Iridium in PDB 5t83: Structure of A Guanidine-I Riboswitch From S. Acidophilus

The structure of Structure of A Guanidine-I Riboswitch From S. Acidophilus, PDB code: 5t83 was solved by C.W.Reiss, Y.Xiong, S.A.Strobel, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 2.71
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	49.091, 49.091, 246.341, 90.00, 90.00, 90.00
R / Rfree (%)	20 / 22.6

The structure of Structure of A Guanidine-I Riboswitch From S. Acidophilus also contains other interesting chemical elements:

Strontium	(Sr)	9 atoms
Magnesium	(Mg)	2 atoms

The binding sites of Iridium atom in the Structure of A Guanidine-I Riboswitch From S. Acidophilus (pdb code 5t83). This binding sites where shown within 5.0 Angstroms radius around Iridium atom.
In total 3 binding sites of Iridium where determined in the Structure of A Guanidine-I Riboswitch From S. Acidophilus, PDB code: 5t83:
Jump to Iridium binding site number: 1; 2; 3;

Iridium binding site 1 out of 3 in the Structure of A Guanidine-I Riboswitch From S. Acidophilus


Mono view


Stereo pair view

A full contact list of Iridium with other atoms in the Ir binding site number 1 of Structure of A Guanidine-I Riboswitch From S. Acidophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Ir113 b:0.7 occ:0.70 IR A:IRI113 0.0 0.7 0.7 N3 A:IRI113 2.0 98.6 0.7 N1 A:IRI113 2.0 0.9 0.7 N6 A:IRI113 2.0 73.2 0.7 N5 A:IRI113 2.0 87.8 0.7 N4 A:IRI113 2.1 93.3 0.7 N2 A:IRI113 2.1 79.9 0.7 OP1 A:C61 3.7 82.3 1.0 O4 A:U57 3.9 64.4 1.0 O4 A:U58 4.4 81.0 1.0 OP2 A:C61 4.6 70.1 1.0 P A:C61 4.7 84.9 1.0 OP2 A:C55 4.9 0.6 1.0

Iridium binding site 2 out of 3 in the Structure of A Guanidine-I Riboswitch From S. Acidophilus


Mono view


Stereo pair view

A full contact list of Iridium with other atoms in the Ir binding site number 2 of Structure of A Guanidine-I Riboswitch From S. Acidophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Ir114 b:0.2 occ:0.75 IR A:IRI114 0.0 0.2 0.8 N4 A:IRI114 2.0 0.8 0.8 N1 A:IRI114 2.0 0.1 0.8 N6 A:IRI114 2.0 0.9 0.8 N2 A:IRI114 2.0 0.1 0.8 N5 A:IRI114 2.0 0.8 0.8 N3 A:IRI114 2.0 0.3 0.8 O6 A:G30 3.7 84.0 1.0 O4 A:U32 4.1 79.5 1.0 O6 A:G31 4.1 80.8 1.0 O4 A:U25 4.3 87.9 1.0 C6 A:G30 4.4 85.5 1.0 N7 A:G30 4.4 98.4 1.0 O6 A:G24 4.6 83.7 1.0 C5 A:G30 4.7 96.7 1.0 N7 A:G31 4.8 80.2 1.0 C4 A:U32 5.0 89.3 1.0

Iridium binding site 3 out of 3 in the Structure of A Guanidine-I Riboswitch From S. Acidophilus


Mono view


Stereo pair view

A full contact list of Iridium with other atoms in the Ir binding site number 3 of Structure of A Guanidine-I Riboswitch From S. Acidophilus within 5.0Å range: probe atom residue distance (Å) B Occ A:Ir115 b:0.7 occ:0.74 IR A:IRI115 0.0 0.7 0.7 N5 A:IRI115 2.0 0.1 0.7 N3 A:IRI115 2.0 0.5 0.7 N2 A:IRI115 2.0 0.8 0.7 N4 A:IRI115 2.0 0.2 0.7 N1 A:IRI115 2.0 0.1 0.7 N6 A:IRI115 2.0 0.2 0.7 OP2 A:A43 4.2 81.3 1.0 N7 A:A43 4.4 69.0 1.0 OP2 A:C42 4.7 74.0 1.0 OP2 A:C12 4.7 72.8 1.0 C8 A:A43 5.0 66.4 1.0

C.W.Reiss, Y.Xiong, S.A.Strobel. Structural Basis For Ligand Binding to the Guanidine-I Riboswitch. Structure V. 25 195 2017.
ISSN: ISSN 1878-4186
PubMed: 28017522
DOI: 10.1016/J.STR.2016.11.020