Cobalt in PDB 5c7u: 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine.

The structure of 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine., PDB code: 5c7u was solved by A.R.Hernandez, Y.Shao, S.Hoshika, Z.Yang, S.A.Shelke, J.Herrou, H.-J.Kim, M.-J.Kim, J.A.Piccirilli, S.A.Benner, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	45.55 / 3.05
Space group	P 65 2 2
Cell size a, b, c (Å), α, β, γ (°)	52.600, 52.600, 278.120, 90.00, 90.00, 120.00
R / Rfree (%)	20.1 / 24.1

The binding sites of Cobalt atom in the 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine. (pdb code 5c7u). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 7 binding sites of Cobalt where determined in the 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine., PDB code: 5c7u:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5; 6; 7;

Cobalt binding site 1 out of 7 in the 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine. within 5.0Å range: probe atom residue distance (Å) B Occ B:Co101 b:0.9 occ:1.00 CO B:NCO101 0.0 0.9 1.0 N5 B:NCO101 2.0 52.7 1.0 N6 B:NCO101 2.0 79.8 1.0 N3 B:NCO101 2.0 0.8 1.0 N1 B:NCO101 2.0 0.6 1.0 N2 B:NCO101 2.0 75.8 1.0 N4 B:NCO101 2.0 0.1 1.0 N7 B:G62 4.3 67.2 1.0 OP2 B:C61 4.4 54.8 1.0 O6 B:G62 4.7 91.6 1.0

Cobalt binding site 2 out of 7 in the 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine. within 5.0Å range: probe atom residue distance (Å) B Occ B:Co102 b:0.9 occ:1.00 CO B:NCO102 0.0 0.9 1.0 N1 B:NCO102 2.0 0.1 1.0 N4 B:NCO102 2.0 60.4 1.0 N6 B:NCO102 2.0 0.1 1.0 N3 B:NCO102 2.0 61.8 1.0 N5 B:NCO102 2.0 61.8 1.0 N2 B:NCO102 2.0 62.1 1.0 O6 B:G38 4.3 93.2 1.0 N7 B:G38 4.3 69.6 1.0 OP2 B:G37 4.7 1.0 1.0

Cobalt binding site 3 out of 7 in the 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine. within 5.0Å range: probe atom residue distance (Å) B Occ B:Co103 b:78.5 occ:1.00 CO B:NCO103 0.0 78.5 1.0 N4 B:NCO103 2.0 56.6 1.0 N1 B:NCO103 2.0 41.5 1.0 N6 B:NCO103 2.0 60.4 1.0 N3 B:NCO103 2.0 93.6 1.0 N2 B:NCO103 2.0 88.0 1.0 N5 B:NCO103 2.0 86.8 1.0 O4 B:U69 4.3 57.6 1.0 N7 B:G56 4.5 81.7 1.0 O6 B:G56 4.7 77.6 1.0 O6 B:G68 4.8 62.6 1.0 O6 B:G57 4.9 77.4 1.0

Cobalt binding site 4 out of 7 in the 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine. within 5.0Å range: probe atom residue distance (Å) B Occ B:Co104 b:0.7 occ:1.00 CO B:NCO104 0.0 0.7 1.0 N2 B:NCO104 2.0 0.9 1.0 N3 B:NCO104 2.0 88.9 1.0 N5 B:NCO104 2.0 97.2 1.0 N1 B:NCO104 2.0 0.8 1.0 N6 B:NCO104 2.0 83.5 1.0 N4 B:NCO104 2.0 0.1 1.0 O6 B:G46 4.4 72.3 1.0 O4 B:U47 4.4 0.5 1.0 OP2 B:U51 4.9 96.0 1.0 N7 B:G46 5.0 63.1 1.0

Cobalt binding site 5 out of 7 in the 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine. within 5.0Å range: probe atom residue distance (Å) B Occ B:Co105 b:83.5 occ:1.00 CO B:NCO105 0.0 83.5 1.0 N4 B:NCO105 2.0 57.4 1.0 N5 B:NCO105 2.0 54.9 1.0 N2 B:NCO105 2.0 0.4 1.0 N1 B:NCO105 2.0 0.9 1.0 N3 B:NCO105 2.0 67.2 1.0 N6 B:NCO105 2.0 45.4 1.0 O6 B:G32 3.8 83.8 1.0 OP2 B:A66 4.1 49.7 1.0 O6 B:G31 4.2 98.9 1.0 N7 B:G31 4.5 86.8 1.0 C6 B:G32 4.8 81.4 1.0

Cobalt binding site 6 out of 7 in the 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 6 of 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine. within 5.0Å range: probe atom residue distance (Å) B Occ B:Co106 b:0.5 occ:1.00 CO B:NCO106 0.0 0.5 1.0 N4 B:NCO106 2.0 66.6 1.0 N2 B:NCO106 2.0 81.4 1.0 N1 B:NCO106 2.0 78.9 1.0 N3 B:NCO106 2.0 59.8 1.0 N5 B:NCO106 2.0 0.5 1.0 N6 B:NCO106 2.0 61.2 1.0 OP2 B:C71 4.0 83.7 1.0 OP1 B:A24 4.1 75.0 1.0

Cobalt binding site 7 out of 7 in the 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine.


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 7 of 5'-Monophosphate Wt Guanine Riboswitch Bound to Hypoxanthine. within 5.0Å range: probe atom residue distance (Å) B Occ B:Co107 b:0.4 occ:1.00 CO B:NCO107 0.0 0.4 1.0 N3 B:NCO107 2.0 0.6 1.0 N2 B:NCO107 2.0 0.3 1.0 N1 B:NCO107 2.0 94.0 1.0 N5 B:NCO107 2.0 0.9 1.0 N6 B:NCO107 2.0 80.1 1.0 N4 B:NCO107 2.0 74.9 1.0 OP1 B:G68 4.4 62.1 1.0 OP1 B:U67 4.6 72.6 1.0 OP1 B:G27 4.8 0.6 1.0 O3' B:U67 4.9 68.9 1.0

A.R.Hernandez, Y.Shao, S.Hoshika, Z.Yang, S.A.Shelke, J.Herrou, H.J.Kim, M.J.Kim, J.A.Piccirilli, S.A.Benner. A Crystal Structure of A Functional Rna Molecule Containing An Artificial Nucleobase Pair. Angew.Chem.Int.Ed.Engl. V. 54 9853 2015.
ISSN: ESSN 1521-3773
PubMed: 26223188
DOI: 10.1002/ANIE.201504731