Zinc in PDB 9msg: De Novo Sign Rna Polymerase Transcription Initiation Intermediate with Bound Sign-Rii

All present enzymatic activity of De Novo Sign Rna Polymerase Transcription Initiation Intermediate with Bound Sign-Rii:
2.7.7.6;

The structure of De Novo Sign Rna Polymerase Transcription Initiation Intermediate with Bound Sign-Rii also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Zinc atom in the De Novo Sign Rna Polymerase Transcription Initiation Intermediate with Bound Sign-Rii (pdb code 9msg). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the De Novo Sign Rna Polymerase Transcription Initiation Intermediate with Bound Sign-Rii, PDB code: 9msg:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the De Novo Sign Rna Polymerase Transcription Initiation Intermediate with Bound Sign-Rii


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of De Novo Sign Rna Polymerase Transcription Initiation Intermediate with Bound Sign-Rii within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn1503 b:73.5 occ:1.00 SG J:CYS72 2.1 60.7 1.0 SG J:CYS85 2.4 54.9 1.0 SG J:CYS88 2.4 52.0 1.0 SG J:CYS70 2.5 50.3 1.0 CB J:CYS85 3.1 43.6 1.0 CB J:CYS70 3.3 35.1 1.0 CB J:CYS72 3.6 44.7 1.0 CB J:CYS88 3.7 42.6 1.0 N J:CYS72 3.7 49.3 1.0 N J:GLY73 4.0 51.4 1.0 N J:CYS88 4.1 48.3 1.0 CA J:CYS72 4.1 44.5 1.0 N J:LEU71 4.3 37.1 1.0 N J:LYS74 4.3 45.8 1.0 CA J:CYS88 4.5 42.4 1.0 CA J:CYS70 4.5 32.8 1.0 C J:CYS70 4.5 37.1 1.0 CA J:CYS85 4.6 44.3 1.0 C J:CYS72 4.6 48.4 1.0 CB J:LYS74 4.6 53.1 1.0 CG J:LYS74 4.6 57.1 1.0 CB J:LYS87 4.7 52.2 1.0 C J:LEU71 4.8 44.3 1.0 CD1 J:TYR75 4.9 50.0 1.0 C J:LYS87 5.0 49.4 1.0

Zinc binding site 2 out of 2 in the De Novo Sign Rna Polymerase Transcription Initiation Intermediate with Bound Sign-Rii


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of De Novo Sign Rna Polymerase Transcription Initiation Intermediate with Bound Sign-Rii within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn1504 b:73.0 occ:1.00 SG J:CYS895 2.2 44.2 1.0 SG J:CYS898 2.2 54.5 1.0 SG J:CYS814 2.4 53.7 1.0 SG J:CYS888 2.4 51.3 1.0 CB J:CYS898 3.0 32.8 1.0 CB J:CYS888 3.5 40.7 1.0 CB J:CYS814 3.5 52.3 1.0 CB J:CYS895 3.6 38.1 1.0 NH2 J:ARG883 3.7 41.4 1.0 CA J:CYS888 3.9 40.5 1.0 N J:CYS898 4.1 33.5 1.0 CA J:CYS898 4.2 33.6 1.0 N J:CYS814 4.2 49.0 1.0 N J:CYS895 4.2 29.0 1.0 N J:ASP889 4.2 49.7 1.0 CA J:CYS895 4.4 30.1 1.0 CA J:CYS814 4.5 49.0 1.0 C J:CYS888 4.6 47.8 1.0 OG1 J:THR890 4.6 54.6 1.0 CZ J:ARG883 4.7 44.7 1.0 CG2 J:THR816 4.7 52.9 1.0 O J:CYS895 4.9 31.5 1.0 C J:CYS895 4.9 29.7 1.0 N J:THR890 5.0 49.8 1.0

A.U.Mueller, N.Molina, B.T.Nixon, S.A.Darst. Real-Time Capture of Sigma N Transcription Initiation Intermediates Reveals Mechanism of Atpase-Driven Activation By Limited Unfolding. Nat Commun V. 16 7138 2025.
ISSN: ESSN 2041-1723
PubMed: 40759887
DOI: 10.1038/S41467-025-61837-4