Potassium in PDB 7mlw: Burkholderia Sp. TJI49 Guanidine-I Riboswitch

The structure of Burkholderia Sp. TJI49 Guanidine-I Riboswitch, PDB code: 7mlw was solved by R.J.Trachman, A.R.Ferre-D'amare, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	6.99 / 2.70
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	51.703, 51.703, 266.728, 90, 90, 120
R / Rfree (%)	21.8 / 27

The structure of Burkholderia Sp. TJI49 Guanidine-I Riboswitch also contains other interesting chemical elements:

Magnesium	(Mg)	3 atoms
Strontium	(Sr)	2 atoms

The binding sites of Potassium atom in the Burkholderia Sp. TJI49 Guanidine-I Riboswitch (pdb code 7mlw). This binding sites where shown within 5.0 Angstroms radius around Potassium atom.
In total 3 binding sites of Potassium where determined in the Burkholderia Sp. TJI49 Guanidine-I Riboswitch, PDB code: 7mlw:
Jump to Potassium binding site number: 1; 2; 3;

Potassium binding site 1 out of 3 in the Burkholderia Sp. TJI49 Guanidine-I Riboswitch


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 1 of Burkholderia Sp. TJI49 Guanidine-I Riboswitch within 5.0Å range: probe atom residue distance (Å) B Occ F:K211 b:114.3 occ:1.00 O6 F:G111 3.7 74.5 1.0 O F:HOH302 3.9 63.1 1.0 O6 F:G110 4.2 73.0 1.0 N7 F:G110 4.3 73.3 1.0 OP2 F:G119 4.4 62.2 1.0 OP2 F:A109 4.5 76.5 1.0 N7 F:G111 4.5 74.7 1.0 C6 F:G111 4.6 74.4 1.0 OP1 F:G119 4.8 52.1 1.0 C6 F:G110 4.8 71.7 1.0 C5 F:G110 4.9 68.8 1.0 C5 F:G111 5.0 71.9 1.0

Potassium binding site 2 out of 3 in the Burkholderia Sp. TJI49 Guanidine-I Riboswitch


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 2 of Burkholderia Sp. TJI49 Guanidine-I Riboswitch within 5.0Å range: probe atom residue distance (Å) B Occ F:K212 b:65.3 occ:1.00 O2' F:A53 2.5 54.4 1.0 O F:HOH305 2.8 56.9 1.0 O F:HOH310 2.8 59.6 1.0 OP1 F:C120 2.9 57.9 1.0 OP1 F:G54 3.1 61.9 1.0 O3' F:A53 3.2 55.4 1.0 N7 F:A55 3.5 66.6 1.0 P F:G54 3.6 64.3 1.0 C2' F:A53 3.6 52.7 1.0 O5' F:G54 3.6 58.0 1.0 N6 F:A55 4.0 64.2 1.0 C1' F:A53 4.0 53.3 1.0 C3' F:A53 4.0 51.5 1.0 O3' F:G119 4.0 55.7 1.0 P F:C120 4.0 58.6 1.0 MG F:MG208 4.2 66.7 1.0 C8 F:G54 4.2 61.8 1.0 N7 F:G54 4.3 68.2 1.0 C5 F:A55 4.4 63.8 1.0 C8 F:A55 4.4 65.7 1.0 OP2 F:A55 4.6 62.9 1.0 N3 F:A53 4.6 48.4 1.0 C6 F:A55 4.7 64.7 1.0 C1' F:G119 4.8 58.2 1.0 O4' F:A53 4.9 58.2 1.0 OP2 F:C120 5.0 60.8 1.0 N9 F:A53 5.0 48.7 1.0 C5' F:G54 5.0 56.1 1.0

Potassium binding site 3 out of 3 in the Burkholderia Sp. TJI49 Guanidine-I Riboswitch


Mono view


Stereo pair view

A full contact list of Potassium with other atoms in the K binding site number 3 of Burkholderia Sp. TJI49 Guanidine-I Riboswitch within 5.0Å range: probe atom residue distance (Å) B Occ F:K213 b:111.8 occ:1.00 OP2 F:A117 2.8 68.6 1.0 O4 F:U114 2.9 67.9 1.0 N7 F:A113 3.0 71.9 1.0 C4 F:U114 3.8 67.8 1.0 C8 F:A113 3.9 76.8 1.0 P F:A117 4.0 71.1 1.0 N6 F:A113 4.0 60.9 1.0 C5 F:A113 4.1 66.7 1.0 O5' F:A117 4.2 56.7 1.0 C5 F:U114 4.3 74.2 1.0 C6 F:A113 4.5 61.4 1.0 N7 F:G112 4.6 73.9 1.0 OP1 F:A117 4.7 71.8 1.0 C5 F:G112 4.7 72.5 1.0 OP2 F:A113 4.8 74.4 1.0 N3 F:U114 4.9 62.6 1.0 C6 F:G112 4.9 69.3 1.0

R.J.Trachman 3Rd, A.R.Ferre-D'amare. An Uncommon [K + (Mg 2+ ) 2 ] Metal Ion Triad Imparts Stability and Selectivity to the Guanidine-I Riboswitch. Rna V. 27 1257 2021.
ISSN: ESSN 1469-9001
PubMed: 34257148
DOI: 10.1261/RNA.078824.121