Magnesium in PDB 2o5i: Crystal Structure of the T. Thermophilus Rna Polymerase Elongation Complex

All present enzymatic activity of Crystal Structure of the T. Thermophilus Rna Polymerase Elongation Complex:
2.7.7.6;

The structure of Crystal Structure of the T. Thermophilus Rna Polymerase Elongation Complex, PDB code: 2o5i was solved by D.G.Vassylyev, T.H.Tahirov, M.N.Vassylyeva, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	20.00 / 2.50
Space group	P 41
Cell size a, b, c (Å), α, β, γ (°)	156.211, 156.211, 499.229, 90.00, 90.00, 90.00
R / Rfree (%)	23.8 / 26.7

The structure of Crystal Structure of the T. Thermophilus Rna Polymerase Elongation Complex also contains other interesting chemical elements:

Zinc

(Zn)

4 atoms

The binding sites of Magnesium atom in the Crystal Structure of the T. Thermophilus Rna Polymerase Elongation Complex (pdb code 2o5i). 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 the T. Thermophilus Rna Polymerase Elongation Complex, PDB code: 2o5i:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Crystal Structure of the T. Thermophilus Rna Polymerase Elongation 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 the T. Thermophilus Rna Polymerase Elongation Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg8001 b:27.1 occ:1.00 O3' H:G16 2.1 50.6 1.0 OD1 D:ASP739 2.1 51.9 1.0 OD2 D:ASP743 2.2 58.0 1.0 OD2 D:ASP741 2.2 56.1 1.0 OD1 D:ASP743 2.8 58.3 1.0 CG D:ASP743 2.8 58.8 1.0 CG D:ASP739 2.9 52.4 1.0 CG D:ASP741 2.9 55.5 1.0 OD1 D:ASP741 3.1 53.5 1.0 OD2 D:ASP739 3.1 55.2 1.0 C3' H:G16 3.3 51.5 1.0 C4' H:G16 3.8 51.3 1.0 O D:ASP739 4.1 56.9 1.0 C5' H:G16 4.1 50.6 1.0 CB D:ASP739 4.2 52.3 1.0 N D:ASP741 4.2 59.6 1.0 N D:ASP739 4.3 53.0 1.0 CB D:ASP741 4.3 57.0 1.0 CB D:ASP743 4.3 58.2 1.0 C D:ASP739 4.3 54.8 1.0 CA D:ASP739 4.5 54.2 1.0 C2' H:G16 4.5 52.8 1.0 O2' H:G16 4.6 55.0 1.0 N D:ASP743 4.6 56.9 1.0 CA D:ASP741 4.7 58.4 1.0 O5' H:G16 4.8 45.9 1.0 NH2 D:ARG704 4.8 73.6 1.0 CA D:ASP743 4.9 57.9 1.0 C D:ASP741 5.0 58.0 1.0 N D:GLY742 5.0 58.5 1.0 N D:PHE740 5.0 56.7 1.0

Magnesium binding site 2 out of 2 in the Crystal Structure of the T. Thermophilus Rna Polymerase Elongation 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 the T. Thermophilus Rna Polymerase Elongation Complex within 5.0Å range: probe atom residue distance (Å) B Occ N:Mg8002 b:25.1 occ:1.00 OD1 N:ASP739 2.1 58.1 1.0 OD2 N:ASP743 2.3 70.3 1.0 O3' Y:G16 2.4 37.9 1.0 OD2 N:ASP741 2.4 54.2 1.0 OD1 N:ASP743 2.7 67.8 1.0 CG N:ASP743 2.9 69.1 1.0 CG N:ASP739 3.1 56.6 1.0 CG N:ASP741 3.3 53.9 1.0 OD1 N:ASP741 3.5 52.2 1.0 OD2 N:ASP739 3.6 59.6 1.0 C3' Y:G16 3.6 33.5 1.0 C4' Y:G16 4.2 31.9 1.0 C5' Y:G16 4.4 31.0 1.0 CB N:ASP743 4.4 67.8 1.0 N N:ASP739 4.4 53.7 1.0 CB N:ASP739 4.4 53.3 1.0 O N:ASP739 4.4 52.3 1.0 NH2 N:ARG704 4.6 52.8 1.0 N N:ASP741 4.7 57.0 1.0 C N:ASP739 4.7 52.3 1.0 CB N:ASP741 4.7 55.8 1.0 CA N:ASP739 4.7 52.9 1.0 N N:ASP743 4.9 64.8 1.0 O5' Y:G16 4.9 25.4 1.0 C2' Y:G16 4.9 34.6 1.0

D.G.Vassylyev, M.N.Vassylyeva, A.Perederina, T.H.Tahirov, I.Artsimovitch. Structural Basis For Transcription Elongation By Bacterial Rna Polymerase. Nature V. 448 157 2007.
ISSN: ISSN 0028-0836
PubMed: 17581590
DOI: 10.1038/NATURE05932