Potassium in PDB 8ca7: Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head

The structure of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head also contains other interesting chemical elements:

Magnesium

(Mg)

26 atoms

Pages:

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

Binding sites:

The binding sites of Potassium atom in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head (pdb code 8ca7). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 14 binding sites of Potassium where determined in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head, PDB code: 8ca7:
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 Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head within 5.0Å range: probe atom residue distance (Å) B Occ A:K1601 b:35.4 occ:1.00 O A:HOH2073 2.6 34.8 1.0 O A:HOH2104 2.8 34.6 1.0 O A:HOH2043 2.9 33.1 1.0 OP1 A:U965 2.9 27.7 1.0 O4' A:G1198 3.2 25.2 1.0 O2' A:A1197 3.3 26.5 1.0 C4' A:G1198 3.5 25.0 1.0 C5' A:G1198 3.7 25.5 1.0 O3' A:A964 3.8 26.9 1.0 P A:U965 3.9 25.8 1.0 O A:HOH1931 4.1 44.1 1.0 O A:HOH1745 4.2 33.2 1.0 O A:HOH2005 4.2 29.8 1.0 C2' A:A1197 4.2 26.5 1.0 C5' A:U965 4.3 30.9 1.0 C1' A:G1198 4.3 25.1 1.0 O5' A:U965 4.7 29.0 1.0 OP1 A:A969 4.8 30.2 1.0 O2' A:A964 4.9 28.9 1.0 O5' A:G1198 4.9 25.6 1.0 C3' A:G1198 5.0 25.1 1.0

Potassium binding site 2 out of 14 in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head within 5.0Å range: probe atom residue distance (Å) B Occ A:K1629 b:27.7 occ:1.00 OP1 A:C979 2.6 24.2 1.0 N7 A:G1222 2.8 25.5 1.0 O A:HOH1701 2.9 34.6 1.0 N4 A:C1322 3.1 21.4 1.0 O A:HOH1804 3.3 21.3 1.0 O3' A:A978 3.5 26.7 1.0 P A:C979 3.6 23.3 1.0 C8 A:G1222 3.7 23.1 1.0 C5 A:G1222 3.8 25.7 1.0 O6 A:G1222 3.9 26.1 1.0 C5' A:C979 3.9 26.8 1.0 O A:HOH2062 3.9 25.0 1.0 O A:HOH2091 4.0 33.2 1.0 MG A:MG1606 4.0 21.2 1.0 C4 A:C1322 4.1 22.6 1.0 N7 A:G1221 4.1 25.0 1.0 C6 A:G1222 4.2 25.5 1.0 OP2 A:G1222 4.3 28.5 1.0 O5' A:C979 4.3 24.5 1.0 N4 A:C1223 4.5 22.6 1.0 C5 A:G1221 4.6 24.2 1.0 C8 A:G1221 4.6 25.7 1.0 N3 A:C1322 4.7 23.3 1.0 O2' A:A978 4.7 26.6 1.0 OP2 A:G1221 4.7 31.6 1.0 OP2 A:C979 4.8 23.4 1.0 C5 A:C1223 4.8 23.1 1.0 C3' A:A978 4.9 25.6 1.0 O6 A:G1221 4.9 27.0 1.0 N9 A:G1222 4.9 24.1 1.0 C5 A:C1322 4.9 23.6 1.0 C6 A:G1221 4.9 24.2 1.0 C4 A:G1222 5.0 25.3 1.0

Potassium binding site 3 out of 14 in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head within 5.0Å range: probe atom residue distance (Å) B Occ A:K1630 b:28.2 occ:1.00 O A:HOH2040 2.6 26.4 1.0 O6 A:G1206 2.7 28.1 1.0 O2 A:C1200 2.7 26.7 1.0 O4 A:U1052 2.8 31.4 1.0 O6 A:2MG1207 2.9 31.1 1.0 C2 A:C1200 3.6 26.3 1.0 N4 A:C1051 3.6 31.9 1.0 N3 A:U1205 3.7 26.6 1.0 C6 A:G1206 3.7 29.7 1.0 C6 A:2MG1207 3.7 31.9 1.0 C4 A:U1052 3.7 32.1 1.0 N7 A:G1206 3.8 30.6 1.0 O4 A:U1205 3.9 31.2 1.0 N3 A:U1052 3.9 31.4 1.0 C4 A:U1205 4.0 28.2 1.0 C5 A:G1206 4.1 30.5 1.0 N3 A:C1200 4.1 25.5 1.0 O2' A:C1200 4.2 30.7 1.0 C2 A:U1205 4.4 26.2 1.0 N1 A:2MG1207 4.4 31.8 1.0 N6 A:A1055 4.4 25.2 1.0 N1 A:C1200 4.5 28.7 1.0 C5 A:2MG1207 4.5 33.9 1.0 C4 A:C1051 4.7 33.2 1.0 O2 A:U1205 4.7 25.5 1.0 C1' A:C1200 4.7 28.2 1.0 N7 A:2MG1207 4.8 32.4 1.0 N3 A:C1051 4.9 34.2 1.0 N1 A:G1206 4.9 29.8 1.0 O A:HOH2024 4.9 36.2 1.0

