Cobalt in PDB 2fqn: Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site

The structure of Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site, PDB code: 2fqn was solved by J.Kondo, A.Urzhumtsev, E.Westhof, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	10.00 / 2.30
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	46.050, 47.390, 56.760, 90.00, 90.00, 90.00
R / Rfree (%)	24.7 / 28.2

The structure of Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Cobalt atom in the Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site (pdb code 2fqn). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 3 binding sites of Cobalt where determined in the Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site, PDB code: 2fqn:
Jump to Cobalt binding site number: 1; 2; 3;

Cobalt binding site 1 out of 3 in the Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site within 5.0Å range: probe atom residue distance (Å) B Occ A:Co101 b:52.7 occ:1.00 CO A:NCO101 0.0 52.7 1.0 N2 A:NCO101 1.9 50.2 1.0 N5 A:NCO101 2.0 50.6 1.0 N4 A:NCO101 2.0 51.3 1.0 N6 A:NCO101 2.0 50.9 1.0 N3 A:NCO101 2.0 51.1 1.0 N1 A:NCO101 2.0 51.2 1.0 O A:HOH332 4.0 21.8 1.0 O A:HOH323 4.0 28.7 1.0 O6 A:G13 4.3 20.9 1.0 N7 A:G13 4.3 22.0 1.0 O B:HOH329 4.4 22.4 1.0 O6 A:G14 4.5 15.4 1.0 O A:HOH343 4.6 24.1 1.0 N7 A:G14 4.9 18.1 1.0

Cobalt binding site 2 out of 3 in the Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site within 5.0Å range: probe atom residue distance (Å) B Occ A:Co103 b:64.7 occ:0.69 CO A:NCO103 0.0 64.7 0.7 N2 A:NCO103 1.9 63.7 0.7 N5 A:NCO103 2.0 63.4 0.7 N4 A:NCO103 2.0 63.3 0.7 N6 A:NCO103 2.0 63.2 0.7 N3 A:NCO103 2.0 63.1 0.7 N1 A:NCO103 2.0 63.7 0.7 O A:HOH335 3.8 34.3 1.0 O6 A:G19 4.4 35.5 1.0 O4 B:U29 4.5 70.4 1.0 OP1 A:A18 4.7 27.6 1.0 O A:HOH327 4.9 34.9 1.0

Cobalt binding site 3 out of 3 in the Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site within 5.0Å range: probe atom residue distance (Å) B Occ B:Co102 b:40.0 occ:1.00 CO B:NCO102 0.0 40.0 1.0 N2 B:NCO102 1.9 34.1 1.0 N5 B:NCO102 2.0 32.6 1.0 N6 B:NCO102 2.0 35.2 1.0 N1 B:NCO102 2.0 33.0 1.0 N4 B:NCO102 2.0 35.4 1.0 N3 B:NCO102 2.0 35.1 1.0 O B:HOH341 3.8 17.1 1.0 O6 B:G37 4.2 21.6 1.0 N7 B:G36 4.2 18.4 1.0 O6 B:G36 4.3 14.6 1.0 O B:HOH325 4.5 46.0 1.0 O A:HOH310 4.6 11.1 1.0 N7 B:G37 4.8 22.3 1.0 C5 B:G36 4.9 19.6 1.0 C6 B:G36 5.0 18.1 1.0 N4 B:C35 5.0 18.1 1.0

J.Kondo, A.Urzhumtsev, E.Westhof. Two Conformational States in the Crystal Structure of the Homo Sapiens Cytoplasmic Ribosomal Decoding A Site. Nucleic Acids Res. V. 34 676 2006.
ISSN: ISSN 0305-1048
PubMed: 16452297
DOI: 10.1093/NAR/GKJ467