Potassium in PDB 3cpw: The Structure of the Antibiotic Linezolid Bound to the Large Ribosomal Subunit of Haloarcula Marismortui

The structure of The Structure of the Antibiotic Linezolid Bound to the Large Ribosomal Subunit of Haloarcula Marismortui, PDB code: 3cpw was solved by J.A.Ippolito, Z.K.Kanyo, D.Wang, F.J.Franceschi, P.B.Moore, T.A.Steitz, E.M.Duffy, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 2.70
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	211.730, 298.580, 575.290, 90.00, 90.00, 90.00
R / Rfree (%)	n/a / n/a

The structure of The Structure of the Antibiotic Linezolid Bound to the Large Ribosomal Subunit of Haloarcula Marismortui also contains other interesting chemical elements:

Fluorine	(F)	1 atom
Strontium	(Sr)	108 atoms
Magnesium	(Mg)	92 atoms
Cadmium	(Cd)	5 atoms
Chlorine	(Cl)	22 atoms
Sodium	(Na)	75 atoms

The binding sites of Potassium atom in the The Structure of the Antibiotic Linezolid Bound to the Large Ribosomal Subunit of Haloarcula Marismortui (pdb code 3cpw). 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 Antibiotic Linezolid Bound to the Large Ribosomal Subunit of Haloarcula Marismortui, PDB code: 3cpw:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the The Structure of the Antibiotic Linezolid Bound to the Large Ribosomal Subunit of Haloarcula Marismortui


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 Antibiotic Linezolid Bound to the Large Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range: probe atom residue distance (Å) B Occ 0:K8401 b:0.0 occ:1.00 O6 0:G2102 3.1 62.0 1.0 O4' 0:C2536 3.4 49.9 1.0 C5 0:U2539 3.5 80.2 1.0 N7 0:G2482 3.5 52.5 1.0 O6 0:G2482 3.6 56.4 1.0 N7 0:G2102 3.6 61.6 1.0 O4 0:U2539 3.6 79.4 1.0 C4' 0:C2536 3.8 50.1 1.0 C6 0:G2102 3.9 60.1 1.0 C4 0:U2539 3.9 80.9 1.0 C8 0:ZLD9500 4.0 75.6 1.0 C2' 0:U2535 4.0 60.1 1.0 O2' 0:U2535 4.0 60.9 1.0 OP1 0:U2539 4.0 73.5 1.0 C5' 0:C2536 4.1 50.3 1.0 C5 0:G2102 4.1 61.0 1.0 C1' 0:C2536 4.2 48.7 1.0 C9 0:ZLD9500 4.2 73.2 1.0 C5 0:G2482 4.3 53.5 1.0 C6 0:G2482 4.3 53.6 1.0 O2 0:C2536 4.3 45.7 1.0 C6 0:ZLD9500 4.4 77.2 1.0 C6 0:U2539 4.6 80.7 1.0 C8 0:G2482 4.6 51.8 1.0 N6 0:A2486 4.7 56.9 1.0 N1 0:C2536 4.7 47.1 1.0 O5' 0:C2536 4.7 53.1 1.0 C2 0:C2536 4.8 45.0 1.0 C8 0:G2102 4.8 61.1 1.0 O2 0:U2535 4.9 62.8 1.0 C1' 0:U2535 4.9 59.4 1.0 C2 0:U2535 4.9 59.5 1.0

Potassium binding site 2 out of 2 in the The Structure of the Antibiotic Linezolid Bound to the Large Ribosomal Subunit of Haloarcula Marismortui


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 Antibiotic Linezolid Bound to the Large Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range: probe atom residue distance (Å) B Occ 0:K8402 b:70.3 occ:1.00 O 0:HOH9511 2.9 22.6 1.0 O 0:HOH9606 2.9 49.2 1.0 O4 0:U163 2.9 38.3 1.0 O4 0:U172 2.9 46.5 1.0 O 0:HOH9638 3.0 30.4 1.0 O 0:HOH8247 3.2 70.4 1.0 OP2 0:C162 3.3 35.7 1.0 CD L:ARG82 3.4 58.4 1.0 O 0:HOH5332 3.6 64.2 1.0 O 0:HOH9799 3.7 60.7 1.0 C4 0:U172 3.7 45.1 1.0 N3 0:U172 3.8 43.2 1.0 NE L:ARG82 4.0 58.2 1.0 C4 0:U163 4.0 37.0 1.0 O 0:HOH8246 4.2 37.8 1.0 N4 0:C171 4.2 44.8 1.0 O6 0:G164 4.5 37.6 1.0 C5 0:U163 4.6 37.2 1.0 OP2 0:A169 4.6 34.6 1.0 P 0:C162 4.7 36.1 1.0 CG L:ARG82 4.7 60.6 1.0 CZ L:ARG82 4.9 60.5 1.0 N3 0:C173 4.9 34.4 1.0 OP1 0:A169 4.9 39.9 1.0 CB L:ARG82 4.9 61.5 1.0 MG 0:MG8041 5.0 44.1 1.0

J.A.Ippolito, Z.K.Kanyo, D.Wang, F.J.Franceschi, P.B.Moore, T.A.Steitz, E.M.Duffy. Crystal Structure of the Oxazolidinone Antibiotic Linezolid Bound to the 50S Ribosomal Subunit J.Med.Chem. V. 51 3353 2008.
ISSN: ISSN 0022-2623
PubMed: 18494460
DOI: 10.1021/JM800379D