Magnesium in PDB 2nvx: Rna Polymerase II Elongation Complex in 5 Mm Mg+2 with 2'- Dutp

All present enzymatic activity of Rna Polymerase II Elongation Complex in 5 Mm Mg+2 with 2'- Dutp:
2.7.7.6;

The structure of Rna Polymerase II Elongation Complex in 5 Mm Mg+2 with 2'- Dutp, PDB code: 2nvx was solved by D.Wang, D.A.Bushnell, K.D.Westover, C.D.Kaplan, R.D.Kornberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 3.60
Space group	C 1 2 1
Cell size a, b, c (Å), α, β, γ (°)	168.719, 222.414, 193.071, 90.00, 101.29, 90.00
R / Rfree (%)	28.5 / 30.4

The structure of Rna Polymerase II Elongation Complex in 5 Mm Mg+2 with 2'- Dutp also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

The binding sites of Magnesium atom in the Rna Polymerase II Elongation Complex in 5 Mm Mg+2 with 2'- Dutp (pdb code 2nvx). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Rna Polymerase II Elongation Complex in 5 Mm Mg+2 with 2'- Dutp, PDB code: 2nvx:

Magnesium binding site 1 out of 1 in the Rna Polymerase II Elongation Complex in 5 Mm Mg+2 with 2'- Dutp


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Rna Polymerase II Elongation Complex in 5 Mm Mg+2 with 2'- Dutp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2000 b:74.8 occ:1.00 O3B B:DUT1308 2.2 59.6 0.2 O2A B:DUT1308 2.4 58.2 0.2 OD2 A:ASP483 2.6 99.5 1.0 PG B:DUT1308 2.7 59.9 0.2 O1G B:DUT1308 2.8 59.5 0.2 O3G B:DUT1308 2.8 59.7 0.2 O1B B:DUT1308 2.9 58.6 0.2 PB B:DUT1308 3.0 59.3 0.2 O1B B:DUT1308 3.1 0.0 0.8 O3B B:DUT1308 3.2 0.4 0.8 OD2 A:ASP481 3.3 0.1 1.0 PB B:DUT1308 3.5 0.6 0.8 PA B:DUT1308 3.5 59.4 0.2 O3A B:DUT1308 3.6 59.7 0.2 O2B B:DUT1308 3.7 0.7 0.8 CG A:ASP483 3.7 97.8 1.0 OD2 B:ASP837 4.0 0.1 1.0 O2G B:DUT1308 4.2 59.8 0.2 CE B:LYS987 4.2 0.9 1.0 O3G B:DUT1308 4.2 0.1 0.8 C5' B:DUT1308 4.3 60.8 0.2 CB A:ASP483 4.3 96.1 1.0 O5' B:DUT1308 4.3 60.2 0.2 O2B B:DUT1308 4.3 58.8 0.2 CG A:ASP481 4.4 0.7 1.0 PG B:DUT1308 4.5 0.7 0.8 NH2 B:ARG1020 4.6 0.6 1.0 OD1 A:ASP483 4.7 100.0 1.0 O1A B:DUT1308 4.8 59.1 0.2 CB A:ASP481 5.0 0.0 1.0

D.Wang, D.A.Bushnell, K.D.Westover, C.D.Kaplan, R.D.Kornberg. Structural Basis of Transcription: Role of the Trigger Loop in Substrate Specificity and Catalysis Cell(Cambridge,Mass.) V. 127 941 2006.
ISSN: ISSN 0092-8674
PubMed: 17129781
DOI: 10.1016/J.CELL.2006.11.023