Potassium binding site 4 out of 14 in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 4 of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head within 5.0Å range: probe atom residue distance (Å) B Occ A:K1631 b:83.4 occ:1.00 O6 A:G1079 2.9 59.6 1.0 O2' A:G1077 3.5 89.8 1.0 C6 A:G1079 4.1 58.1 1.0 C2' A:G1077 4.8 90.2 1.0 N6 A:A1080 4.8 52.9 1.0 O3' A:G1077 4.9 98.6 1.0 N1 A:G1079 5.0 56.0 1.0

Potassium binding site 5 out of 14 in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 5 of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head within 5.0Å range: probe atom residue distance (Å) B Occ A:K1632 b:30.3 occ:1.00 O2' A:C1322 2.8 28.5 1.0 O2 A:C1322 2.8 26.0 1.0 O A:HOH2101 2.9 29.1 1.0 O2' A:A1319 2.9 38.6 1.0 N3 A:A1319 3.0 36.0 1.0 O3' A:C1322 3.6 34.1 1.0 C2 A:A1319 3.7 34.7 1.0 C2' A:C1322 3.8 27.9 1.0 C1' A:C1322 3.8 27.9 1.0 C2 A:C1322 3.9 24.6 1.0 C1' A:A1319 3.9 36.9 1.0 C4 A:A1319 4.0 36.0 1.0 C2' A:A1319 4.0 37.5 1.0 O A:HOH1942 4.1 54.4 1.0 N3 A:A978 4.1 35.8 1.0 O4' A:G1323 4.2 34.7 1.0 C1' A:A978 4.3 26.4 1.0 O5' A:G1323 4.3 35.7 1.0 O4' A:A978 4.3 24.7 1.0 N1 A:C1322 4.3 25.3 1.0 C3' A:C1322 4.3 30.4 1.0 N9 A:A1319 4.4 37.1 1.0 C4 A:A978 4.5 32.1 1.0 C5' A:G1323 4.5 35.6 1.0 O A:HOH1713 4.5 27.4 1.0 N9 A:A978 4.6 29.6 1.0 P A:G1323 4.6 35.4 1.0 C8 A:G1323 4.6 35.9 1.0 OP2 A:U1321 4.7 32.2 1.0 O3' A:A1319 4.8 42.8 1.0 C2 A:A978 4.8 36.7 1.0 OP2 A:G1323 4.9 40.0 1.0 N3 A:C1322 5.0 23.3 1.0 O4' A:C1322 5.0 28.4 1.0 C4' A:G1323 5.0 33.1 1.0

Potassium binding site 6 out of 14 in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 6 of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head within 5.0Å range: probe atom residue distance (Å) B Occ A:K1633 b:108.3 occ:1.00 OP1 A:C1501 2.9 89.5 1.0 OP2 A:A1502 3.7 75.6 1.0 OP2 A:G1504 4.0 79.6 1.0 P A:C1501 4.4 87.0 1.0 OP1 A:A1502 4.4 75.6 1.0 P A:A1502 4.6 73.9 1.0 C1' A:G1530 4.7 177.7 1.0 C5' A:A1503 4.7 74.0 1.0 C4' A:A1503 4.8 74.5 1.0 O5' A:C1501 4.9 85.4 1.0 O4' A:G1530 4.9 178.2 1.0 C5' A:C1501 4.9 82.2 1.0

Potassium binding site 7 out of 14 in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 7 of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head within 5.0Å range: probe atom residue distance (Å) B Occ A:K1634 b:46.8 occ:1.00 O6 A:G1074 2.6 45.1 1.0 O4 A:U1073 2.7 51.7 1.0 O4 A:U1083 2.8 44.4 1.0 O A:HOH2065 2.9 44.8 1.0 N6 A:A1082 3.5 46.6 1.0 C4 A:U1073 3.6 48.6 1.0 C6 A:G1074 3.6 45.4 1.0 C4 A:U1083 3.7 42.3 1.0 N3 A:U1083 3.8 41.9 1.0 N2 A:G1084 3.8 34.9 1.0 C5 A:U1073 4.0 52.8 1.0 O A:HOH1867 4.2 38.7 1.0 N7 A:G1074 4.2 50.3 1.0 C5 A:G1074 4.3 47.1 1.0 O A:HOH1759 4.3 47.5 1.0 C2 A:G1084 4.4 32.9 1.0 N6 A:A1102 4.4 40.5 1.0 C6 A:A1082 4.4 44.1 1.0 N1 A:G1084 4.6 32.6 1.0 O4 A:U1075 4.7 65.7 1.0 N1 A:G1074 4.8 41.3 1.0 N7 A:G1072 4.8 40.2 1.0 N3 A:U1073 4.8 48.1 1.0 N1 A:A1082 4.9 44.7 1.0 OP2 A:G1072 5.0 50.7 1.0

