Potassium in PDB 3cma: The Structure of Cca and Cca-Phe-Cap-Bio Bound to the Large Ribosomal Subunit of Haloarcula Marismortui

The structure of The Structure of Cca and Cca-Phe-Cap-Bio Bound to the Large Ribosomal Subunit of Haloarcula Marismortui, PDB code: 3cma was solved by M.Simonovic, T.A.Steitz, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.79 / 2.80
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	211.316, 297.905, 573.138, 90.00, 90.00, 90.00
R / Rfree (%)	19.4 / 24.5

The structure of The Structure of Cca and Cca-Phe-Cap-Bio Bound to the Large Ribosomal Subunit of Haloarcula Marismortui also contains other interesting chemical elements:

Strontium	(Sr)	107 atoms
Magnesium	(Mg)	93 atoms
Cadmium	(Cd)	5 atoms
Chlorine	(Cl)	22 atoms
Sodium	(Na)	75 atoms

The binding sites of Potassium atom in the The Structure of Cca and Cca-Phe-Cap-Bio Bound to the Large Ribosomal Subunit of Haloarcula Marismortui (pdb code 3cma). 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 Cca and Cca-Phe-Cap-Bio Bound to the Large Ribosomal Subunit of Haloarcula Marismortui, PDB code: 3cma:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the The Structure of Cca and Cca-Phe-Cap-Bio 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 Cca and Cca-Phe-Cap-Bio Bound to the Large Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range: probe atom residue distance (Å) B Occ 0:K8401 b:66.1 occ:1.00 O6 0:G2102 3.2 41.5 1.0 O6 0:G2482 3.2 28.9 1.0 O4' 0:C2536 3.3 34.2 1.0 N7 0:G2102 3.4 42.5 1.0 N7 0:G2482 3.4 29.3 1.0 O2 0:C2536 3.5 30.4 1.0 O2 0:U2535 3.9 38.5 1.0 C6 0:G2102 3.9 42.4 1.0 C4' 0:C2536 3.9 34.3 1.0 C1' 0:C2536 3.9 33.3 1.0 C6 0:G2482 4.0 28.2 1.0 C5 0:G2102 4.0 42.6 1.0 C5 0:G2482 4.1 29.3 1.0 N6 0:A2486 4.1 36.9 1.0 C2 0:C2536 4.1 30.6 1.0 OP1 0:U2539 4.2 44.7 1.0 N1 0:C2536 4.4 31.8 1.0 C5' 0:C2536 4.4 35.2 1.0 C2 0:U2535 4.4 39.5 1.0 C8 0:G2102 4.6 41.4 1.0 C8 0:G2482 4.6 29.6 1.0 C2' 0:U2535 4.7 42.1 1.0 N3 0:U2535 4.8 39.5 1.0 O4' 0:A2538 5.0 47.1 1.0 O2' 0:U2535 5.0 41.1 1.0

Potassium binding site 2 out of 2 in the The Structure of Cca and Cca-Phe-Cap-Bio 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 Cca and Cca-Phe-Cap-Bio Bound to the Large Ribosomal Subunit of Haloarcula Marismortui within 5.0Å range: probe atom residue distance (Å) B Occ 0:K8402 b:81.4 occ:1.00 O4 0:U172 3.2 34.7 1.0 O4 0:U163 3.2 34.6 1.0 O 0:HOH2936 3.3 24.0 1.0 OP2 0:C162 3.3 23.9 1.0 O 0:HOH3065 3.3 27.5 1.0 CD M:ARG82 3.5 57.2 1.0 O M:HOH8898 3.5 53.6 1.0 O 0:HOH3031 3.5 48.0 1.0 O 0:HOH9613 3.8 61.1 1.0 O 0:HOH9612 3.9 35.4 1.0 NE M:ARG82 4.2 56.9 1.0 O 0:HOH3241 4.2 78.0 1.0 C4 0:U172 4.2 32.7 1.0 C4 0:U163 4.2 32.8 1.0 N3 0:U172 4.4 31.3 1.0 P 0:C162 4.5 20.6 1.0 OP1 0:A169 4.6 21.1 1.0 C5 0:U163 4.6 32.1 1.0 CG M:ARG82 4.7 58.9 1.0 N4 0:C171 4.7 30.4 1.0 OP2 0:A169 4.7 22.0 1.0 CB M:ARG82 4.8 59.9 1.0 OP1 0:C162 4.8 22.3 1.0 O6 0:G164 5.0 19.5 1.0

M.Simonovic, T.A.Steitz. Peptidyl-Cca Deacylation on the Ribosome Promoted By Induced Fit and the O3'-Hydroxyl Group of A76 of the Unacylated A-Site Trna. Rna V. 14 2372 2008.
ISSN: ISSN 1355-8382
PubMed: 18818369
DOI: 10.1261/RNA.1118908