Zinc in PDB 6rh3: Cryo-Em Structure of E. Coli Rna Polymerase Elongation Complex Bound to Ctp Substrate

All present enzymatic activity of Cryo-Em Structure of E. Coli Rna Polymerase Elongation Complex Bound to Ctp Substrate:
2.7.7.6;

The structure of Cryo-Em Structure of E. Coli Rna Polymerase Elongation Complex Bound to Ctp Substrate 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 Elongation Complex Bound to Ctp Substrate (pdb code 6rh3). 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 Elongation Complex Bound to Ctp Substrate, PDB code: 6rh3:
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 Elongation Complex Bound to Ctp Substrate


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 Elongation Complex Bound to Ctp Substrate within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1501 b:0.8 occ:1.00 SG D:CYS85 2.2 0.8 1.0 CB D:CYS72 2.3 0.9 1.0 SG D:CYS72 2.3 0.9 1.0 SG D:CYS88 2.3 0.0 1.0 SG D:CYS70 2.4 0.8 1.0 CB D:CYS85 2.5 0.8 1.0 N D:CYS72 3.0 0.9 1.0 CA D:CYS72 3.2 0.9 1.0 CB D:CYS88 3.8 0.0 1.0 CA D:CYS85 3.9 0.8 1.0 N D:CYS88 3.9 0.0 1.0 CB D:CYS70 4.0 0.8 1.0 N D:GLY89 4.0 0.7 1.0 C D:LEU71 4.2 0.0 1.0 C D:CYS72 4.3 0.9 1.0 N D:LEU71 4.3 0.0 1.0 CA D:CYS88 4.3 0.0 1.0 N D:GLY73 4.4 0.1 1.0 C D:CYS88 4.6 0.0 1.0 N D:GLU86 4.7 0.4 1.0 N D:VAL90 4.7 99.4 1.0 CA D:LEU71 4.7 0.0 1.0 N D:CYS85 4.7 0.8 1.0 N D:LYS87 4.8 0.6 1.0 C D:CYS85 4.8 0.8 1.0 C D:CYS70 4.8 0.8 1.0 CB D:LYS87 5.0 0.6 1.0 CA D:GLY89 5.0 0.7 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of E. Coli Rna Polymerase Elongation Complex Bound to Ctp Substrate


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 Elongation Complex Bound to Ctp Substrate within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1502 b:0.6 occ:1.00 SG D:CYS888 2.2 75.7 1.0 SG D:CYS814 2.2 78.8 1.0 SG D:CYS898 2.2 70.2 1.0 SG D:CYS895 2.2 69.9 1.0 CB D:CYS814 2.5 78.8 1.0 CB D:CYS898 3.1 70.2 1.0 CB D:CYS888 3.4 75.7 1.0 CB D:CYS895 3.5 69.9 1.0 NH2 D:ARG883 3.5 74.5 1.0 CA D:CYS814 3.8 78.8 1.0 CA D:CYS888 3.8 75.7 1.0 N D:CYS814 3.8 78.8 1.0 N D:ASP889 4.1 82.0 1.0 OG1 D:THR890 4.1 80.5 1.0 N D:CYS895 4.2 69.9 1.0 CA D:CYS898 4.3 70.2 1.0 C D:CYS888 4.4 75.7 1.0 CA D:CYS895 4.4 69.9 1.0 N D:CYS898 4.4 70.2 1.0 CZ D:ARG883 4.6 74.5 1.0 OG1 D:THR816 4.7 80.1 1.0 C D:CYS814 4.7 78.8 1.0 N D:GLY815 4.9 79.1 1.0 C D:CYS895 4.9 69.9 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