Magnesium in PDB 5lqt: Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-C Basepairs

The structure of Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-C Basepairs, PDB code: 5lqt 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)	32.58 / 1.50
Space group	P 43 21 2
Cell size a, b, c (Å), α, β, γ (°)	34.340, 34.340, 103.170, 90.00, 90.00, 90.00
R / Rfree (%)	22 / 22.7

The structure of Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-C Basepairs also contains other interesting chemical elements:

Bromine	(Br)	2 atoms
Calcium	(Ca)	1 atom
Sodium	(Na)	1 atom

The binding sites of Magnesium atom in the Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-C Basepairs (pdb code 5lqt). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-C Basepairs, PDB code: 5lqt:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-C Basepairs


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-C Basepairs within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg103 b:48.4 occ:1.00 O A:HOH231 2.2 58.1 1.0 O A:HOH223 2.2 61.9 1.0 O A:HOH205 2.2 52.7 1.0 O A:HOH229 2.2 58.0 1.0 O A:HOH230 2.2 56.1 1.0 O A:HOH211 2.2 44.1 1.0 N7 A:G4 4.0 28.6 1.0 O A:HOH210 4.3 36.5 1.0 O A:HOH226 4.3 48.3 1.0 O B:HOH221 4.4 51.3 1.0 O A:HOH216 4.4 39.8 1.0 C9 A:6MZ6 4.6 41.5 1.0 N7 A:G5 4.6 28.8 1.0 C8 A:G4 4.7 28.3 1.0 C5 A:G4 4.7 29.2 1.0 O6 A:G5 4.7 29.6 1.0 O6 A:G4 4.8 30.3 1.0 C6 A:G4 5.0 26.9 1.0

Magnesium binding site 2 out of 2 in the Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-C Basepairs


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rna Duplex Has Central Consecutive Ga Pairs Flanked By G-C Basepairs within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg101 b:26.1 occ:1.00 O B:HOH213 2.4 37.5 1.0 O3' B:C10 2.4 35.3 1.0 O2' B:C10 2.6 32.3 1.0 C3' B:C10 3.3 31.2 1.0 C2' B:C10 3.4 31.2 1.0 C4' B:C10 4.0 29.4 1.0 O B:HOH207 4.7 34.1 1.0 O B:HOH208 4.7 43.4 1.0 C1' B:C10 4.7 31.1 1.0 O4' B:C10 5.0 30.2 1.0

L.Huang, S.Ashraf, J.Wang, D.M.Lilley. Control of Box C/D Snornp Assembly By N(6)-Methylation of Adenine. Embo Rep. V. 18 1631 2017.
ISSN: ESSN 1469-3178
PubMed: 28623187
DOI: 10.15252/EMBR.201743967