Potassium in PDB 8r6f: Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain

The structure of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain also contains other interesting chemical elements:

Magnesium	(Mg)	32 atoms
Zinc	(Zn)	1 atom

Pages:

>>> Page 1 <<< Page 2, Binding sites: 11 - 14;

Binding sites:

The binding sites of Potassium atom in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain (pdb code 8r6f). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 14 binding sites of Potassium where determined in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain, PDB code: 8r6f:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6; 7; 8; 9; 10;

Potassium binding site 1 out of 14 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1901 b:22.4 occ:1.00 O A:HOH2828 2.5 16.8 1.0 O E:ALA2 2.7 11.0 1.0 O I:HOH318 2.8 10.8 1.0 OP1 A:A305 2.9 11.5 1.0 O3' A:A304 3.0 12.6 1.0 O A:HOH2164 3.5 9.9 1.0 P A:A305 3.6 11.5 1.0 N E:ALA2 3.7 11.0 1.0 C E:ALA2 3.7 11.0 1.0 C3' A:A304 4.2 12.6 1.0 CA E:ALA2 4.3 11.0 1.0 C4' A:A304 4.4 12.6 1.0 OP1 A:G388 4.5 10.4 1.0 C5' A:A305 4.6 11.5 1.0 O5' A:A305 4.7 11.5 1.0 OP2 A:A305 4.7 11.5 1.0 O2' A:A304 4.7 12.6 1.0 C5' A:A304 4.8 12.6 1.0 CB E:ALA2 4.9 11.0 1.0 CE2 I:TYR27 4.9 11.0 1.0 N E:ARG3 4.9 9.8 1.0

Potassium binding site 2 out of 14 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1902 b:16.5 occ:1.00 O A:HOH2384 2.8 23.0 1.0 OP2 A:G92 3.0 8.8 1.0 O6 A:G402 3.0 11.2 1.0 O5' A:G92 3.2 8.8 1.0 OP2 A:A93 3.2 9.5 1.0 O A:HOH2551 3.5 12.8 1.0 N7 A:A93 3.5 9.5 1.0 P A:G92 3.5 8.8 1.0 N1 A:A94 3.7 10.1 1.0 K A:K1903 3.8 14.8 1.0 C2 A:A94 4.0 10.1 1.0 C8 A:A93 4.0 9.5 1.0 C8 A:G92 4.1 8.8 1.0 C6 A:G402 4.1 11.2 1.0 OP1 A:G92 4.1 8.8 1.0 O A:HOH2833 4.1 12.2 1.0 C3' A:G92 4.2 8.8 1.0 N1 A:G402 4.4 11.2 1.0 N7 A:G92 4.4 8.8 1.0 C5' A:G92 4.4 8.8 1.0 P A:A93 4.5 9.5 1.0 C6 A:A94 4.7 10.1 1.0 N9 A:G92 4.8 8.8 1.0 C4' A:G92 4.8 8.8 1.0 C5 A:A93 4.8 9.5 1.0 O3' A:G92 4.8 8.8 1.0 O2' A:G400 4.9 11.8 1.0 O5' A:A93 5.0 9.5 1.0

Potassium binding site 3 out of 14 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1903 b:14.8 occ:1.00 O2' A:G400 2.5 11.8 1.0 O A:HOH2384 2.5 23.0 1.0 O6 A:G402 2.8 11.2 1.0 N7 A:A401 3.0 10.8 1.0 O A:HOH2709 3.0 17.9 1.0 OP2 A:G92 3.1 8.8 1.0 OP1 A:G92 3.3 8.8 1.0 O3' A:G400 3.6 11.8 1.0 P A:G92 3.7 8.8 1.0 C8 A:A401 3.7 10.8 1.0 C6 A:G402 3.7 11.2 1.0 C2' A:G400 3.7 11.8 1.0 K A:K1902 3.8 16.5 1.0 C3' A:G400 4.0 11.8 1.0 C5 A:A401 4.1 10.8 1.0 C4' A:G400 4.2 11.8 1.0 N7 A:G402 4.2 11.2 1.0 C5 A:G402 4.3 11.2 1.0 N6 A:A401 4.3 10.8 1.0 C1' A:G400 4.6 11.8 1.0 C6 A:A401 4.7 10.8 1.0 O5' A:G92 4.7 8.8 1.0 N1 A:G402 4.7 11.2 1.0 O4' A:G400 4.8 11.8 1.0 P A:A401 4.9 10.8 1.0 O3' A:C91 4.9 11.3 1.0 N9 A:A401 4.9 10.8 1.0 OP1 A:A401 5.0 10.8 1.0

