Zinc in PDB 6ri9: Cryo-Em Structure of E. Coli Rna Polymerase Backtracked Elongation Complex in Non-Swiveled State

All present enzymatic activity of Cryo-Em Structure of E. Coli Rna Polymerase Backtracked Elongation Complex in Non-Swiveled State:
2.7.7.6;

The structure of Cryo-Em Structure of E. Coli Rna Polymerase Backtracked Elongation Complex in Non-Swiveled State also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Cryo-Em Structure of E. Coli Rna Polymerase Backtracked Elongation Complex in Non-Swiveled State (pdb code 6ri9). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of E. Coli Rna Polymerase Backtracked Elongation Complex in Non-Swiveled State, PDB code: 6ri9:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of E. Coli Rna Polymerase Backtracked Elongation Complex in Non-Swiveled State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of E. Coli Rna Polymerase Backtracked Elongation Complex in Non-Swiveled State within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1501 b:0.2 occ:1.00 SG D:CYS88 2.3 0.9 1.0 SG D:CYS72 2.3 0.7 1.0 N D:CYS88 2.4 0.9 1.0 SG D:CYS85 2.5 0.7 1.0 CB D:CYS88 2.7 0.9 1.0 CB D:CYS72 2.7 0.7 1.0 CA D:CYS88 3.1 0.9 1.0 N D:CYS72 3.3 0.7 1.0 SG D:CYS70 3.3 0.1 1.0 CB D:LYS87 3.4 0.6 1.0 C D:LYS87 3.5 0.6 1.0 CA D:CYS72 3.6 0.7 1.0 CB D:CYS85 3.6 0.7 1.0 CA D:LYS87 3.8 0.6 1.0 C D:CYS88 4.0 0.9 1.0 N D:GLY89 4.1 0.4 1.0 N D:LYS87 4.1 0.6 1.0 C D:LEU71 4.5 0.3 1.0 O D:LYS87 4.5 0.6 1.0 C D:CYS72 4.6 0.7 1.0 CG D:LYS87 4.6 0.6 1.0 N D:LEU71 4.8 0.3 1.0 CD D:LYS87 4.9 0.6 1.0 CB D:LEU71 5.0 0.3 1.0 N D:GLU86 5.0 0.4 1.0 CA D:LEU71 5.0 0.3 1.0 CA D:CYS85 5.0 0.7 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of E. Coli Rna Polymerase Backtracked Elongation Complex in Non-Swiveled State


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of E. Coli Rna Polymerase Backtracked Elongation Complex in Non-Swiveled State within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1502 b:0.7 occ:1.00 SG D:CYS888 2.1 99.0 1.0 SG D:CYS898 2.2 92.6 1.0 SG D:CYS895 2.2 90.1 1.0 SG D:CYS814 2.5 98.2 1.0 CB D:CYS888 2.6 99.0 1.0 CB D:CYS898 2.8 92.6 1.0 CA D:CYS888 3.3 99.0 1.0 CB D:CYS814 3.4 98.2 1.0 NH2 D:ARG883 3.7 93.4 1.0 CB D:CYS895 3.7 90.1 1.0 N D:ASP889 4.0 0.3 1.0 CA D:CYS898 4.1 92.6 1.0 C D:CYS888 4.1 99.0 1.0 N D:CYS895 4.2 90.1 1.0 N D:CYS898 4.2 92.6 1.0 OG1 D:THR890 4.3 98.7 1.0 O D:CYS895 4.3 90.1 1.0 N D:CYS814 4.3 98.2 1.0 CA D:CYS895 4.4 90.1 1.0 N D:CYS888 4.4 99.0 1.0 CA D:CYS814 4.5 98.2 1.0 C D:CYS895 4.8 90.1 1.0 CZ D:ARG883 4.8 93.4 1.0 OG1 D:THR816 5.0 0.9 1.0

M.Abdelkareem, C.Saint-Andre, M.Takacs, G.Papai, C.Crucifix, X.Guo, J.Ortiz, A.Weixlbaumer. Structural Basis of Transcription: Rna Polymerase Backtracking and Its Reactivation. Mol.Cell V. 75 298 2019.
ISSN: ISSN 1097-2765
PubMed: 31103420
DOI: 10.1016/J.MOLCEL.2019.04.029