Potassium in PDB 1w2b: Trigger Factor Ribosome Binding Domain in Complex with 50S

The structure of Trigger Factor Ribosome Binding Domain in Complex with 50S, PDB code: 1w2b was solved by L.Ferbitz, T.Maier, H.Patzelt, B.Bukau, E.Deuerling, N.Ban, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	30.00 / 3.50
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	210.746, 298.871, 574.173, 90.00, 90.00, 90.00
R / Rfree (%)	19.2 / 26.8

The structure of Trigger Factor Ribosome Binding Domain in Complex with 50S also contains other interesting chemical elements:

Magnesium	(Mg)	117 atoms
Cadmium	(Cd)	5 atoms
Chlorine	(Cl)	22 atoms
Sodium	(Na)	86 atoms

The binding sites of Potassium atom in the Trigger Factor Ribosome Binding Domain in Complex with 50S (pdb code 1w2b). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Trigger Factor Ribosome Binding Domain in Complex with 50S, PDB code: 1w2b:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Trigger Factor Ribosome Binding Domain in Complex with 50S


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Trigger Factor Ribosome Binding Domain in Complex with 50S within 5.0Å range: probe atom residue distance (Å) B Occ 0:K3062 b:57.2 occ:1.00 OP1 0:U2539 3.2 15.0 1.0 O6 0:G2102 3.3 41.2 1.0 O2 0:U2535 3.3 18.2 1.0 O6 0:G2482 3.4 15.8 1.0 N7 0:G2482 3.6 15.0 1.0 N7 0:G2102 3.8 41.0 1.0 O2' 0:U2535 3.9 25.0 1.0 C2 0:U2535 3.9 15.2 1.0 C2' 0:U2535 3.9 23.9 1.0 O4' 0:C2536 4.1 15.0 1.0 C6 0:G2102 4.1 42.3 1.0 C6 0:G2482 4.1 15.0 1.0 C5 0:G2482 4.2 15.0 1.0 C5 0:G2102 4.3 42.3 1.0 O 0:HOH5447 4.4 40.8 1.0 P 0:U2539 4.5 15.8 1.0 N1 0:U2535 4.5 15.2 1.0 C1' 0:U2535 4.5 22.1 1.0 N3 0:U2535 4.6 15.2 1.0 O2 0:C2536 4.6 15.0 1.0 C4' 0:C2536 4.6 15.0 1.0 O 0:HOH5865 4.7 22.7 1.0 C8 0:G2482 4.7 15.0 1.0 N6 0:A2486 4.8 31.8 1.0 C1' 0:C2536 4.8 15.0 1.0 C5' 0:C2536 4.9 15.0 1.0 O2' 0:A2538 4.9 19.7 1.0 OP2 0:U2539 5.0 16.0 1.0 C8 0:G2102 5.0 43.7 1.0

Potassium binding site 2 out of 2 in the Trigger Factor Ribosome Binding Domain in Complex with 50S


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Trigger Factor Ribosome Binding Domain in Complex with 50S within 5.0Å range: probe atom residue distance (Å) B Occ 0:K3063 b:32.1 occ:1.00 OP2 0:C162 3.1 15.0 1.0 O 0:HOH3289 3.3 14.6 1.0 O4 0:U172 3.4 15.0 1.0 O4 0:U163 3.4 16.1 1.0 O 0:HOH4076 3.4 6.2 1.0 O 0:HOH4265 3.5 9.7 1.0 CD L:ARG82 3.6 82.5 1.0 O 0:HOH3908 3.7 22.8 1.0 O 0:HOH7260 3.9 19.7 1.0 NE L:ARG82 4.0 84.3 1.0 C4 0:U172 4.2 15.0 1.0 N3 0:U172 4.2 15.0 1.0 OP1 0:A169 4.4 15.0 1.0 C4 0:U163 4.4 16.4 1.0 P 0:C162 4.5 15.1 1.0 MG 0:MG3051 4.5 12.8 1.0 O L:HOH366 4.5 31.8 1.0 N4 0:C171 4.6 20.2 1.0 OP2 0:A169 4.7 15.0 1.0 O6 0:G164 4.8 15.0 1.0 CZ L:ARG82 4.9 85.5 1.0 C5 0:U163 4.9 17.4 1.0 CG L:ARG82 5.0 82.5 1.0 O 0:HOH4175 5.0 13.9 1.0 P 0:A169 5.0 15.0 1.0

L.Ferbitz, T.Maier, H.Patzelt, B.Bukau, E.Deuerling, N.Ban. Trigger Factor in Complex with the Ribosome Forms A Molecular Cradle For Nascent Proteins Nature V. 431 590 2004.
ISSN: ISSN 0028-0836
PubMed: 15334087
DOI: 10.1038/NATURE02899