C624 4.1 56.6 1.0
N4 i:C624 4.2 59.0 1.0
C8 i:G625 4.2 63.6 1.0
N4 i:C614 4.3 77.7 1.0
N W:ASN63 4.3 66.4 1.0
CB W:ASN63 4.4 62.5 1.0
C4 i:C624 4.5 58.5 1.0
N1 i:C614 4.8 72.4 1.0
C W:ASN63 4.9 69.7 1.0
C4 i:G625 4.9 62.7 1.0
N1 i:G625 5.0 62.3 1.0
ND2 W:ASN63 5.0 63.3 1.0

Potassium binding site 4 out of 13 in 9npx

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Potassium binding site 4 out of 13 in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) within 5.0Å range:
probe atom residue distance (Å) B Occ
i:K1958

b:68.1
occ:1.00
 O2' i:C492 2.6 67.6 1.0
O2 i:C492 2.6 59.8 1.0
O6 i:G506 2.7 58.1 1.0
O4 i:U495 2.8 54.9 1.0
O i:HOH2054 2.9 68.8 1.0
N4 i:C496 3.1 53.6 1.0
O i:HOH3269 3.3 73.3 1.0
C6 i:G506 3.8 53.6 1.0
C2 i:C492 3.8 56.9 1.0
C4 i:U495 3.8 54.4 1.0
C2' i:C492 3.9 62.0 1.0
C4 i:C496 4.1 53.4 1.0
N4 i:C494 4.2 55.8 1.0
OP2 i:C494 4.2 69.5 1.0
C5 i:C494 4.2 56.0 1.0
C1' i:C492 4.2 58.8 1.0
O i:HOH2896 4.3 67.3 1.0
C5 i:U495 4.3 53.9 1.0
N6 i:A508 4.4 52.9 1.0
C4 i:C494 4.4 55.7 1.0
N1 i:C492 4.5 56.2 1.0
N1 i:G506 4.5 51.7 1.0
O3' i:C492 4.6 68.0 1.0
N3 i:C496 4.6 54.5 1.0
N3 i:C492 4.7 56.0 1.0
C5 i:G506 4.7 53.2 1.0
C3' i:C492 4.9 61.5 1.0
N3 i:U495 5.0 54.6 1.0
N7 i:G506 5.0 55.0 1.0

Potassium binding site 5 out of 13 in 9npx

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Potassium binding site 5 out of 13 in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) within 5.0Å range:
probe atom residue distance (Å) B Occ
i:K1959

b:76.5
occ:1.00
 O4 i:U1015 2.7 74.5 1.0
OG M:SER12 2.7 66.5 1.0
O6 i:G1014 2.9 62.8 1.0
O4 i:U1013 3.2 57.2 1.0
N7 i:G1014 3.3 59.2 1.0
C4 i:U1013 3.5 53.7 1.0
C5 i:U1013 3.5 52.9 1.0
C6 i:G1014 3.6 58.6 1.0
C4 i:U1015 3.7 67.6 1.0
CB M:SER12 3.7 62.9 1.0
C5 i:G1014 3.8 56.9 1.0
O M:SER12 3.9 66.6 1.0
O i:HOH2515 4.0 65.7 1.0
C M:SER12 4.3 63.8 1.0
N3 i:U1015 4.4 64.5 1.0
C8 i:G1014 4.5 59.1 1.0
C6 i:U1013 4.5 53.5 1.0
C5 i:U1015 4.6 63.9 1.0
N3 i:U1013 4.6 52.6 1.0
CA M:SER12 4.6 61.5 1.0
N1 i:G1014 5.0 57.2 1.0

