Potassium in PDB 3cd6: Co-Cystal of Large Ribosomal Subunit Mutant G2616A with Cc-Puromycin

The structure of Co-Cystal of Large Ribosomal Subunit Mutant G2616A with Cc-Puromycin, PDB code: 3cd6 was solved by G.Blaha, G.Gurel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.95 / 2.75
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	212.805, 299.997, 576.002, 90.00, 90.00, 90.00
R / Rfree (%)	19.3 / 24.1

The structure of Co-Cystal of Large Ribosomal Subunit Mutant G2616A with Cc-Puromycin 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 Co-Cystal of Large Ribosomal Subunit Mutant G2616A with Cc-Puromycin (pdb code 3cd6). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 2 binding sites of Potassium where determined in the Co-Cystal of Large Ribosomal Subunit Mutant G2616A with Cc-Puromycin, PDB code: 3cd6:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Co-Cystal of Large Ribosomal Subunit Mutant G2616A with Cc-Puromycin


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Co-Cystal of Large Ribosomal Subunit Mutant G2616A with Cc-Puromycin within 5.0Å range: probe atom residue distance (Å) B Occ 0:K8401 b:0.8 occ:1.00 O6 0:G2102 3.2 55.5 1.0 OP1 0:U2539 3.3 65.7 1.0 O6 0:G2482 3.4 51.7 1.0 N7 0:G2482 3.5 51.5 1.0 O2 0:U2535 3.8 51.7 1.0 O4' 0:C2536 3.8 43.8 1.0 N7 0:G2102 3.9 55.6 1.0 C2' 0:U2535 3.9 49.8 1.0 O2' 0:U2535 4.0 51.5 1.0 C6 0:G2102 4.1 55.9 1.0 C6 0:G2482 4.2 50.4 1.0 C4' 0:C2536 4.2 44.1 1.0 C5 0:G2482 4.2 50.7 1.0 O 0:HOH4816 4.2 95.5 1.0 C2 0:U2535 4.4 50.0 1.0 C5' 0:C2536 4.4 45.8 1.0 C5 0:G2102 4.4 56.0 1.0 O3' 0:A2538 4.5 69.9 1.0 P 0:U2539 4.5 66.8 1.0 O2 0:C2536 4.6 38.7 1.0 C1' 0:C2536 4.6 42.6 1.0 C8 0:G2482 4.7 49.3 1.0 C1' 0:U2535 4.8 49.5 1.0 N1 0:U2535 4.8 49.8 1.0 N6 0:A2486 4.9 47.8 1.0

Potassium binding site 2 out of 2 in the Co-Cystal of Large Ribosomal Subunit Mutant G2616A with Cc-Puromycin


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Co-Cystal of Large Ribosomal Subunit Mutant G2616A with Cc-Puromycin within 5.0Å range: probe atom residue distance (Å) B Occ 0:K8402 b:87.0 occ:1.00 OP2 0:C162 3.0 24.6 1.0 O 0:HOH9021 3.2 26.7 1.0 O4 0:U163 3.3 28.2 1.0 O4 0:U172 3.3 36.6 1.0 O 0:HOH9157 3.3 27.7 1.0 O 0:HOH9122 3.5 62.8 1.0 O 0:HOH7867 3.5 46.0 1.0 O 0:HOH9338 3.7 38.9 1.0 CD M:ARG82 3.7 0.3 1.0 O 0:HOH7866 3.8 78.0 1.0 NE M:ARG82 3.9 0.5 1.0 CG M:ARG82 4.1 0.1 1.0 O 0:HOH4977 4.1 75.7 1.0 C4 0:U163 4.1 27.4 1.0 P 0:C162 4.2 27.2 1.0 C4 0:U172 4.2 34.6 1.0 N3 0:U172 4.3 34.2 1.0 OP1 0:C162 4.4 24.5 1.0 C5 0:U163 4.5 27.8 1.0 N4 0:C171 4.7 38.1 1.0 OP1 0:A169 4.7 35.1 1.0 OP2 0:A169 4.8 32.7 1.0

G.Blaha, G.Gurel, S.J.Schroeder, P.B.Moore, T.A.Steitz. Mutations Outside the Anisomycin-Binding Site Can Make Ribosomes Drug-Resistant. J.Mol.Biol. V. 379 505 2008.
ISSN: ISSN 0022-2836
PubMed: 18455733
DOI: 10.1016/J.JMB.2008.03.075