Potassium in PDB 1y39: Co-Evolution of Protein and Rna Structures Within A Highly Conserved Ribosomal Domain

The structure of Co-Evolution of Protein and Rna Structures Within A Highly Conserved Ribosomal Domain, PDB code: 1y39 was solved by M.S.Dunstan, D.Guhathakurta, D.E.Draper, G.L.Conn, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	18.00 / 2.80
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	150.240, 150.240, 62.984, 90.00, 90.00, 90.00
R / Rfree (%)	22 / 25.3

The structure of Co-Evolution of Protein and Rna Structures Within A Highly Conserved Ribosomal Domain also contains other interesting chemical elements:

Cobalt	(Co)	2 atoms
Magnesium	(Mg)	18 atoms

The binding sites of Potassium atom in the Co-Evolution of Protein and Rna Structures Within A Highly Conserved Ribosomal Domain (pdb code 1y39). 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-Evolution of Protein and Rna Structures Within A Highly Conserved Ribosomal Domain, PDB code: 1y39:
Jump to Potassium binding site number: 1; 2;

Potassium binding site 1 out of 2 in the Co-Evolution of Protein and Rna Structures Within A Highly Conserved Ribosomal Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Co-Evolution of Protein and Rna Structures Within A Highly Conserved Ribosomal Domain within 5.0Å range: probe atom residue distance (Å) B Occ C:K404 b:71.3 occ:1.00 OP1 C:A123 2.8 68.3 1.0 OP2 C:A120 2.8 66.2 1.0 OP1 C:C122 2.9 61.6 1.0 O3' C:A119 3.0 64.8 1.0 OP2 C:C122 3.1 64.8 1.0 P C:C122 3.3 63.3 1.0 P C:A120 3.5 64.5 1.0 O5' C:C122 3.6 61.6 1.0 MG C:MG415 3.6 63.5 1.0 C5' C:A120 3.8 66.6 1.0 O5' C:A120 4.1 64.9 1.0 O6 C:G124 4.2 57.5 1.0 C1' C:A119 4.2 64.3 1.0 P C:A123 4.2 69.3 1.0 C3' C:A119 4.3 64.1 1.0 C5' C:C122 4.3 62.3 1.0 O2' C:A119 4.6 63.9 1.0 N7 C:A123 4.7 64.8 1.0 C4' C:A119 4.7 63.5 1.0 O4' C:A119 4.7 64.5 1.0 C2' C:A119 4.7 64.0 1.0 N3 C:A119 4.8 63.2 1.0 OP1 C:A120 4.8 65.1 1.0 O3' C:G121 4.9 62.8 1.0 OP2 C:A123 4.9 69.0 1.0

Potassium binding site 2 out of 2 in the Co-Evolution of Protein and Rna Structures Within A Highly Conserved Ribosomal Domain


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Co-Evolution of Protein and Rna Structures Within A Highly Conserved Ribosomal Domain within 5.0Å range: probe atom residue distance (Å) B Occ D:K403 b:55.7 occ:1.00 OP1 D:A323 2.8 56.9 1.0 OP2 D:A320 2.8 50.9 1.0 OP1 D:C322 3.1 54.3 1.0 O1 D:GOL704 3.2 68.7 1.0 O3' D:A319 3.2 52.8 1.0 O5' D:C322 3.3 53.4 1.0 P D:C322 3.4 53.5 1.0 OP2 D:C322 3.5 55.2 1.0 P D:A320 3.6 51.5 1.0 C5' D:A320 3.9 49.0 1.0 C1 D:GOL704 4.1 67.1 1.0 MG D:MG406 4.2 50.3 1.0 P D:A323 4.2 58.4 1.0 O5' D:A320 4.2 50.6 1.0 C1' D:A319 4.3 56.2 1.0 C5' D:C322 4.4 53.5 1.0 C3' D:A319 4.5 52.9 1.0 OP1 D:U347 4.5 52.5 1.0 O6 D:G324 4.6 69.5 1.0 O2 D:GOL704 4.6 66.3 1.0 N3 D:A319 4.6 59.1 1.0 O2' D:A319 4.6 52.9 1.0 C2 D:GOL704 4.7 65.9 1.0 N7 D:A323 4.7 71.4 1.0 O4' D:A319 4.8 55.9 1.0 C2' D:A319 4.8 53.7 1.0 C4' D:A319 4.8 53.9 1.0 OP2 D:A323 4.9 59.2 1.0 OP1 D:A320 4.9 52.0 1.0 C3' D:C322 4.9 54.4 1.0 O3' D:C322 4.9 55.5 1.0 O3' D:G321 5.0 52.3 1.0

M.S.Dunstan, D.Guhathakurta, D.E.Draper, G.L.Conn. Coevolution of Protein and Rna Structures Within A Highly Conserved Ribosomal Domain Chem.Biol. V. 12 201 2005.
ISSN: ISSN 1074-5521
PubMed: 15734647
DOI: 10.1016/J.CHEMBIOL.2004.11.019