Magnesium in PDB 6xur: Rna Dodecamer with A 6-Hydrazino-2-Aminopurine Modified Base

The structure of Rna Dodecamer with A 6-Hydrazino-2-Aminopurine Modified Base, PDB code: 6xur was solved by E.Ennifar, R.Micura, C.Gasser, K.Brillet, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	24.64 / 1.10
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	41.420, 35.030, 32.030, 90.00, 129.72, 90.00
R / Rfree (%)	15.4 / 18

The binding sites of Magnesium atom in the Rna Dodecamer with A 6-Hydrazino-2-Aminopurine Modified Base (pdb code 6xur). 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 Dodecamer with A 6-Hydrazino-2-Aminopurine Modified Base, PDB code: 6xur:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Rna Dodecamer with A 6-Hydrazino-2-Aminopurine Modified Base


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rna Dodecamer with A 6-Hydrazino-2-Aminopurine Modified Base within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1101 b:40.5 occ:1.00 O A:HOH1273 1.9 38.2 0.8 O A:HOH1206 2.1 26.0 0.9 O A:HOH1216 2.1 28.8 1.0 O A:HOH1224 2.1 20.3 1.0 O A:HOH1270 2.1 36.9 0.9 O A:HOH1205 3.6 34.3 1.0 O A:HOH1254 3.8 40.2 1.0 H62 A:A1009 4.1 15.0 1.0 O A:HOH1249 4.2 25.5 1.0 O6 A:G1010 4.3 13.0 1.0 N7 A:A1009 4.3 12.9 1.0 N7 A:G1010 4.5 12.5 1.0 H41 A:C1011 4.7 16.8 1.0 N6 A:A1009 4.8 12.5 1.0 H5 A:U1008 5.0 18.6 1.0

Magnesium binding site 2 out of 2 in the Rna Dodecamer with A 6-Hydrazino-2-Aminopurine Modified Base


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Rna Dodecamer with A 6-Hydrazino-2-Aminopurine Modified Base within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg1102 b:76.8 occ:1.00 O A:HOH1265 2.1 37.3 1.0 O A:HOH1272 2.1 48.4 1.0 O A:HOH1274 2.2 41.8 1.0 O A:HOH1263 2.2 39.5 1.0 O A:HOH1259 2.2 34.8 1.0 O A:HOH1202 2.2 31.0 1.0 H41 A:C1003 3.5 15.7 1.0 N4 A:C1003 4.2 13.1 1.0 N25 A:O2Z1005 4.3 19.3 1.0 O A:HOH1237 4.3 18.6 1.0 H42 A:C1003 4.4 15.7 1.0 O A:HOH1243 4.7 35.1 1.0 H5 A:C1003 4.7 17.1 1.0 O A:HOH1231 4.7 21.2 1.0 O A:HOH1215 4.9 27.1 0.9 N6 A:O2Z1005 4.9 15.7 1.0

C.Gasser, I.Delazer, E.Neuner, K.Pascher, K.Brillet, S.Klotz, L.Trixl, M.Himmelstoss, E.Ennifar, D.Rieder, A.Lusser, R.Micura. Thioguanosine Conversion Enables Mrna Life-Time Evaluation By Rna Sequencing Via Double Metabolic Labeling. Angew.Chem.Int.Ed.Engl. 2020.
ISSN: ESSN 1521-3773
PubMed: 31999864
DOI: 10.1002/ANIE.201916272