Magnesium in PDB 6dta: Bacteriophage N4 Rna Polymerase II Elongation Complex 2

The structure of Bacteriophage N4 Rna Polymerase II Elongation Complex 2, PDB code: 6dta was solved by V.Molodtsov, K.S.Murakami, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	29.92 / 2.69
Space group	I 4
Cell size a, b, c (Å), α, β, γ (°)	175.049, 175.049, 76.598, 90.00, 90.00, 90.00
R / Rfree (%)	19.1 / 22.3

The binding sites of Magnesium atom in the Bacteriophage N4 Rna Polymerase II Elongation Complex 2 (pdb code 6dta). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 3 binding sites of Magnesium where determined in the Bacteriophage N4 Rna Polymerase II Elongation Complex 2, PDB code: 6dta:
Jump to Magnesium binding site number: 1; 2; 3;

Magnesium binding site 1 out of 3 in the Bacteriophage N4 Rna Polymerase II Elongation Complex 2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Bacteriophage N4 Rna Polymerase II Elongation Complex 2 within 5.0Å range: probe atom residue distance (Å) B Occ B:Mg1002 b:94.4 occ:1.00 O3G B:GTP1001 3.0 0.7 1.0 OP1 D:G7 4.0 0.7 1.0 PG B:GTP1001 4.5 0.0 1.0 O2B B:GTP1001 4.5 0.4 1.0 OD1 B:ASP75 4.9 0.6 1.0 O2G B:GTP1001 5.0 0.8 1.0

Magnesium binding site 2 out of 3 in the Bacteriophage N4 Rna Polymerase II Elongation Complex 2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Bacteriophage N4 Rna Polymerase II Elongation Complex 2 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg101 b:0.2 occ:1.00 O6 D:G4 3.8 0.8 1.0 N7 D:G3 3.9 0.0 1.0 C8 D:G3 4.5 0.1 1.0 N7 D:G4 4.8 0.8 1.0 C6 D:G4 4.8 0.3 1.0 C5 D:G3 4.9 0.2 1.0

Magnesium binding site 3 out of 3 in the Bacteriophage N4 Rna Polymerase II Elongation Complex 2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 3 of Bacteriophage N4 Rna Polymerase II Elongation Complex 2 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg102 b:0.2 occ:1.00 O6 D:G6 3.9 0.9 1.0 N7 D:G6 4.2 0.7 1.0 O6 D:G7 4.3 1.0 1.0 N7 D:G7 4.3 0.2 1.0 C6 D:G6 4.6 0.6 1.0 C5 D:G6 4.7 1.0 1.0 C6 D:G7 5.0 0.4 1.0

V.Molodtsov, K.S.Murakami. Minimalism and Functionality: Structural Lessons From the Heterodimeric N4 Bacteriophage Rna Polymerase II. J. Biol. Chem. V. 293 13616 2018.
ISSN: ESSN 1083-351X
PubMed: 29991593
DOI: 10.1074/JBC.RA118.003447