Magnesium in PDB 4pcj: Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy

The structure of Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy, PDB code: 4pcj was solved by L.A.Coonrod, E.E.Reister, J.A.Berglund, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	22.60 / 1.90
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	69.705, 69.705, 67.797, 90.00, 90.00, 120.00
R / Rfree (%)	19.6 / 26.8

The binding sites of Magnesium atom in the Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy (pdb code 4pcj). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 5 binding sites of Magnesium where determined in the Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy, PDB code: 4pcj:
Jump to Magnesium binding site number: 1; 2; 3; 4; 5;

Magnesium binding site 1 out of 5 in the Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg101 b:68.8 occ:1.00 O2' A:A10 2.4 80.2 1.0 O6 A:G12 2.7 42.8 1.0 N7 A:G12 2.7 41.1 1.0 OP2 A:A11 3.1 56.9 1.0 C6 A:G12 3.3 41.5 1.0 C5 A:G12 3.3 40.5 1.0 O3' A:A10 3.3 65.9 1.0 O6 A:G13 3.4 44.5 1.0 C2' A:A10 3.6 61.3 1.0 P A:A11 3.8 57.6 1.0 C3' A:A10 3.8 58.3 1.0 C8 A:G12 3.9 47.2 1.0 N7 A:G13 3.9 40.4 1.0 O5' A:A11 4.1 50.3 1.0 C6 A:G13 4.1 41.1 1.0 C5 A:G13 4.3 39.0 1.0 N7 A:A11 4.4 48.5 1.0 O4 A:U25 4.5 46.1 1.0 C1' A:A10 4.5 47.6 1.0 C8 A:A11 4.6 43.9 1.0 C4 A:G12 4.6 39.5 1.0 N1 A:G12 4.6 44.4 1.0 OP2 A:G12 4.7 56.2 1.0 N3 A:U25 4.8 48.1 1.0 N9 A:G12 4.9 46.4 1.0 N4 A:C24 5.0 47.6 1.0 C8 A:G13 5.0 41.6 1.0

Magnesium binding site 2 out of 5 in the Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg102 b:72.8 occ:1.00 O A:HOH237 2.1 49.6 1.0 O A:HOH238 2.5 48.1 1.0 O A:HOH257 2.8 61.1 1.0 O6 A:G17 3.8 51.2 1.0 O A:HOH229 4.1 55.8 1.0 O4 A:U16 4.4 47.4 1.0 O A:HOH226 4.6 55.8 1.0 N7 A:G17 4.6 53.9 1.0 C6 A:G17 4.8 52.5 1.0 C5 A:U16 4.8 47.9 1.0 O A:HOH232 4.8 52.7 1.0 C4 A:U16 5.0 51.5 1.0

Magnesium binding site 3 out of 5 in the Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg103 b:67.4 occ:1.00 O A:HOH254 2.0 58.5 1.0 O A:HOH248 2.3 50.8 1.0 O A:HOH249 2.3 51.8 1.0 O A:HOH245 2.4 54.8 1.0 O A:HOH234 4.1 51.5 1.0 O4 A:U22 4.2 44.1 1.0 N7 A:G21 4.3 45.3 1.0 O6 A:G21 4.4 44.6 1.0 O A:HOH239 4.5 55.0 1.0 OP2 A:A20 4.6 50.6 1.0 N1 A:G17 4.9 48.6 1.0

Magnesium binding site 4 out of 5 in the Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 4 of Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg104 b:65.6 occ:1.00 O2 A:C29 2.7 43.9 1.0 O A:HOH221 2.8 52.5 1.0 O2' A:C29 2.9 52.1 1.0 O2 A:C8 3.0 48.1 1.0 C2' A:C29 3.4 47.3 1.0 C1' A:C29 3.6 43.8 1.0 N2 A:G28 3.6 41.0 1.0 C2 A:C29 3.8 45.9 1.0 N2 A:G7 3.8 48.1 1.0 O4' A:C30 3.9 54.0 1.0 C2 A:C8 4.0 45.2 1.0 N1 A:C29 4.3 43.5 1.0 C1' A:C8 4.5 49.7 1.0 N1 A:C8 4.7 42.6 1.0 C2 A:G28 4.7 39.9 1.0 O2' A:C8 4.7 50.4 1.0 C1' A:C30 4.7 48.7 1.0 N3 A:C8 4.8 41.3 1.0 O4' A:C29 4.8 41.9 1.0 C3' A:C29 4.8 44.1 1.0 N3 A:C29 5.0 42.4 1.0 C6 A:C30 5.0 42.3 1.0

Magnesium binding site 5 out of 5 in the Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 5 of Modifications to Toxic Cug Rnas Induce Structural Stability and Rescue Mis-Splicing in Myotonic Dystrophy within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg105 b:59.4 occ:1.00 O A:HOH246 2.0 55.6 1.0 O A:HOH261 2.2 60.9 1.0 O A:HOH251 2.2 61.8 1.0 O A:HOH265 2.2 48.5 1.0 O A:HOH263 4.1 54.2 1.0 O A:HOH262 4.1 43.2 1.0 O A:HOH230 4.2 49.7 1.0 O A:HOH235 4.3 54.4 1.0 O4 A:U31 4.4 47.0 1.0 O A:HOH252 4.4 60.4 1.0 O6 A:G32 4.5 61.3 1.0 N4 A:C4 4.9 54.1 1.0

E.Delorimier, L.A.Coonrod, J.Copperman, A.Taber, E.E.Reister, K.Sharma, P.K.Todd, M.G.Guenza, J.A.Berglund. Modifications to Toxic Cug Rnas Induce Structural Stability, Rescue Mis-Splicing in A Myotonic Dystrophy Cell Model and Reduce Toxicity in A Myotonic Dystrophy Zebrafish Model. Nucleic Acids Res. 2014.
ISSN: ESSN 1362-4962
PubMed: 25303993
DOI: 10.1093/NAR/GKU941