Magnesium in PDB 7liu: DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid

All present enzymatic activity of DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid:
3.6.4.13;

The structure of DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid, PDB code: 7liu was solved by E.J.Enemark, S.Yu, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.54 / 3.00
Space group	P 32 2 1
Cell size a, b, c (Å), α, β, γ (°)	114.476, 114.476, 281.793, 90, 90, 120
R / Rfree (%)	21 / 24.1

The structure of DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid also contains other interesting chemical elements:

Fluorine

(F)

6 atoms

The binding sites of Magnesium atom in the DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid (pdb code 7liu). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid, PDB code: 7liu:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg901 b:70.7 occ:1.00 O A:HOH1001 1.9 59.2 1.0 O2B A:08T902 1.9 73.0 1.0 O A:HOH1002 2.0 58.0 1.0 O A:HOH1003 2.0 64.5 1.0 O A:HOH1004 2.0 58.6 1.0 F1 A:08T902 2.0 67.0 1.0 BE A:08T902 3.2 69.3 1.0 PB A:08T902 3.2 68.2 1.0 O3B A:08T902 3.5 65.6 1.0 OE2 A:GLU348 3.6 74.8 1.0 F3 A:08T902 3.8 80.2 1.0 OG1 A:THR231 3.8 73.2 1.0 OD2 A:ASP347 3.9 61.2 1.0 O3A A:08T902 4.0 66.3 1.0 O A:GLY504 4.1 62.1 1.0 CA A:GLY504 4.1 58.2 1.0 O1A A:08T902 4.2 67.6 1.0 OD1 A:ASP347 4.2 60.0 1.0 PA A:08T902 4.4 69.0 1.0 F2 A:08T902 4.4 72.7 1.0 CG A:ASP347 4.5 61.1 1.0 O1B A:08T902 4.5 69.4 1.0 CE A:LYS230 4.5 71.4 1.0 C A:GLY504 4.6 58.9 1.0 O2A A:08T902 4.7 77.7 1.0 CD A:GLU348 4.8 70.2 1.0 CB A:LYS230 4.9 63.1 1.0 N A:THR231 4.9 75.1 1.0 NZ A:LYS230 4.9 76.3 1.0

Magnesium binding site 2 out of 2 in the DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg901 b:71.3 occ:1.00 F1 B:08T902 1.9 64.5 1.0 O B:HOH1002 1.9 60.1 1.0 O1B B:08T902 1.9 71.2 1.0 O B:HOH1003 2.0 57.9 1.0 O B:HOH1001 2.0 63.1 1.0 O B:HOH1004 2.0 60.3 1.0 BE B:08T902 3.2 70.1 1.0 PB B:08T902 3.3 65.8 1.0 OE2 B:GLU348 3.5 67.2 1.0 O3B B:08T902 3.6 66.5 1.0 OD2 B:ASP347 3.8 55.8 1.0 OG1 B:THR231 3.8 65.3 1.0 F3 B:08T902 3.9 73.6 1.0 OD1 B:ASP347 4.1 60.4 1.0 CA B:GLY504 4.1 59.1 1.0 O3A B:08T902 4.2 66.0 1.0 O B:GLY504 4.3 67.8 1.0 CG B:ASP347 4.3 62.9 1.0 O2A B:08T902 4.4 72.5 1.0 F2 B:08T902 4.4 80.0 1.0 O2B B:08T902 4.4 71.2 1.0 CE B:LYS230 4.5 72.4 1.0 PA B:08T902 4.5 69.8 1.0 O1A B:08T902 4.6 75.6 1.0 CD B:GLU348 4.7 66.9 1.0 C B:GLY504 4.7 60.8 1.0 NZ B:LYS230 4.8 75.8 1.0 CB B:LYS230 4.9 62.8 1.0

E.J.Enemark, S.Yu. DDX3X Bound to Atp Analog and Remodeled Rna:Dna Hybrid To Be Published.