Potassium binding site 4 out of 14 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1904 b:33.2 occ:1.00 O a:HOH307 2.2 22.0 1.0 O a:HOH306 2.5 24.3 1.0 O a:LYS34 2.5 20.1 1.0 O2 A:U1806 2.7 19.0 1.0 O A:HOH2407 3.0 25.7 1.0 OP2 A:A1808 3.2 28.0 1.0 C a:LYS34 3.5 20.1 1.0 C2 A:U1806 3.9 19.0 1.0 CA a:LYS34 4.0 20.1 1.0 O a:GLY9 4.1 18.2 1.0 O a:ALA35 4.2 23.3 1.0 P A:A1808 4.3 28.0 1.0 O a:ASP33 4.3 22.8 1.0 CG1 a:ILE36 4.4 23.6 1.0 OP1 A:A1808 4.4 28.0 1.0 C a:ALA35 4.4 23.3 1.0 N3 A:U1806 4.5 19.0 1.0 CD1 a:ILE36 4.5 23.6 1.0 N a:ALA35 4.6 23.3 1.0 N a:ILE36 4.6 23.6 1.0 CA a:ILE36 4.9 23.6 1.0 CA a:ALA35 4.9 23.3 1.0 CG a:LYS34 4.9 20.1 1.0 C a:GLY9 5.0 18.2 1.0 N1 A:U1806 5.0 19.0 1.0 O5' A:A1808 5.0 28.0 1.0 O A:HOH2497 5.0 23.5 1.0

Potassium binding site 5 out of 14 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1905 b:13.3 occ:1.00 OP2 A:G339 2.5 9.4 1.0 N7 A:G340 2.8 9.4 1.0 N1 A:A335 2.8 9.9 1.0 O2 A:U336 3.1 9.3 1.0 O A:HOH2031 3.2 12.2 1.0 C2 A:A335 3.4 9.9 1.0 O6 A:G340 3.5 9.4 1.0 P A:G339 3.7 9.4 1.0 O5' A:G339 3.7 9.4 1.0 N7 A:G339 3.7 9.4 1.0 C5 A:G340 3.7 9.4 1.0 C2 A:U336 3.7 9.3 1.0 C8 A:G339 3.7 9.4 1.0 N3 A:U336 3.7 9.3 1.0 C6 A:A335 3.8 9.9 1.0 C8 A:G340 3.8 9.4 1.0 C6 A:G340 3.9 9.4 1.0 N6 A:A335 4.0 9.9 1.0 C3' A:G338 4.6 9.9 1.0 C5 A:G339 4.6 9.4 1.0 O3' A:G338 4.7 9.9 1.0 N3 A:A335 4.7 9.9 1.0 N9 A:G339 4.7 9.4 1.0 OP1 A:G339 4.8 9.4 1.0 NH1 I:ARG5 4.8 10.1 1.0 OP2 A:G340 4.8 9.4 1.0 C4 A:U336 4.9 9.3 1.0 N1 A:U336 4.9 9.3 1.0 C4 A:G340 4.9 9.4 1.0 C5 A:A335 5.0 9.9 1.0 N9 A:G340 5.0 9.4 1.0

Potassium binding site 6 out of 14 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1906 b:14.8 occ:1.00 O2 A:PSU111 2.6 12.7 1.0 N7 A:G110 2.6 12.7 1.0 O6 A:G110 2.8 12.7 1.0 O A:HOH2889 2.9 11.0 1.0 O A:HOH2464 3.1 11.3 1.0 O A:HOH2305 3.1 10.4 1.0 C2 A:PSU111 3.2 12.7 1.0 C5 A:G110 3.3 12.7 1.0 C6 A:G110 3.3 12.7 1.0 O A:HOH2071 3.6 10.3 1.0 O A:HOH2605 3.6 15.6 1.0 N7 A:A109 3.7 11.4 1.0 C8 A:G110 3.8 12.7 1.0 N1 A:PSU111 3.8 12.7 1.0 N3 A:PSU111 3.9 12.7 1.0 C5 A:A109 3.9 11.4 1.0 C6 A:A109 4.2 11.4 1.0 N6 A:A109 4.2 11.4 1.0 C8 A:A109 4.3 11.4 1.0 O A:HOH2771 4.6 15.4 1.0 C4 A:G110 4.6 12.7 1.0 O2 A:PSU308 4.6 9.9 1.0 C4 A:A109 4.6 11.4 1.0 N1 A:G110 4.7 12.7 1.0 N9 A:G110 4.8 12.7 1.0 N9 A:A109 4.8 11.4 1.0 C6 A:PSU111 4.9 12.7 1.0 OP2 A:A109 4.9 11.4 1.0 C4 A:PSU111 5.0 12.7 1.0 O A:HOH2737 5.0 10.4 1.0