Potassium binding site 6 out of 13 in 9npx

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Potassium binding site 6 out of 13 in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) within 5.0Å range:
probe atom residue distance (Å) B Occ
i:K1960

b:67.6
occ:1.00
 OP1 i:C1853 2.7 70.2 1.0
O2P i:6MZ1832 2.8 66.1 1.0
OP1 i:U1840 2.9 67.7 1.0
O i:HOH3018 3.0 67.6 1.0
O i:HOH2911 3.0 71.5 1.0
O3' i:A1831 3.1 68.4 1.0
O i:HOH3224 3.2 70.8 1.0
O i:HOH2928 3.3 69.1 1.0
P i:6MZ1832 3.6 61.2 1.0
MG i:MG1933 3.7 69.0 1.0
P i:C1853 3.8 66.3 1.0
P i:U1840 4.0 67.6 1.0
OP2 i:C1853 4.0 65.8 1.0
O i:HOH2541 4.1 72.1 1.0
C5' i:6MZ1832 4.2 59.4 1.0
C3' i:A1831 4.3 63.1 1.0
O5' i:6MZ1832 4.4 61.4 1.0
O5' i:U1840 4.4 66.8 1.0
O3' i:C1852 4.4 65.7 1.0
OP2 i:U1840 4.5 68.8 1.0
O2' i:A1831 4.6 69.2 1.0
C4' i:A1831 4.6 62.8 1.0
O i:HOH2494 4.6 70.0 1.0
O i:HOH2478 4.7 70.1 1.0
O i:HOH2269 4.8 66.6 1.0
O1P i:6MZ1832 4.8 62.0 1.0
C5' i:U1840 4.9 61.6 1.0

Potassium binding site 7 out of 13 in 9npx

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Potassium binding site 7 out of 13 in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) within 5.0Å range:
probe atom residue distance (Å) B Occ
i:K1961

b:79.7
occ:1.00
 O i:HOH2940 2.7 72.8 1.0
O4 i:U1797 2.8 70.2 1.0
O6 i:G1737 2.8 66.2 1.0
O6 i:G1736 3.1 68.3 1.0
O6 i:G1796 3.4 72.8 1.0
C4 i:U1797 3.7 67.5 1.0
O i:HOH2566 3.8 78.6 1.0
C6 i:G1736 3.8 62.3 1.0
C6 i:G1737 3.9 62.4 1.0
N3 i:U1797 4.0 64.3 1.0
N4 i:C1738 4.1 61.5 1.0
N4 i:C1798 4.2 64.6 1.0
N7 i:G1737 4.2 64.1 1.0
O i:HOH3019 4.3 69.5 1.0
C6 i:G1796 4.3 69.5 1.0
C5 i:G1736 4.4 61.8 1.0
C5 i:G1737 4.4 59.8 1.0
N1 i:G1736 4.6 61.0 1.0
N7 i:G1736 4.6 66.8 1.0

Potassium binding site 8 out of 13 in 9npx

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Potassium binding site 8 out of 13 in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) within 5.0Å range:
probe atom residue distance (Å) B Occ
i:K1962

b:77.2
occ:1.00
 OP1 i:A1834 2.7 70.6 1.0
OP2 i:A1835 2.7 69.2 1.0
OP1 i:A1863 2.9 68.7 1.0
O2' i:G1693 3.0 65.3 1.0
O5' i:A1863 3.4 65.3 1.0
O5' i:A1834 3.5 66.1 1.0
P i:A1834 3.6 68.5 1.0
O i:HOH2429 3.7 65.9 1.0
P i:A1863 3.7 67.8 1.0
O3' i:G1693 4.1 67.1 1.0
P i:A1835 4.2 66.0 1.0
C5' i:A1835 4.2 63.9 1.0
C5' i:A1863 4.2 62.3 1.0
C2' i:G1693 4.2 61.3 1.0
OP2 i:A1834 4.2 66.1 1.0
O i:HOH2318 4.3 68.9 1.0
C4' i:G1693 4.4 60.7 1.0
C3' i:G1693 4.5 62.7 1.0
OP2 i:A1863 4.6 65.8 1.0
C5' i:U1694 4.6 63.9 1.0
O5' i:A1835 4.7 68.0 1.0
C3' i:A1834 4.8 60.9 1.0
C5' i:A1834 4.8 61.2 1.0
O i:HOH2058 4.9 62.0 1.0
C1' i:G1693 4.9 60.4 1.0
O4' i:G1693 4.9 63.5 1.0
O3' i:A1834 4.9 64.7 1.0
O3' i:C1833 5.0 66.2 1.0
O3' i:G1862 5.0 65.0 1.0

