Magnesium in PDB 3pov: Crystal Structure of A Sox-Dna Complex

The structure of Crystal Structure of A Sox-Dna Complex, PDB code: 3pov was solved by C.Bagneris, T.E.Barrett, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	63.09 / 2.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	54.520, 67.660, 174.560, 90.00, 90.00, 90.00
R / Rfree (%)	20.6 / 26.4

The binding sites of Magnesium atom in the Crystal Structure of A Sox-Dna Complex (pdb code 3pov). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of A Sox-Dna Complex, PDB code: 3pov:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of A Sox-Dna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of A Sox-Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg487 b:80.0 occ:1.00 OD2 A:ASP221 2.8 38.5 1.0 OE2 A:GLU244 2.9 74.4 1.0 O A:ILE245 2.9 41.0 1.0 OE2 A:GLU184 3.3 73.6 1.0 NZ A:LYS246 3.3 32.8 1.0 CG A:ASP221 3.5 39.4 1.0 OD1 A:ASP221 3.5 50.2 1.0 CD A:GLU244 3.7 68.9 1.0 C A:ILE245 4.0 42.1 1.0 OE1 A:GLU184 4.1 79.5 1.0 CD A:GLU184 4.1 75.0 1.0 CE A:LYS246 4.2 36.3 1.0 CD A:LYS246 4.2 41.5 1.0 N A:ILE245 4.3 30.3 1.0 OE1 A:GLU244 4.3 72.6 1.0 CA A:ILE245 4.6 39.8 1.0 CG A:GLU244 4.6 51.2 1.0 O A:HOH596 4.8 47.9 1.0 CB A:ILE245 4.8 41.1 1.0 CB A:ASP221 4.9 36.2 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of A Sox-Dna Complex


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of A Sox-Dna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg488 b:64.1 occ:1.00 O A:HOH523 3.0 58.8 1.0 OP1 C:DG3 3.0 59.0 1.0 N A:CYS247 3.1 35.2 1.0 OE1 A:GLU184 3.3 79.5 1.0 C5' C:DG3 3.6 34.9 1.0 CA A:LYS246 3.6 32.5 1.0 C A:LYS246 3.7 33.5 1.0 O3' C:DG2 3.8 56.5 1.0 P C:DG3 3.9 57.8 1.0 CB A:CYS247 3.9 30.5 1.0 CD A:LYS246 3.9 41.5 1.0 CA A:CYS247 4.0 31.7 1.0 CB A:LYS246 4.0 35.7 1.0 O A:CYS247 4.0 35.7 1.0 OH A:TYR373 4.0 37.8 1.0 O A:HOH596 4.1 47.9 1.0 O5' C:DG3 4.2 52.1 1.0 C A:CYS247 4.5 35.0 1.0 SG A:CYS247 4.5 45.7 1.0 CD A:GLU184 4.6 75.0 1.0 CG A:LYS246 4.6 42.8 1.0 O A:ILE245 4.6 41.0 1.0 O A:LYS246 4.8 33.2 1.0 C3' C:DG2 4.8 64.1 1.0 N A:LYS246 4.8 32.2 1.0 C4' C:DG3 4.9 37.2 1.0 C4' C:DG2 4.9 66.4 1.0

C.Bagneris, L.C.Briggs, R.Savva, B.Ebrahimi, T.E.Barrett. Crystal Structure of A Kshv-Sox-Dna Complex: Insights Into the Molecular Mechanisms Underlying Dnase Activity and Host Shutoff Nucleic Acids Res. V. 39 5744 2011.
ISSN: ISSN 0305-1048
PubMed: 21421561
DOI: 10.1093/NAR/GKR111