Potassium in PDB 4tmz: Translation Initiation Factor EIF5B (517-858) From C. Thermophilum, Bound to Gtpgammas and Potassium

The structure of Translation Initiation Factor EIF5B (517-858) From C. Thermophilum, Bound to Gtpgammas and Potassium, PDB code: 4tmz was solved by B.Kuhle, F.Ficner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	47.68 / 2.28
Space group	P 41 21 2
Cell size a, b, c (Å), α, β, γ (°)	116.130, 116.130, 120.270, 90.00, 90.00, 90.00
R / Rfree (%)	20 / 23.9

The structure of Translation Initiation Factor EIF5B (517-858) From C. Thermophilum, Bound to Gtpgammas and Potassium also contains other interesting chemical elements:

Magnesium	(Mg)	2 atoms
Chlorine	(Cl)	2 atoms

The binding sites of Potassium atom in the Translation Initiation Factor EIF5B (517-858) From C. Thermophilum, Bound to Gtpgammas and Potassium (pdb code 4tmz). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Translation Initiation Factor EIF5B (517-858) From C. Thermophilum, Bound to Gtpgammas and Potassium, PDB code: 4tmz:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Translation Initiation Factor EIF5B (517-858) From C. Thermophilum, Bound to Gtpgammas and Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Translation Initiation Factor EIF5B (517-858) From C. Thermophilum, Bound to Gtpgammas and Potassium within 5.0Å range: probe atom residue distance (Å) B Occ B:K903 b:46.9 occ:1.00 O1A B:GSP901 2.6 32.5 1.0 O B:GLY555 2.7 44.1 1.0 OD2 B:ASP533 2.9 44.0 1.0 O B:HOH1104 3.0 49.8 1.0 O B:HOH1016 3.0 38.8 1.0 S1G B:GSP901 3.1 33.8 1.0 O3B B:GSP901 3.4 28.9 1.0 O B:HOH1013 3.4 35.1 1.0 C B:GLY555 3.8 42.6 1.0 PG B:GSP901 3.9 36.8 1.0 PA B:GSP901 3.9 38.0 1.0 CA B:ILE556 4.1 38.6 1.0 CG B:ASP533 4.1 43.8 1.0 NE2 B:GLN549 4.2 55.4 1.0 C5' B:GSP901 4.2 41.3 1.0 O3A B:GSP901 4.3 42.2 1.0 N B:ILE556 4.4 39.6 1.0 OE1 B:GLU552 4.4 38.8 1.0 PB B:GSP901 4.4 33.3 1.0 O5' B:GSP901 4.5 41.4 1.0 O B:HOH1043 4.6 42.1 1.0 O3G B:GSP901 4.7 33.8 1.0 CG2 B:ILE556 4.8 39.0 1.0 O1B B:GSP901 4.8 30.2 1.0 CA B:ASP533 4.8 39.2 1.0 CA B:GLY555 4.9 41.1 1.0 OD1 B:ASP533 4.9 47.2 1.0 N B:THR557 4.9 38.1 1.0 C B:ILE556 4.9 36.5 1.0

Potassium binding site 2 out of 2 in the Translation Initiation Factor EIF5B (517-858) From C. Thermophilum, Bound to Gtpgammas and Potassium


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Translation Initiation Factor EIF5B (517-858) From C. Thermophilum, Bound to Gtpgammas and Potassium within 5.0Å range: probe atom residue distance (Å) B Occ A:K903 b:50.9 occ:1.00 O2A A:GSP901 2.7 47.8 1.0 O A:HOH1010 2.7 46.7 1.0 O A:GLY555 2.8 50.4 1.0 O A:HOH1052 2.9 54.8 1.0 OD2 A:ASP533 3.1 55.1 1.0 S1G A:GSP901 3.3 44.4 1.0 O A:HOH1006 3.5 42.6 1.0 O3B A:GSP901 3.6 40.2 1.0 C A:GLY555 3.8 47.9 1.0 PA A:GSP901 4.0 47.3 1.0 O A:HOH1065 4.0 71.7 1.0 NE2 A:GLN549 4.1 55.5 1.0 CA A:ILE556 4.1 46.9 1.0 PG A:GSP901 4.1 46.1 1.0 O A:HOH1009 4.2 36.7 1.0 C5' A:GSP901 4.2 53.1 1.0 CG A:ASP533 4.3 56.3 1.0 O3A A:GSP901 4.4 51.6 1.0 N A:ILE556 4.4 46.9 1.0 OE1 A:GLU552 4.4 51.6 1.0 O5' A:GSP901 4.5 54.8 1.0 PB A:GSP901 4.6 41.9 1.0 CG2 A:ILE556 4.8 46.1 1.0 O2B A:GSP901 4.8 34.9 1.0 O3G A:GSP901 4.8 38.9 1.0 C A:ILE556 4.9 46.8 1.0 N A:THR557 4.9 45.7 1.0 CA A:GLY555 4.9 46.9 1.0

B.Kuhle, R.Ficner. A Monovalent Cation Acts As Structural and Catalytic Cofactor in Translational Gtpases. Embo J. 2014.
ISSN: ESSN 1460-2075
PubMed: 25225612
DOI: 10.15252/EMBJ.201488517