Potassium in PDB 8r57: Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain

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

Magnesium	(Mg)	20 atoms
Zinc	(Zn)	2 atoms

The binding sites of Potassium atom in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain (pdb code 8r57). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 6 binding sites of Potassium where determined in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head Domain, PDB code: 8r57:
Jump to Potassium binding site number: 1; 2; 3; 4; 5; 6;

Potassium binding site 1 out of 6 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head 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, Head Domain within 5.0Å range: probe atom residue distance (Å) B Occ d:K102 b:12.7 occ:1.00 OD1 d:ASN26 2.4 12.1 1.0 O d:HIS28 2.6 11.9 1.0 OE1 d:GLN41 3.0 10.0 1.0 O4' A:G1440 3.2 11.2 1.0 CB d:CYS39 3.5 11.4 1.0 C1' A:G1440 3.5 11.2 1.0 CG d:ASN26 3.5 12.1 1.0 SG d:CYS39 3.5 11.4 1.0 C d:HIS28 3.6 11.9 1.0 O2' A:G1440 3.8 11.2 1.0 C4' A:G1440 3.9 11.2 1.0 O d:HOH202 3.9 13.8 1.0 CD d:GLN41 3.9 10.0 1.0 CB d:ASN26 4.3 12.1 1.0 C2' A:G1440 4.3 11.2 1.0 NE2 d:GLN41 4.4 10.0 1.0 CB d:HIS28 4.4 11.9 1.0 CA d:HIS28 4.4 11.9 1.0 ND2 d:ASN26 4.5 12.1 1.0 N d:HIS28 4.5 11.9 1.0 N d:GLY29 4.5 10.1 1.0 N9 A:G1440 4.7 11.2 1.0 CA d:GLY29 4.7 10.1 1.0 CA d:CYS39 4.7 11.4 1.0 OP2 A:G1204 4.8 9.8 1.0 CG d:ARG40 4.8 9.7 1.0 C3' A:G1440 4.8 11.2 1.0 O d:GLY29 4.8 10.1 1.0 N d:ARG40 4.8 9.7 1.0 C5' A:G1440 4.9 11.2 1.0 C d:GLY29 4.9 10.1 1.0 ZN d:ZN101 5.0 27.2 1.0

Potassium binding site 2 out of 6 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head 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, Head Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1901 b:22.0 occ:1.00 O6 A:G1175 2.9 9.4 1.0 N7 A:G1175 2.9 9.4 1.0 N7 A:G1174 3.0 13.8 1.0 O A:HOH2182 3.1 9.6 1.0 OP2 A:G1174 3.2 13.8 1.0 OP2 A:U1173 3.2 13.2 1.0 O5' A:U1173 3.4 13.2 1.0 C6 A:G1175 3.5 9.4 1.0 C5 A:G1175 3.5 9.4 1.0 C8 A:G1174 3.5 13.8 1.0 N7 A:G1583 3.5 11.3 1.0 P A:U1173 3.8 13.2 1.0 C8 A:G1583 3.9 11.3 1.0 C8 A:G1175 4.0 9.4 1.0 C5 A:G1174 4.1 13.8 1.0 C3' A:U1173 4.3 13.2 1.0 OP1 A:U1173 4.3 13.2 1.0 P A:G1174 4.3 13.8 1.0 C6 A:U1173 4.3 13.2 1.0 C5 A:G1583 4.3 11.3 1.0 C5 A:U1173 4.4 13.2 1.0 O5' A:G1174 4.5 13.8 1.0 C5' A:U1173 4.6 13.2 1.0 O6 A:G1174 4.7 13.8 1.0 O A:HOH2054 4.7 10.4 1.0 N9 A:G1174 4.8 13.8 1.0 O3' A:U1173 4.8 13.2 1.0 C4 A:G1175 4.8 9.4 1.0 C6 A:G1174 4.8 13.8 1.0 N1 A:G1175 4.8 9.4 1.0 N9 A:G1583 4.9 11.3 1.0 N1 A:U1173 4.9 13.2 1.0 O6 A:G1583 5.0 11.3 1.0 C4' A:U1173 5.0 13.2 1.0 C6 A:G1583 5.0 11.3 1.0

Potassium binding site 3 out of 6 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head 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, Head Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1902 b:14.6 occ:1.00 OP1 A:A1201 2.5 6.3 1.0 O5' A:C1202 2.7 9.6 1.0 OP1 A:C1200 2.9 11.7 1.0 O4' A:C1202 3.2 9.6 1.0 OP1 A:C1202 3.2 9.6 1.0 P A:C1202 3.6 9.6 1.0 C5' A:C1202 3.7 9.6 1.0 P A:C1200 3.8 11.7 1.0 C4' A:C1202 3.8 9.6 1.0 P A:A1201 3.8 6.3 1.0 ND2 U:ASN83 3.9 13.2 1.0 OP2 A:C1200 4.0 11.7 1.0 O5' A:A1201 4.1 6.3 1.0 O5' A:C1200 4.1 11.7 1.0 O A:HOH2028 4.3 10.2 1.0 C5' A:C1200 4.3 11.7 1.0 C1' A:C1202 4.3 9.6 1.0 O3' A:A1201 4.6 6.3 1.0 C3' A:A1201 4.6 6.3 1.0 OP2 A:C1202 4.6 9.6 1.0 OP2 A:A1201 4.7 6.3 1.0 O3' A:C1200 4.9 11.7 1.0 CG U:ASN83 4.9 13.2 1.0 C6 A:C1202 4.9 9.6 1.0

