Potassium in PDB 6prv: 58NT Rna L11-Binding Domain From E. Coli 23S Rrna

The structure of 58NT Rna L11-Binding Domain From E. Coli 23S Rrna, PDB code: 6prv was solved by G.L.Conn, M.S.Dunstan, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.36 / 2.71
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	89.610, 73.610, 130.280, 90.00, 100.96, 90.00
R / Rfree (%)	20.4 / 26

The structure of 58NT Rna L11-Binding Domain From E. Coli 23S Rrna also contains other interesting chemical elements:

Magnesium

(Mg)

22 atoms

The binding sites of Potassium atom in the 58NT Rna L11-Binding Domain From E. Coli 23S Rrna (pdb code 6prv). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the 58NT Rna L11-Binding Domain From E. Coli 23S Rrna, PDB code: 6prv:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in the 58NT Rna L11-Binding Domain From E. Coli 23S Rrna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of 58NT Rna L11-Binding Domain From E. Coli 23S Rrna within 5.0Å range: probe atom residue distance (Å) B Occ A:K1210 b:84.7 occ:1.00 OP1 A:A1073 2.6 65.4 1.0 OP2 A:A1070 2.8 82.2 1.0 O3' A:A1069 3.0 0.0 1.0 OP1 A:C1072 3.1 70.2 1.0 OP2 A:C1072 3.4 84.8 1.0 P A:C1072 3.5 73.8 1.0 P A:A1070 3.5 54.3 1.0 O5' A:C1072 3.7 68.3 1.0 OP1 A:U1097 4.0 66.1 1.0 P A:A1073 4.0 63.6 1.0 C5' A:A1070 4.0 53.9 1.0 C1' A:A1069 4.2 79.8 1.0 C3' A:A1069 4.2 60.8 1.0 O5' A:A1070 4.3 54.1 1.0 O2' A:A1069 4.4 82.5 1.0 MG A:MG1202 4.4 63.5 1.0 C5' A:C1072 4.5 54.7 1.0 N7 A:A1073 4.5 72.0 1.0 N3 A:A1069 4.5 53.7 1.0 OP2 A:A1073 4.6 73.8 1.0 C2' A:A1069 4.6 69.5 1.0 C4' A:A1069 4.6 78.3 1.0 O6 A:G1074 4.7 86.2 1.0 O4' A:A1069 4.7 69.3 1.0 OP1 A:A1070 4.8 54.5 1.0 O3' A:C1072 4.9 67.8 1.0 O5' A:A1073 4.9 54.1 1.0 C8 A:A1073 5.0 54.2 1.0

Potassium binding site 2 out of 3 in the 58NT Rna L11-Binding Domain From E. Coli 23S Rrna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of 58NT Rna L11-Binding Domain From E. Coli 23S Rrna within 5.0Å range: probe atom residue distance (Å) B Occ B:K1206 b:0.0 occ:1.00 OP1 B:A1073 2.6 75.7 1.0 OP2 B:A1070 3.1 78.3 1.0 O3' B:A1069 3.2 83.2 1.0 OP1 B:C1072 3.4 85.9 1.0 O5' B:C1072 3.5 68.7 1.0 P B:C1072 3.6 85.9 1.0 P B:A1070 3.7 75.9 1.0 OP2 B:C1072 3.7 90.9 1.0 MG B:MG1202 3.8 65.4 1.0 O2' B:A1069 3.8 67.2 1.0 N7 B:A1073 3.9 68.5 1.0 P B:A1073 4.0 81.6 1.0 C1' B:A1069 4.1 85.6 1.0 C5' B:C1072 4.1 69.5 1.0 C5' B:A1070 4.3 66.2 1.0 C3' B:A1069 4.3 69.1 1.0 C2' B:A1069 4.3 85.5 1.0 N3 B:A1069 4.4 87.8 1.0 O6 B:G1074 4.5 83.3 1.0 C8 B:A1073 4.5 83.3 1.0 O5' B:A1070 4.5 72.5 1.0 OP1 B:U1097 4.6 81.2 1.0 OP2 B:A1073 4.6 90.1 1.0 O B:HOH1302 4.7 70.0 1.0 O4' B:A1069 4.8 71.1 1.0 N9 B:A1069 4.9 86.8 1.0 C4' B:A1069 4.9 81.5 1.0 O5' B:A1073 4.9 84.0 1.0 C4 B:A1069 4.9 90.6 1.0 OP1 B:A1070 5.0 72.6 1.0 O3' B:C1072 5.0 73.2 1.0

Potassium binding site 3 out of 3 in the 58NT Rna L11-Binding Domain From E. Coli 23S Rrna


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of 58NT Rna L11-Binding Domain From E. Coli 23S Rrna within 5.0Å range: probe atom residue distance (Å) B Occ C:K1207 b:0.5 occ:1.00 OP1 C:A1073 2.5 84.0 1.0 OP2 C:A1070 2.5 86.5 1.0 OP1 C:C1072 3.2 96.4 1.0 O5' C:C1072 3.2 90.5 1.0 P C:C1072 3.4 90.5 1.0 OP2 C:C1072 3.4 93.4 1.0 MG C:MG1202 3.8 69.6 1.0 N3 C:A1069 3.8 0.8 1.0 P C:A1073 4.0 85.7 1.0 P C:A1070 4.0 84.2 1.0 C1' C:A1069 4.1 0.5 1.0 O4' C:A1069 4.2 0.1 1.0 C5' C:A1070 4.2 78.2 1.0 C5' C:C1072 4.2 76.3 1.0 OP1 C:U1097 4.3 0.2 1.0 O3' C:C1072 4.4 0.9 1.0 C3' C:C1072 4.5 76.6 1.0 O5' C:A1070 4.6 79.2 1.0 C4 C:A1069 4.6 0.5 1.0 C2 C:A1069 4.6 0.1 1.0 N7 C:A1073 4.7 0.9 1.0 N9 C:A1069 4.8 0.4 1.0 O6 C:G1074 4.8 0.8 1.0 O5' C:A1073 4.8 90.1 1.0 OP1 C:A1070 4.8 0.7 1.0 C4' C:A1069 4.9 0.7 1.0 O3' C:G1071 4.9 0.3 1.0 O3' C:A1069 5.0 0.6 1.0 C4' C:C1072 5.0 75.5 1.0 C8 C:A1073 5.0 0.2 1.0 OP2 C:A1073 5.0 97.4 1.0

R.Welty, M.Rau, S.Pabit, M.S.Dunstan, G.L.Conn, L.Pollack, K.B.Hall. Ribosomal Protein L11 Selectively Stabilizes A Tertiary Structure of the Gtpase Center Rrna Domain. J.Mol.Biol. 2019.
ISSN: ESSN 1089-8638
PubMed: 31874150
DOI: 10.1016/J.JMB.2019.12.010