Magnesium in PDB 7oob: Pol II-Csb-Csa-DDB1-Uvssa-ADPBEF3 (STRUCTURE2)

All present enzymatic activity of Pol II-Csb-Csa-DDB1-Uvssa-ADPBEF3 (STRUCTURE2):
2.7.7.6;

The structure of Pol II-Csb-Csa-DDB1-Uvssa-ADPBEF3 (STRUCTURE2) also contains other interesting chemical elements:

Zinc	(Zn)	8 atoms
Fluorine	(F)	3 atoms

The binding sites of Magnesium atom in the Pol II-Csb-Csa-DDB1-Uvssa-ADPBEF3 (STRUCTURE2) (pdb code 7oob). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Pol II-Csb-Csa-DDB1-Uvssa-ADPBEF3 (STRUCTURE2), PDB code: 7oob:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in the Pol II-Csb-Csa-DDB1-Uvssa-ADPBEF3 (STRUCTURE2)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Pol II-Csb-Csa-DDB1-Uvssa-ADPBEF3 (STRUCTURE2) within 5.0Å range: probe atom residue distance (Å) B Occ A:Mg2003 b:10.3 occ:1.00 OD1 A:ASP495 1.9 8.5 1.0 OD1 A:ASP499 1.9 11.3 1.0 O3' P:A10 2.1 11.3 1.0 OD1 A:ASP497 2.1 9.1 1.0 OD2 A:ASP499 2.2 11.3 1.0 CG A:ASP499 2.3 11.3 1.0 HO2' P:A10 2.7 11.3 1.0 CG A:ASP495 3.0 8.5 1.0 CG A:ASP497 3.2 9.1 1.0 H A:ASP495 3.3 8.5 1.0 C3' P:A10 3.4 11.3 1.0 OD2 A:ASP497 3.5 9.1 1.0 O2' P:A10 3.5 11.3 1.0 H4' P:A10 3.5 11.3 1.0 OD2 A:ASP495 3.5 8.5 1.0 H A:ASP497 3.7 9.1 1.0 O A:ASP495 3.7 8.5 1.0 CB A:ASP499 3.8 11.3 1.0 C4' P:A10 3.9 11.3 1.0 HH21 A:ARG460 3.9 11.3 1.0 C2' P:A10 4.0 11.3 1.0 H A:ASP499 4.1 11.3 1.0 H3' P:A10 4.1 11.3 1.0 N A:ASP495 4.1 8.5 1.0 H5'' P:A10 4.1 11.3 1.0 C A:ASP495 4.2 8.5 1.0 HB2 A:ASP499 4.2 11.3 1.0 CB A:ASP495 4.3 8.5 1.0 HB3 A:ASP499 4.3 11.3 1.0 CA A:ASP495 4.4 8.5 1.0 N A:ASP499 4.4 11.3 1.0 HA A:ASP499 4.4 11.3 1.0 N A:ASP497 4.5 9.1 1.0 CA A:ASP499 4.5 11.3 1.0 H2' P:A10 4.5 11.3 1.0 CB A:ASP497 4.5 9.1 1.0 C5' P:A10 4.6 11.3 1.0 NH2 A:ARG460 4.6 11.3 1.0 O A:ASP497 4.6 9.1 1.0 HA A:ALA494 4.7 8.7 1.0 C A:ASP497 4.7 9.1 1.0 HE A:ARG460 4.7 11.3 1.0 HB2 A:ASP495 4.8 8.5 1.0 CA A:ASP497 4.8 9.1 1.0 HB3 A:ASP495 4.9 8.5 1.0 HB3 A:ASP497 5.0 9.1 1.0 HH22 A:ARG460 5.0 11.3 1.0

Magnesium binding site 2 out of 2 in the Pol II-Csb-Csa-DDB1-Uvssa-ADPBEF3 (STRUCTURE2)


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Pol II-Csb-Csa-DDB1-Uvssa-ADPBEF3 (STRUCTURE2) within 5.0Å range: probe atom residue distance (Å) B Occ b:Mg1503 b:12.1 occ:1.00 O3B b:ADP1501 2.0 11.3 1.0 F3 b:BEF1502 2.0 13.6 1.0 PB b:ADP1501 3.3 11.3 1.0 BE b:BEF1502 3.5 13.6 1.0 HA2 b:GLY920 3.6 13.0 1.0 OG1 b:THR539 3.6 9.2 1.0 O1B b:ADP1501 3.6 11.3 1.0 HG1 b:THR539 3.8 9.2 1.0 HA3 b:GLY920 3.9 13.0 1.0 O1A b:ADP1501 3.9 11.3 1.0 OD2 b:ASP646 3.9 11.3 1.0 OD1 b:ASP646 4.0 11.3 1.0 O3A b:ADP1501 4.1 11.3 1.0 HH12 b:ARG950 4.1 13.6 1.0 CA b:GLY920 4.2 13.0 1.0 O2A b:ADP1501 4.2 11.3 1.0 HE22 b:GLN580 4.2 10.2 1.0 O b:GLY920 4.2 13.0 1.0 HB2 b:LYS538 4.2 9.8 1.0 PA b:ADP1501 4.2 11.3 1.0 HE2 b:LYS538 4.2 9.8 1.0 HE21 b:GLN580 4.2 10.2 1.0 H b:THR539 4.2 9.2 1.0 F2 b:BEF1502 4.3 13.6 1.0 OE2 b:GLU647 4.3 12.5 1.0 F1 b:BEF1502 4.3 13.6 1.0 CG b:ASP646 4.4 11.3 1.0 O2B b:ADP1501 4.4 11.3 1.0 NE2 b:GLN580 4.6 10.2 1.0 H b:LYS538 4.6 9.8 1.0 C b:GLY920 4.7 13.0 1.0 HZ3 b:LYS538 4.7 9.8 1.0 NH1 b:ARG950 4.8 13.6 1.0 HH11 b:ARG950 4.8 13.6 1.0 HD12 b:LEU673 4.9 10.5 1.0 N b:THR539 4.9 9.2 1.0 CB b:THR539 4.9 9.2 1.0 HZ1 b:LYS538 4.9 9.8 1.0 CD b:GLU647 4.9 12.5 1.0 HE1 b:TRP581 4.9 9.5 1.0 HZ2 b:TRP581 4.9 9.5 1.0 HB b:THR539 4.9 9.2 1.0

G.Kokic, F.R.Wagner, A.Chernev, H.Urlaub, P.Cramer. Structural Basis of Human Transcription-Dna Repair Coupling. Nature 2021.
ISSN: ESSN 1476-4687
PubMed: 34526721
DOI: 10.1038/S41586-021-03906-4