Manganese in PDB 1twc: Rna Polymerase II Complexed with Gtp

All present enzymatic activity of Rna Polymerase II Complexed with Gtp:
2.7.7.6;

The structure of Rna Polymerase II Complexed with Gtp, PDB code: 1twc was solved by K.D.Westover, D.A.Bushnell, R.D.Kornberg, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.00 / 3.00
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	123.226, 223.613, 374.610, 90.00, 90.00, 90.00
R / Rfree (%)	23.4 / 25.5

The structure of Rna Polymerase II Complexed with Gtp also contains other interesting chemical elements:

Zinc

(Zn)

8 atoms

The binding sites of Manganese atom in the Rna Polymerase II Complexed with Gtp (pdb code 1twc). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total 2 binding sites of Manganese where determined in the Rna Polymerase II Complexed with Gtp, PDB code: 1twc:
Jump to Manganese binding site number: 1; 2;

Manganese binding site 1 out of 2 in the Rna Polymerase II Complexed with Gtp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Rna Polymerase II Complexed with Gtp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn3009 b:36.2 occ:1.00 OD1 A:ASP481 1.8 33.3 1.0 O2G B:GTP3008 2.0 96.7 1.0 OD2 A:ASP483 2.0 27.9 1.0 OD2 A:ASP485 2.2 30.4 1.0 O1B B:GTP3008 2.4 97.3 1.0 CG A:ASP481 2.9 29.3 1.0 CG A:ASP483 3.0 28.1 1.0 CG A:ASP485 3.2 28.5 1.0 OD2 A:ASP481 3.2 30.2 1.0 PB B:GTP3008 3.2 97.8 1.0 O2B B:GTP3008 3.3 98.3 1.0 PG B:GTP3008 3.3 98.2 1.0 OD1 A:ASP483 3.3 31.9 1.0 OD1 A:ASP485 3.5 29.1 1.0 O3B B:GTP3008 3.7 98.3 1.0 MN A:MN3010 3.9 48.0 1.0 O1G B:GTP3008 4.2 98.5 1.0 O3G B:GTP3008 4.3 98.4 1.0 CB A:ASP483 4.3 26.1 1.0 CB A:ASP485 4.5 26.3 1.0 O A:ASP481 4.6 26.9 1.0 N A:ASP485 4.6 25.7 1.0 N A:ASP483 4.6 27.1 1.0 N A:ASP481 4.6 25.6 1.0 CB A:ASP481 4.6 25.3 1.0 C A:ASP481 4.7 26.1 1.0 O3A B:GTP3008 4.7 99.0 1.0 C A:ASP483 4.8 26.0 1.0 CA A:ASP483 4.8 26.3 1.0 NZ B:LYS987 4.9 53.9 1.0 O A:ASP483 4.9 25.6 1.0 CA A:ASP481 4.9 25.8 1.0 CA A:ASP485 5.0 25.9 1.0

Manganese binding site 2 out of 2 in the Rna Polymerase II Complexed with Gtp


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 2 of Rna Polymerase II Complexed with Gtp within 5.0Å range: probe atom residue distance (Å) B Occ A:Mn3010 b:48.0 occ:1.00 O1B B:GTP3008 2.1 97.3 1.0 OD2 B:ASP837 2.4 38.6 1.0 OD1 A:ASP483 2.4 31.9 1.0 OD2 A:ASP481 2.5 30.2 1.0 O1A B:GTP3008 2.5 99.6 1.0 PB B:GTP3008 3.1 97.8 1.0 O3A B:GTP3008 3.2 99.0 1.0 PA B:GTP3008 3.4 99.8 1.0 CG A:ASP483 3.4 28.1 1.0 CG B:ASP837 3.5 37.2 1.0 NE2 B:GLN986 3.7 62.5 1.0 CG A:ASP481 3.8 29.3 1.0 OD2 A:ASP483 3.8 27.9 1.0 MN A:MN3009 3.9 36.2 1.0 CB B:ASP837 4.0 34.9 1.0 NH2 B:ARG1020 4.0 51.4 1.0 O2A B:GTP3008 4.1 0.6 1.0 O2B B:GTP3008 4.1 98.3 1.0 OD1 A:ASP481 4.2 33.3 1.0 O3B B:GTP3008 4.3 98.3 1.0 OE1 B:GLN986 4.3 63.9 1.0 CB A:ASP483 4.3 26.1 1.0 CD B:GLN986 4.4 59.8 1.0 OD1 B:ASP837 4.4 36.7 1.0 O5' B:GTP3008 4.7 0.7 1.0 O2G B:GTP3008 4.9 96.7 1.0

K.D.Westover, D.A.Bushnell, R.D.Kornberg. Structural Basis of Transcription: Nucleotide Selection By Rotation in the Rna Polymerase II Active Center. Cell(Cambridge,Mass.) V. 119 481 2004.
ISSN: ISSN 0092-8674
PubMed: 15537538
DOI: 10.1016/J.CELL.2004.10.016