Potassium binding site 7 out of 14 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1907 b:21.0 occ:1.00 O4 A:U1298 2.8 16.9 1.0 O4 A:U1308 2.8 14.8 1.0 O6 A:G1299 2.9 15.1 1.0 O A:HOH2001 3.2 12.7 1.0 O A:HOH2283 3.2 15.3 1.0 N2 A:G1309 3.5 16.2 1.0 C4 A:U1298 3.7 16.9 1.0 MG A:MG1916 3.8 18.9 1.0 C4 A:U1308 3.9 14.8 1.0 O A:HOH2710 3.9 15.1 1.0 C6 A:G1299 3.9 15.1 1.0 C5 A:U1298 4.1 16.9 1.0 N3 A:U1308 4.1 14.8 1.0 C2 A:G1309 4.2 16.2 1.0 O4 A:U1307 4.3 13.4 1.0 N7 A:G1299 4.4 15.1 1.0 C5 A:G1299 4.5 15.1 1.0 O6 A:OMG1300 4.6 13.4 1.0 N1 A:G1309 4.7 16.2 1.0 OP2 A:G1297 4.8 17.2 1.0 O A:HOH2879 4.8 10.7 1.0 N3 A:U1298 4.8 16.9 1.0 N3 A:G1309 4.9 16.2 1.0 O A:HOH2922 5.0 17.1 1.0

Potassium binding site 8 out of 14 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1908 b:17.0 occ:1.00 OP2 A:C459 2.9 16.0 1.0 O6 A:G455 2.9 9.1 1.0 O4 A:U454 2.9 9.3 1.0 O6 A:G460 3.0 10.3 1.0 O A:HOH2489 3.5 13.6 1.0 OP1 A:C459 3.8 16.0 1.0 P A:C459 3.8 16.0 1.0 O A:HOH2860 3.9 10.8 1.0 O A:HOH2260 3.9 10.8 1.0 C6 A:G455 3.9 9.1 1.0 C4 A:U454 4.0 9.3 1.0 NE2 E:GLN62 4.0 19.2 1.0 C6 A:G460 4.0 10.3 1.0 O A:HOH2840 4.2 9.1 1.0 N3 A:U454 4.2 9.3 1.0 O6 A:G461 4.4 9.9 1.0 N1 A:G455 4.4 9.1 1.0 N7 A:G460 4.4 10.3 1.0 N4 A:C453 4.4 8.7 1.0 C5 A:G460 4.6 10.3 1.0 O5' A:C459 4.8 16.0 1.0 CD E:GLN62 4.9 19.2 1.0

Potassium binding site 9 out of 14 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1909 b:22.7 occ:1.00 OP1 A:U1782 2.6 19.5 1.0 OP1 A:C1795 2.7 22.9 1.0 O2P A:6MZ1774 3.0 20.7 1.0 O3' A:A1773 3.2 27.8 1.0 O A:HOH2587 3.3 17.8 1.0 P A:6MZ1774 3.7 20.7 1.0 MG A:MG1917 3.8 17.1 1.0 O A:HOH2433 3.9 20.4 1.0 P A:C1795 3.9 22.9 1.0 P A:U1782 3.9 19.5 1.0 O A:HOH2747 4.0 17.0 1.0 OP2 A:C1795 4.2 22.9 1.0 C3' A:A1773 4.4 27.8 1.0 O5' A:U1782 4.4 19.5 1.0 C5' A:6MZ1774 4.4 20.7 1.0 OP2 A:U1782 4.5 19.5 1.0 O3' A:C1794 4.6 26.4 1.0 C4' A:A1773 4.6 27.8 1.0 O5' A:6MZ1774 4.6 20.7 1.0 O2' A:A1773 4.6 27.8 1.0 C5' A:U1782 4.9 19.5 1.0 O1P A:6MZ1774 4.9 20.7 1.0 OP1 A:G1779 5.0 19.7 1.0

Potassium binding site 10 out of 14 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Cryoem Structure of Wheat 40S Ribosomal Subunit, Body Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1910 b:14.4 occ:1.00 O A:HOH2720 2.4 11.9 1.0 OP1 A:G341 2.6 11.5 1.0 O4 A:U331 3.1 14.3 1.0 O A:HOH2458 3.2 12.0 1.0 O A:HOH2610 3.2 14.8 1.0 N2 A:G341 3.6 11.5 1.0 O A:HOH2171 3.6 14.2 1.0 N6 A:A332 3.7 12.8 1.0 C4 A:U331 3.7 14.3 1.0 P A:G341 3.8 11.5 1.0 C5 A:U331 3.8 14.3 1.0 O A:HOH2053 3.8 11.8 1.0 C2 A:G341 4.1 11.5 1.0 OP2 A:G341 4.2 11.5 1.0 O5' A:G341 4.4 11.5 1.0 N3 A:G341 4.5 11.5 1.0 O A:HOH2920 4.6 17.7 1.0 N1 A:G341 4.7 11.5 1.0 N7 A:G330 4.8 14.3 1.0 C6 A:A332 4.9 12.8 1.0 N3 A:U331 4.9 14.3 1.0 O4 A:U344 4.9 13.5 1.0 N7 A:A332 4.9 12.8 1.0 C6 A:U331 5.0 14.3 1.0

O.V.Kravchenko, T.N.Baymukhametov, Z.A.Afonina, K.S.Vassilenko. High-Resolution Structure and Internal Mobility of A Plant 40S Ribosomal Subunit Int J Mol Sci V. 24 2023.
ISSN: ESSN 1422-0067
DOI: 10.3390/IJMS242417453