Cobalt in PDB 6c27: Sam-III Riboswitch on-State

The structure of Sam-III Riboswitch on-State, PDB code: 6c27 was solved by J.C.Grigg, I.R.Price, A.Ke, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	37.01 / 3.60
Space group	C 2 2 21
Cell size a, b, c (Å), α, β, γ (°)	74.011, 96.791, 168.882, 90.00, 90.00, 90.00
R / Rfree (%)	21 / 24.3

The binding sites of Cobalt atom in the Sam-III Riboswitch on-State (pdb code 6c27). This binding sites where shown within 5.0 Angstroms radius around Cobalt atom.
In total 8 binding sites of Cobalt where determined in the Sam-III Riboswitch on-State, PDB code: 6c27:
Jump to Cobalt binding site number: 1; 2; 3; 4; 5; 6; 7; 8;

Cobalt binding site 1 out of 8 in the Sam-III Riboswitch on-State


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 1 of Sam-III Riboswitch on-State within 5.0Å range: probe atom residue distance (Å) B Occ A:Co101 b:0.5 occ:1.00 CO A:NCO101 0.0 0.5 1.0 N5 A:NCO101 2.0 0.5 1.0 N3 A:NCO101 2.0 0.5 1.0 N1 A:NCO101 2.0 0.5 1.0 N6 A:NCO101 2.0 0.5 1.0 N2 A:NCO101 2.0 0.5 1.0 N4 A:NCO101 2.0 0.5 1.0 O2' A:U9 4.2 0.1 1.0 O2' A:G35 4.2 0.6 1.0 O2 A:U9 4.3 0.8 1.0 OP1 A:C11 4.4 0.3 1.0 OP2 A:C11 4.4 0.1 1.0 O3' A:U9 4.8 0.3 1.0 P A:C11 4.9 0.4 1.0

Cobalt binding site 2 out of 8 in the Sam-III Riboswitch on-State


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 2 of Sam-III Riboswitch on-State within 5.0Å range: probe atom residue distance (Å) B Occ A:Co102 b:0.5 occ:1.00 CO A:NCO102 0.0 0.5 1.0 N6 A:NCO102 2.0 0.5 1.0 N4 A:NCO102 2.0 0.5 1.0 N5 A:NCO102 2.0 0.5 1.0 N1 A:NCO102 2.0 0.5 1.0 N3 A:NCO102 2.0 0.5 1.0 N2 A:NCO102 2.0 0.5 1.0 O6 A:G22 4.2 0.2 1.0 N7 A:G22 4.6 0.2 1.0 O6 A:G23 4.7 0.5 1.0 C6 A:G22 5.0 0.4 1.0

Cobalt binding site 3 out of 8 in the Sam-III Riboswitch on-State


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 3 of Sam-III Riboswitch on-State within 5.0Å range: probe atom residue distance (Å) B Occ A:Co103 b:0.5 occ:1.00 CO A:NCO103 0.0 0.5 1.0 N5 A:NCO103 2.0 0.5 1.0 N2 A:NCO103 2.0 0.5 1.0 N4 A:NCO103 2.0 0.5 1.0 N6 A:NCO103 2.0 0.5 1.0 N3 A:NCO103 2.0 0.5 1.0 N1 A:NCO103 2.0 0.5 1.0 OP1 A:A28 4.4 0.1 1.0 O6 A:G26 4.5 0.4 1.0 N7 A:G26 4.5 1.0 1.0

Cobalt binding site 4 out of 8 in the Sam-III Riboswitch on-State


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 4 of Sam-III Riboswitch on-State within 5.0Å range: probe atom residue distance (Å) B Occ A:Co104 b:0.5 occ:1.00 CO A:NCO104 0.0 0.5 1.0 N6 A:NCO104 2.0 0.5 1.0 N2 A:NCO104 2.0 0.5 1.0 N5 A:NCO104 2.0 0.5 1.0 N4 A:NCO104 2.0 0.5 1.0 N1 A:NCO104 2.0 0.5 1.0 N3 A:NCO104 2.0 0.5 1.0 O6 A:G3 4.4 0.6 1.0 N7 A:G3 4.7 0.4 1.0

Cobalt binding site 5 out of 8 in the Sam-III Riboswitch on-State


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 5 of Sam-III Riboswitch on-State within 5.0Å range: probe atom residue distance (Å) B Occ B:Co101 b:0.5 occ:1.00 CO B:NCO101 0.0 0.5 1.0 N4 B:NCO101 2.0 0.5 1.0 N3 B:NCO101 2.0 0.5 1.0 N2 B:NCO101 2.0 0.5 1.0 N6 B:NCO101 2.0 0.5 1.0 N5 B:NCO101 2.0 0.5 1.0 N1 B:NCO101 2.0 0.5 1.0 OP1 B:A17 4.8 0.4 1.0

Cobalt binding site 6 out of 8 in the Sam-III Riboswitch on-State


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 6 of Sam-III Riboswitch on-State within 5.0Å range: probe atom residue distance (Å) B Occ B:Co102 b:0.5 occ:1.00 CO B:NCO102 0.0 0.5 1.0 N1 B:NCO102 2.0 0.5 1.0 N3 B:NCO102 2.0 0.5 1.0 N6 B:NCO102 2.0 0.5 1.0 N5 B:NCO102 2.0 0.5 1.0 N4 B:NCO102 2.0 0.5 1.0 N2 B:NCO102 2.0 0.5 1.0 O6 B:G22 4.2 0.1 1.0 N7 B:G22 4.5 0.6 1.0 O6 B:G23 4.9 0.5 1.0 C6 B:G22 4.9 0.5 1.0

Cobalt binding site 7 out of 8 in the Sam-III Riboswitch on-State


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 7 of Sam-III Riboswitch on-State within 5.0Å range: probe atom residue distance (Å) B Occ B:Co103 b:0.5 occ:1.00 CO B:NCO103 0.0 0.5 1.0 N4 B:NCO103 2.0 0.5 1.0 N6 B:NCO103 2.0 0.5 1.0 N1 B:NCO103 2.0 0.5 1.0 N2 B:NCO103 2.0 0.5 1.0 N3 B:NCO103 2.0 0.5 1.0 N5 B:NCO103 2.0 0.5 1.0 O6 B:G26 4.0 0.2 1.0 N7 B:G26 4.2 0.8 1.0 OP1 B:A28 4.7 0.3 1.0 C6 B:G26 4.7 0.5 1.0 C5 B:G26 4.8 0.4 1.0

Cobalt binding site 8 out of 8 in the Sam-III Riboswitch on-State


Mono view


Stereo pair view

A full contact list of Cobalt with other atoms in the Co binding site number 8 of Sam-III Riboswitch on-State within 5.0Å range: probe atom residue distance (Å) B Occ B:Co104 b:0.5 occ:1.00 CO B:NCO104 0.0 0.5 1.0 N1 B:NCO104 2.0 0.5 1.0 N3 B:NCO104 2.0 0.5 1.0 N4 B:NCO104 2.0 0.5 1.0 N6 B:NCO104 2.0 0.5 1.0 N5 B:NCO104 2.0 0.5 1.0 N2 B:NCO104 2.0 0.5 1.0 O6 B:G35 3.8 0.2 1.0 O2 B:C40 4.8 0.0 1.0 C6 B:G35 4.9 0.1 1.0 O6 B:G38 5.0 0.1 1.0

I.R.Price, J.C.Grigg, D.J.Martell, F.Ding, C.Peng, A.Ke. Evidence For Two-Tiered Conformation Selection in the Sam-III Riboswitch To Be Published.