Potassium in PDB 2vpl: The Structure of the Complex Between the First Domain of L1 Protein From Thermus Thermophilus and Mrna From Methanococcus Jannaschii

The structure of The Structure of the Complex Between the First Domain of L1 Protein From Thermus Thermophilus and Mrna From Methanococcus Jannaschii, PDB code: 2vpl was solved by V.Kljashtorny, S.Tishchenko, N.Nevskaya, S.Nikonov, M.Garber, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	15.00 / 2.30
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	76.100, 144.350, 56.160, 90.00, 90.00, 90.00
R / Rfree (%)	20.9 / 27.4

The binding sites of Potassium atom in the The Structure of the Complex Between the First Domain of L1 Protein From Thermus Thermophilus and Mrna From Methanococcus Jannaschii (pdb code 2vpl). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the The Structure of the Complex Between the First Domain of L1 Protein From Thermus Thermophilus and Mrna From Methanococcus Jannaschii, PDB code: 2vpl:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the The Structure of the Complex Between the First Domain of L1 Protein From Thermus Thermophilus and Mrna From Methanococcus Jannaschii


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of The Structure of the Complex Between the First Domain of L1 Protein From Thermus Thermophilus and Mrna From Methanococcus Jannaschii within 5.0Å range: probe atom residue distance (Å) B Occ A:K1229 b:33.9 occ:0.85 O2 B:U41 2.5 33.0 1.0 O A:THR216 2.8 41.2 1.0 OE1 A:GLU42 2.9 36.5 1.0 OE2 A:GLU42 3.0 59.7 1.0 O2' B:U41 3.0 29.8 1.0 O A:THR217 3.1 28.0 1.0 O4' B:U42 3.3 46.6 1.0 CD A:GLU42 3.3 42.7 1.0 C2' B:U41 3.5 40.8 1.0 C2 B:U41 3.6 46.2 1.0 C1' B:U41 3.8 36.9 1.0 C A:THR217 3.8 26.0 1.0 C A:THR216 3.9 34.6 1.0 C1' B:U42 3.9 31.4 1.0 CG2 A:THR215 4.0 35.3 1.0 CA A:THR217 4.0 23.3 1.0 OG1 A:THR215 4.1 31.6 1.0 N1 B:U41 4.2 25.4 1.0 C4' B:U42 4.4 17.4 1.0 N A:THR217 4.4 28.2 1.0 N1 B:U42 4.4 28.1 1.0 N3 B:G10 4.6 18.4 1.0 C6 B:U42 4.7 18.9 1.0 O A:GLY219 4.7 45.8 1.0 N3 B:U41 4.7 19.8 1.0 CB A:THR215 4.7 35.5 1.0 C2 B:A9 4.7 31.3 1.0 CG A:GLU42 4.8 31.8 1.0 C5' B:U42 4.8 17.9 1.0 N A:MET218 4.8 34.1 1.0 N2 B:G10 5.0 25.9 1.0

Potassium binding site 2 out of 2 in the The Structure of the Complex Between the First Domain of L1 Protein From Thermus Thermophilus and Mrna From Methanococcus Jannaschii


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of The Structure of the Complex Between the First Domain of L1 Protein From Thermus Thermophilus and Mrna From Methanococcus Jannaschii within 5.0Å range: probe atom residue distance (Å) B Occ C:K1229 b:42.4 occ:0.70 O C:THR216 2.8 29.0 1.0 O2 D:U41 2.8 32.7 1.0 OE2 C:GLU42 2.9 49.9 1.0 O2' D:U41 2.9 35.5 1.0 OE1 C:GLU42 3.2 38.8 1.0 O C:THR217 3.3 35.7 1.0 O4' D:U42 3.3 58.6 1.0 CD C:GLU42 3.3 41.2 1.0 C2' D:U41 3.6 29.4 1.0 C C:THR216 3.8 37.2 1.0 C C:THR217 3.8 34.6 1.0 OG1 C:THR215 3.9 47.1 1.0 C1' D:U42 3.9 33.8 1.0 CA C:THR217 3.9 29.2 1.0 C2 D:U41 3.9 36.0 1.0 C1' D:U41 3.9 27.6 1.0 CG2 C:THR215 4.0 43.1 1.0 N C:THR217 4.3 41.8 1.0 C4' D:U42 4.4 37.0 1.0 N1 D:U41 4.4 28.1 1.0 N1 D:U42 4.5 37.7 1.0 CB C:THR215 4.6 39.5 1.0 N3 D:G10 4.7 27.4 1.0 O C:GLY219 4.7 36.1 1.0 CG C:GLU42 4.8 28.8 1.0 N C:MET218 4.8 30.9 1.0 C6 D:U42 4.8 29.4 1.0 N C:THR216 4.9 24.4 1.0 C5' D:U42 4.9 34.7 1.0 C2 D:A9 5.0 37.2 1.0

S.Tishchenko, V.Kljashtorny, O.Kostareva, N.Nevskaya, A.Nikulin, P.Gulak, W.Piendl, M.Garber, S.Nikonov. Domain II of Thermus Thermophilus Ribosomal Protein L1 Hinders Recognition of Its Mrna. J. Mol. Biol. V. 383 301 2008.
ISSN: ESSN 1089-8638
PubMed: 18778715
DOI: 10.1016/J.JMB.2008.08.058