Potassium binding site 8 out of 14 in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 8 of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head within 5.0Å range: probe atom residue distance (Å) B Occ A:K1635 b:44.4 occ:1.00 OP2 A:C1303 2.6 40.6 1.0 O6 A:G1304 2.8 42.0 1.0 O6 A:G1305 2.8 40.6 1.0 N7 A:G1304 3.0 41.0 1.0 O A:HOH1769 3.4 41.6 1.0 C6 A:G1304 3.5 40.8 1.0 C5 A:G1304 3.6 41.2 1.0 C6 A:G1305 3.7 40.0 1.0 C5 A:C1303 3.8 31.3 1.0 P A:C1303 4.0 39.5 1.0 C8 A:G1304 4.2 39.5 1.0 N1 A:G1305 4.2 37.5 1.0 C6 A:C1303 4.3 31.7 1.0 O5' A:C1303 4.4 36.2 1.0 C4 A:C1303 4.6 33.5 1.0 OP2 A:U1301 4.7 52.3 1.0 N4 A:C1303 4.8 30.9 1.0 OP1 A:C1303 4.8 41.2 1.0 C5 A:G1305 4.8 40.7 1.0 N1 A:G1304 4.9 43.0 1.0 C4 A:G1304 4.9 42.6 1.0 O2' A:G1331 5.0 45.7 1.0

Potassium binding site 9 out of 14 in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 9 of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head within 5.0Å range: probe atom residue distance (Å) B Occ A:K1636 b:38.1 occ:1.00 O A:HOH2048 2.7 36.7 1.0 N7 A:G1233 2.7 26.9 1.0 OP1 A:G944 2.9 27.8 1.0 O A:HOH1736 2.9 29.5 1.0 O3' A:U943 3.4 30.1 1.0 O6 A:G1233 3.4 26.7 1.0 C5 A:G1233 3.6 24.3 1.0 O4 A:U1232 3.6 26.7 1.0 O A:HOH1758 3.6 31.3 1.0 P A:G944 3.7 29.3 1.0 C8 A:G1233 3.8 25.8 1.0 C5 A:U1232 3.8 25.9 1.0 C4 A:U1232 3.8 28.1 1.0 O A:HOH1744 3.9 54.6 1.0 C6 A:G1233 3.9 24.6 1.0 O A:HOH1796 4.1 24.3 1.0 MG A:MG1608 4.3 27.7 1.0 C6 A:U1232 4.7 25.8 1.0 C3' A:U943 4.7 31.3 1.0 N3 A:U1232 4.7 29.6 1.0 C5' A:G944 4.7 34.2 1.0 O5' A:G944 4.8 32.2 1.0 O2' A:U943 4.8 31.4 1.0 OP2 A:G944 4.9 28.7 1.0 C4 A:G1233 4.9 25.6 1.0 N4 A:C1234 4.9 26.6 1.0 N9 A:G1233 5.0 27.9 1.0

Potassium binding site 10 out of 14 in the Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 10 of Omadacycline and Spectinomycin Bound to the 30S Ribosomal Subunit Head within 5.0Å range: probe atom residue distance (Å) B Occ A:K1637 b:28.4 occ:1.00 O6 A:G971 2.6 30.0 1.0 O2' A:G1233 2.9 30.6 1.0 O2 A:U1364 2.9 27.4 1.0 O2' A:U1364 2.9 30.6 1.0 N3 A:A949 3.0 27.2 1.0 N3 A:G1233 3.1 26.1 1.0 N7 A:G971 3.1 24.2 1.0 C6 A:G971 3.3 28.5 1.0 C2' A:G1233 3.4 30.0 1.0 C2 A:A949 3.5 24.7 1.0 C5 A:G971 3.5 27.3 1.0 C1' A:G1233 3.7 31.6 1.0 N2 A:G1233 3.8 24.4 1.0 C2 A:U1364 3.9 29.4 1.0 C2 A:G1233 3.9 25.7 1.0 O4' A:C1234 4.0 33.6 1.0 C1' A:U1364 4.0 31.2 1.0 C2' A:U1364 4.0 31.4 1.0 C4 A:A949 4.0 26.3 1.0 C4 A:G1233 4.0 25.6 1.0 O3' A:U1364 4.1 31.8 1.0 C5' A:G1365 4.2 30.4 1.0 N9 A:G1233 4.3 27.9 1.0 C1' A:A949 4.3 27.8 1.0 C8 A:G971 4.4 25.4 1.0 N1 A:U1364 4.4 32.2 1.0 O2' A:A949 4.5 28.0 1.0 N9 A:A949 4.5 29.4 1.0 C1' A:C1234 4.6 32.8 1.0 N1 A:G971 4.7 28.8 1.0 C3' A:U1364 4.7 31.5 1.0 C2' A:A949 4.7 26.4 1.0 N1 A:A949 4.7 23.4 1.0 O4' A:G1233 4.9 30.9 1.0 C4 A:G971 4.9 26.5 1.0 N3 A:U1364 4.9 31.0 1.0 C3' A:G1233 4.9 31.0 1.0

H.Paternoga, C.Crowe-Mcauliffe, L.V.Bock, T.O.Koller, M.Morici, B.Beckert, A.G.Myasnikov, H.Grubmueller, J.Novacek, D.N.Wilson. Structural Conservation of Antibiotic Interaction with Ribosomes To Be Published.