Potassium binding site 9 out of 13 in 9npx

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Potassium binding site 9 out of 13 in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) within 5.0Å range:
probe atom residue distance (Å) B Occ
i:K1963

b:88.1
occ:1.00
 O2' i:G114 2.7 77.1 1.0
O2' i:C382 2.7 70.2 1.0
O2 i:C382 2.8 70.4 1.0
O4' i:U115 2.8 71.6 1.0
N3 i:G114 2.9 69.3 1.0
C2' i:C382 3.4 64.6 1.0
C1' i:U115 3.4 67.1 1.0
C1' i:C382 3.5 66.7 1.0
C1' i:G114 3.5 68.2 1.0
C2' i:G114 3.6 70.7 1.0
C4 i:G114 3.7 65.2 1.0
C2 i:G114 3.7 69.3 1.0
O5' i:U115 3.8 78.2 1.0
N2 i:G114 3.8 68.5 1.0
C2 i:C382 3.9 68.1 1.0
N9 i:G114 3.9 65.9 1.0
N1 i:U115 3.9 64.3 1.0
C4' i:U115 4.0 68.8 1.0
C6 i:U115 4.0 63.7 1.0
O3' i:G114 4.1 77.0 1.0
N1 i:C382 4.2 65.5 1.0
C3' i:G114 4.5 72.4 1.0
C5' i:U115 4.5 70.9 1.0
O4' i:C382 4.6 71.4 1.0
O2' i:U112 4.7 78.7 1.0
P i:U115 4.7 85.2 1.0
C8 i:G383 4.7 68.1 1.0
O4' i:G114 4.8 71.0 1.0
C2' i:U115 4.8 66.6 1.0
C2 i:U115 4.8 64.2 1.0
N1 i:G114 4.9 68.3 1.0
C3' i:C382 4.9 66.8 1.0
C5 i:G114 4.9 64.6 1.0
C5 i:U115 4.9 63.1 1.0
O4' i:G383 5.0 69.1 1.0

Potassium binding site 10 out of 13 in 9npx

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Potassium binding site 10 out of 13 in the Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body)


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Sars-Cov-2 NSP1 Bound to the Rhinolophus Lepidus 40S Ribosomal Subunit (Local Refinement of the 40S Body) within 5.0Å range:
probe atom residue distance (Å) B Occ
i:K1964

b:89.3
occ:1.00
 O i:HOH3272 2.7 77.3 1.0
O2 i:C1853 2.8 64.5 1.0
O2' i:C1853 2.9 66.4 1.0
OP1 i:A1062 3.1 90.5 1.0
OP1 i:A1050 3.2 71.7 1.0
O4' i:U1854 3.4 62.4 1.0
C2' i:C1853 3.5 60.9 1.0
O i:HOH2060 3.6 80.2 1.0
C1' i:C1853 3.7 59.2 1.0
C2 i:C1853 3.9 59.1 1.0
N2 i:G1846 4.0 59.4 1.0
C1' i:U1854 4.0 59.5 1.0
P i:A1062 4.0 102.5 1.0
OP2 i:A1062 4.1 91.6 1.0
N1 i:C1853 4.3 58.1 1.0
P i:A1050 4.4 70.5 1.0
C4' i:U1854 4.4 61.6 1.0
C4' i:A1062 4.7 72.4 1.0
N1 i:U1854 4.7 56.9 1.0
O5' i:A1062 4.7 90.5 1.0
OP2 i:A1050 4.7 71.8 1.0
C5' i:A1062 4.7 78.0 1.0
O i:HOH2310 4.9 74.9 1.0
N2 i:G1847 4.9 62.9 1.0
O4' i:C1853 4.9 64.5 1.0
C5' i:U1854 4.9 62.6 1.0

Reference:

R.Gen, A.Addetia, D.Asarnow, Y.J.Park, J.Quispe, M.C.Chan, J.T.Brown, J.Lee, M.G.Campbell, C.P.Lapointe, D.Veesler. Sars-Cov-2 NSP1 Mediates Broad Inhibition of Translation in Mammals. Cell Rep V. 44 15696 2025.
ISSN: ESSN 2211-1247
PubMed: 40359110
DOI: 10.1016/J.CELREP.2025.115696
Page generated: Sat Aug 9 19:20:24 2025

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