Magnesium in PDB 6pmj: SIGM28-Transcription Initiation Complex with Specific Promoter at the State 2

All present enzymatic activity of SIGM28-Transcription Initiation Complex with Specific Promoter at the State 2:
2.7.7.6;

The structure of SIGM28-Transcription Initiation Complex with Specific Promoter at the State 2 also contains other interesting chemical elements:

Zinc

(Zn)

2 atoms

The binding sites of Magnesium atom in the SIGM28-Transcription Initiation Complex with Specific Promoter at the State 2 (pdb code 6pmj). 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 SIGM28-Transcription Initiation Complex with Specific Promoter at the State 2, PDB code: 6pmj:

Magnesium binding site 1 out of 1 in the SIGM28-Transcription Initiation Complex with Specific Promoter at the State 2


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of SIGM28-Transcription Initiation Complex with Specific Promoter at the State 2 within 5.0Å range: probe atom residue distance (Å) B Occ D:Mg1503 b:20.0 occ:1.00 OD1 D:ASP460 2.1 20.0 1.0 OD1 D:ASP464 2.1 20.0 1.0 HO3' 3:C3 2.3 20.0 1.0 O3' 3:C3 2.7 20.0 1.0 OD1 D:ASP462 2.7 20.0 1.0 CG D:ASP464 2.8 20.0 1.0 OD2 D:ASP464 2.9 20.0 1.0 CG D:ASP460 3.0 20.0 1.0 OD2 D:ASP460 3.4 20.0 1.0 H D:ASP460 3.4 20.0 1.0 OD2 D:ASP462 3.4 20.0 1.0 CG D:ASP462 3.5 20.0 1.0 O D:ASP460 3.6 20.0 1.0 H4' 3:C3 3.6 20.0 1.0 HO2' 3:C3 3.7 20.0 1.0 O2' 3:C3 3.7 20.0 1.0 C3' 3:C3 3.8 20.0 1.0 HH21 D:ARG425 3.9 20.0 1.0 N D:ASP460 4.2 20.0 1.0 C4' 3:C3 4.2 20.0 1.0 CB D:ASP460 4.3 20.0 1.0 CB D:ASP464 4.3 20.0 1.0 C2' 3:C3 4.3 20.0 1.0 C D:ASP460 4.3 20.0 1.0 H D:ASP462 4.5 20.0 1.0 CA D:ASP460 4.5 20.0 1.0 HB3 D:ASP464 4.5 20.0 1.0 H3' 3:C3 4.6 20.0 1.0 NH2 D:ARG425 4.6 20.0 1.0 H5'' 3:C3 4.7 20.0 1.0 HB2 D:ASP460 4.7 20.0 1.0 HH22 D:ARG425 4.8 20.0 1.0 HB2 D:ASP464 4.8 20.0 1.0 HA D:ALA459 4.8 20.0 1.0 H2' 3:C3 4.8 20.0 1.0 H D:ASP464 4.9 20.0 1.0 C5' 3:C3 4.9 20.0 1.0 CB D:ASP462 4.9 20.0 1.0 H5' 3:C3 4.9 20.0 1.0 HB3 D:ASP460 4.9 20.0 1.0

W.Shi, W.Zhou, B.Zhang, S.Huang, Y.Jiang, A.Schammel, Y.Hu, B.Liu. Structural Basis of Bacterial SIGMA28-Mediated Transcription Reveals Roles of the Rna Polymerase Zinc-Binding Domain Embo J. 2020.
ISSN: ESSN 1460-2075
DOI: 10.15252/EMBJ.2020104389