Magnesium 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:

Potassium	(K)	3 atoms
Strontium	(Sr)	2 atoms

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

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


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Burkholderia Sp. TJI49 Guanidine-I Riboswitch within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg208 b:66.7 occ:1.00 OP2 F:C121 2.0 65.1 1.0 O F:HOH310 2.2 59.6 1.0 OP1 F:G54 2.4 61.9 1.0 OP1 F:C120 2.6 57.9 1.0 P F:C121 3.4 62.9 1.0 P F:C120 3.7 58.6 1.0 P F:G54 3.8 64.3 1.0 OP2 F:C120 4.0 60.8 1.0 OP1 F:C121 4.1 66.1 1.0 K F:K212 4.2 65.3 1.0 O5' F:C121 4.2 56.2 1.0 N7 F:G54 4.2 68.2 1.0 O5' F:C120 4.2 54.5 1.0 O F:HOH312 4.3 81.8 1.0 O3' F:A53 4.4 55.4 1.0 C8 F:G54 4.4 61.8 1.0 O2' F:G123 4.4 74.8 1.0 O3' F:C120 4.4 60.5 1.0 OP2 F:G54 4.5 58.6 1.0 C5' F:C120 4.6 52.0 1.0 C3' F:C120 4.7 54.7 1.0 OP2 F:G124 4.8 70.5 1.0 O5' F:G54 4.9 58.0 1.0

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


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Burkholderia Sp. TJI49 Guanidine-I Riboswitch within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg209 b:77.3 occ:1.00 OP2 F:G54 2.0 58.6 1.0 OP1 F:C121 2.4 66.1 1.0 P F:G54 3.5 64.3 1.0 P F:C121 3.8 62.9 1.0 O3' F:C120 4.1 60.5 1.0 C5' F:G54 4.2 56.1 1.0 OP1 F:A53 4.2 53.9 1.0 O3' F:A53 4.3 55.4 1.0 OP1 F:G54 4.4 61.9 1.0 O5' F:G54 4.4 58.0 1.0 C3' F:A53 4.7 51.5 1.0 OP2 F:C121 4.7 65.1 1.0 O5' F:C121 4.9 56.2 1.0 C4' F:A53 4.9 51.1 1.0

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


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Burkholderia Sp. TJI49 Guanidine-I Riboswitch within 5.0Å range: probe atom residue distance (Å) B Occ F:Mg210 b:92.0 occ:1.00 O4 F:U43 3.2 70.7 1.0 OP2 F:A42 3.5 88.1 1.0 C4 F:U43 3.9 61.5 1.0 C5 F:U43 4.0 61.5 1.0 N7 F:A42 4.1 73.7 1.0 C8 F:A42 4.4 75.8 1.0 P F:A42 4.7 97.8 1.0 O5' F:A42 4.8 79.6 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