Magnesium in PDB 5fjc: Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant C-2BU

The structure of Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant C-2BU, PDB code: 5fjc was solved by L.Huang, D.M.J.Lilley, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	41.134 / 1.71
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	60.398, 60.398, 152.950, 90.00, 90.00, 90.00
R / Rfree (%)	20.09 / 24.05

The structure of Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant C-2BU also contains other interesting chemical elements:

Potassium	(K)	4 atoms
Barium	(Ba)	21 atoms
Sodium	(Na)	1 atom

The binding sites of Magnesium atom in the Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant C-2BU (pdb code 5fjc). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant C-2BU, PDB code: 5fjc:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant C-2BU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant C-2BU within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg127 b:42.3 occ:1.00 O A:HOH2113 1.8 47.0 1.0 O A:HOH2114 2.2 54.2 1.0 O A:HOH2029 2.4 51.6 1.0 O A:HOH2027 2.5 48.2 1.0 OP1 A:A62 3.3 61.6 1.0 K A:K124 3.7 49.6 1.0 O3' A:A61 3.9 53.1 1.0 O A:HOH2030 4.0 50.8 1.0 OP2 A:A12 4.2 47.6 1.0 P A:A62 4.3 54.8 1.0 N7 A:A12 4.8 37.6 1.0

Magnesium binding site 2 out of 2 in the Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant C-2BU


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Sam-I Riboswitch Bearing the H. Marismortui Kt-7 Variant C-2BU within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg128 b:32.0 occ:1.00 O6 A:G74 2.4 36.9 1.0 O A:HOH2135 2.7 37.5 1.0 O A:HOH2137 2.8 30.4 1.0 O6 A:G73 3.0 28.3 1.0 O A:HOH2134 3.1 36.0 1.0 O A:HOH2142 3.3 43.5 1.0 C6 A:G74 3.3 34.2 1.0 N4 A:C72 3.5 30.0 1.0 C6 A:G73 4.0 34.0 1.0 N7 A:G73 4.1 26.1 1.0 N1 A:G74 4.1 32.8 1.0 BA A:BA119 4.1 26.5 0.8 C5 A:G74 4.3 39.4 1.0 C4 A:C72 4.3 26.7 1.0 C5 A:G73 4.4 33.9 1.0 N4 A:C78 4.6 39.5 1.0 O A:HOH2019 4.6 45.4 1.0 N7 A:G74 4.6 34.1 1.0 C5 A:C72 4.8 28.2 1.0 O A:HOH2143 4.8 42.4 1.0 O A:HOH2141 4.9 37.1 1.0 O6 A:G79 4.9 31.7 1.0 O A:HOH2126 4.9 33.7 1.0 O A:HOH2124 4.9 32.3 1.0

L.Huang, J.Wang, D.M.J.Lilley. A Critical Base Pair in K-Turns Determines the Conformational Class Adopted, and Correlates with Biological Function. Nucleic Acids Res. V. 44 5390 2016.
ISSN: ISSN 0305-1048
PubMed: 27016741
DOI: 10.1093/NAR/GKW201