Potassium in PDB 1nji: Structure of Chloramphenicol Bound to the 50S Ribosomal Subunit

The structure of Structure of Chloramphenicol Bound to the 50S Ribosomal Subunit, PDB code: 1nji was solved by J.L.Hansen, P.B.Moore, T.A.Steitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 3.00
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	211.720, 299.750, 573.430, 90.00, 90.00, 90.00
R / Rfree (%)	17.6 / 20.9

The structure of Structure of Chloramphenicol Bound to the 50S Ribosomal Subunit also contains other interesting chemical elements:

Magnesium	(Mg)	117 atoms
Cadmium	(Cd)	5 atoms
Chlorine	(Cl)	24 atoms
Sodium	(Na)	85 atoms

The binding sites of Potassium atom in the Structure of Chloramphenicol Bound to the 50S Ribosomal Subunit (pdb code 1nji). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Structure of Chloramphenicol Bound to the 50S Ribosomal Subunit, PDB code: 1nji:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Structure of Chloramphenicol Bound to the 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Structure of Chloramphenicol Bound to the 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:K8201 b:55.5 occ:1.00 O6 A:G2482 2.6 28.3 1.0 O6 A:G2102 2.7 38.0 1.0 N7 A:G2482 2.8 28.6 1.0 O2 A:C2536 3.1 21.8 1.0 O4' A:C2536 3.1 27.2 1.0 C6 A:G2482 3.2 26.7 1.0 C5 A:G2482 3.3 27.5 1.0 N7 A:G2102 3.5 38.6 1.0 C6 A:G2102 3.5 37.6 1.0 C2 A:C2536 3.6 22.2 1.0 C1' A:C2536 3.6 25.5 1.0 N1 A:C2536 3.8 24.4 1.0 C5 A:G2102 3.9 37.4 1.0 N6 A:A2486 4.0 36.0 1.0 C8 A:G2482 4.0 27.2 1.0 C4' A:C2536 4.0 27.5 1.0 O2 A:U2535 4.1 33.7 1.0 C2 A:U2535 4.4 30.9 1.0 N3 A:C2536 4.4 22.9 1.0 C5' A:C2536 4.6 26.6 1.0 N3 A:U2535 4.6 29.2 1.0 N1 A:G2482 4.6 25.9 1.0 C2' A:U2535 4.6 31.2 1.0 C4 A:G2482 4.6 27.5 1.0 C8 A:G2102 4.7 38.0 1.0 N1 A:G2102 4.8 37.6 1.0 OP1 A:U2539 4.8 26.6 1.0 C6 A:C2536 4.9 23.5 1.0 N1 A:U2535 5.0 31.0 1.0 N9 A:G2482 5.0 26.8 1.0

Potassium binding site 2 out of 2 in the Structure of Chloramphenicol Bound to the 50S Ribosomal Subunit


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Structure of Chloramphenicol Bound to the 50S Ribosomal Subunit within 5.0Å range: probe atom residue distance (Å) B Occ A:K8202 b:56.7 occ:1.00 O A:HOH9145 2.8 17.7 1.0 O A:HOH9015 2.8 26.6 1.0 O A:HOH9111 2.9 20.4 1.0 O A:HOH4918 3.0 47.5 1.0 O4 A:U163 3.0 23.1 1.0 OP2 A:C162 3.1 16.4 1.0 O4 A:U172 3.1 27.9 1.0 O A:HOH7815 3.2 29.3 1.0 CD N:ARG82 3.6 30.2 1.0 O A:HOH9317 3.9 32.4 1.0 C4 A:U163 4.0 22.1 1.0 C4 A:U172 4.0 27.4 1.0 N3 A:U172 4.2 27.2 1.0 P A:C162 4.3 18.8 1.0 NE N:ARG82 4.4 29.4 1.0 O A:HOH7814 4.4 48.0 1.0 C5 A:U163 4.5 22.2 1.0 N4 A:C171 4.6 24.4 1.0 CB N:ARG82 4.6 26.4 1.0 CG N:ARG82 4.7 28.3 1.0 O6 A:G164 4.7 25.2 1.0 OP1 A:C162 4.7 18.1 1.0 OP2 A:A169 4.8 23.1 1.0 OP1 A:A169 4.8 21.6 1.0 N3 A:C173 4.9 22.9 1.0 N4 A:C173 4.9 22.2 1.0 MG A:MG8054 4.9 38.3 1.0

J.Hansen, P.B.Moore, T.A.Steitz. Structures of Five Antibiotics Bound at the Peptidyl Transferase Center of the Large Ribosomal Subunit J.Mol.Biol. V. 330 1061 2003.
ISSN: ISSN 0022-2836
PubMed: 12860128
DOI: 10.1016/S0022-2836(03)00668-5