Potassium binding site 4 out of 6 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head 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, Head Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1903 b:18.0 occ:1.00 O2 A:PSU1441 2.4 11.6 1.0 O6 A:G1278 2.5 9.1 1.0 O A:HOH2147 2.9 22.0 1.0 O A:HOH2167 3.0 22.0 1.0 O6 A:G1282 3.2 10.2 1.0 C2 A:PSU1441 3.3 11.6 1.0 N1 A:PSU1441 3.5 11.6 1.0 C6 A:G1278 3.7 9.1 1.0 C5' A:C1438 3.9 12.2 1.0 O2' A:U1437 4.0 7.5 1.0 N6 A:A1443 4.0 14.2 1.0 N2 A:G1283 4.1 7.2 1.0 C6 A:G1282 4.1 10.2 1.0 C2' A:U1437 4.2 7.5 1.0 OP1 A:G1440 4.2 11.2 1.0 N1 A:G1282 4.2 10.2 1.0 C4' A:C1438 4.2 12.2 1.0 N7 A:G1440 4.3 11.2 1.0 N1 A:G1278 4.3 9.1 1.0 O2 A:U1437 4.3 7.5 1.0 O4' A:C1438 4.4 12.2 1.0 C2 A:G1283 4.6 7.2 1.0 N3 A:PSU1441 4.6 11.6 1.0 N1 A:G1283 4.6 7.2 1.0 N7 A:A1443 4.7 14.2 1.0 C6 A:A1443 4.8 14.2 1.0 C5 A:G1278 4.8 9.1 1.0 C6 A:PSU1441 4.9 11.6 1.0 C8 A:G1440 4.9 11.2 1.0 C5 A:G1440 4.9 11.2 1.0 O6 A:G1440 5.0 11.2 1.0 C5 A:A1443 5.0 14.2 1.0

Potassium binding site 5 out of 6 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head 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, Head Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1904 b:15.4 occ:1.00 O6 A:G1436 2.6 7.0 1.0 O4 A:U1437 2.8 7.5 1.0 O A:HOH2140 3.0 22.0 1.0 O6 A:G1283 3.0 7.2 1.0 N4 A:C1284 3.1 5.1 1.0 C6 A:G1436 3.5 7.0 1.0 C4 A:U1437 3.7 7.5 1.0 N3 A:U1437 3.9 7.5 1.0 O A:HOH2222 4.0 22.0 1.0 C4 A:C1284 4.0 5.1 1.0 C6 A:G1283 4.1 7.2 1.0 N2 A:G1278 4.1 9.1 1.0 O A:HOH2217 4.2 10.6 1.0 N1 A:G1436 4.2 7.0 1.0 N3 A:C1284 4.2 5.1 1.0 C5 A:G1436 4.4 7.0 1.0 N7 A:G1283 4.5 7.2 1.0 C2 A:G1278 4.6 9.1 1.0 C5 A:G1283 4.7 7.2 1.0 N7 A:G1436 4.7 7.0 1.0 N3 A:G1278 4.8 9.1 1.0 OP2 A:G1282 4.8 10.2 1.0 O6 A:OMG1435 5.0 8.4 1.0

Potassium binding site 6 out of 6 in the Cryoem Structure of Wheat 40S Ribosomal Subunit, Head 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, Head Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:K1905 b:19.6 occ:1.00 O4 A:U1277 2.6 14.3 1.0 O2 A:C1438 2.7 12.2 1.0 O6 A:G1445 2.9 16.6 1.0 O6 A:OMG1276 3.0 16.4 1.0 C2 A:C1438 3.3 12.2 1.0 C4 A:U1277 3.4 14.3 1.0 N3 A:U1277 3.5 14.3 1.0 N4 A:C1446 3.8 15.2 1.0 C6 A:OMG1276 3.9 16.4 1.0 N3 A:U1444 3.9 16.2 1.0 N3 A:C1438 3.9 12.2 1.0 C6 A:G1445 4.0 16.6 1.0 N1 A:C1438 4.0 12.2 1.0 O4 A:U1444 4.0 16.2 1.0 C1' A:C1438 4.1 12.2 1.0 O2' A:C1438 4.2 12.2 1.0 C4 A:U1444 4.2 16.2 1.0 N7 A:G1445 4.3 16.6 1.0 C5 A:G1445 4.5 16.6 1.0 N6 A:A1280 4.6 15.9 1.0 N1 A:OMG1276 4.6 16.4 1.0 C2 A:U1444 4.6 16.2 1.0 C5 A:OMG1276 4.7 16.4 1.0 C4 A:C1446 4.7 15.2 1.0 C2 A:U1277 4.8 14.3 1.0 C2' A:C1438 4.8 12.2 1.0 C5 A:U1277 4.8 14.3 1.0 O2 A:U1444 4.8 16.2 1.0 C4 A:C1438 5.0 12.2 1.0 N7 A:OMG1276 5.0 16.4 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