Zinc in PDB 7pyk: Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa (Nusa Elongation Complex in More-Swiveled Conformation)

All present enzymatic activity of Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa (Nusa Elongation Complex in More-Swiveled Conformation):
2.7.7.6;

The structure of Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa (Nusa Elongation Complex in More-Swiveled Conformation) also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa (Nusa Elongation Complex in More-Swiveled Conformation) (pdb code 7pyk). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa (Nusa Elongation Complex in More-Swiveled Conformation), PDB code: 7pyk:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa (Nusa Elongation Complex in More-Swiveled Conformation)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa (Nusa Elongation Complex in More-Swiveled Conformation) within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1502 b:348.5 occ:1.00 N D:CYS72 2.0 300.4 1.0 N D:GLY73 2.3 291.9 1.0 SG D:CYS70 2.3 309.0 1.0 SG D:CYS72 2.3 300.4 1.0 CB D:CYS70 2.5 309.0 1.0 C D:CYS70 2.5 309.0 1.0 CA D:CYS72 2.6 300.4 1.0 N D:LEU71 2.7 296.4 1.0 C D:CYS72 2.8 300.4 1.0 CB D:CYS72 2.8 300.4 1.0 C D:LEU71 2.8 296.4 1.0 O D:CYS70 2.9 309.0 1.0 CA D:CYS70 3.0 309.0 1.0 SG D:CYS88 3.1 276.0 1.0 CA D:LEU71 3.3 296.4 1.0 CA D:GLY73 3.5 291.9 1.0 O D:LEU71 3.8 296.4 1.0 N D:CYS70 4.0 309.0 1.0 O D:CYS72 4.0 300.4 1.0 N D:LYS74 4.0 267.6 1.0 CB D:LEU71 4.3 296.4 1.0 C D:GLY73 4.3 291.9 1.0 CB D:CYS88 4.7 276.0 1.0

Zinc binding site 2 out of 2 in the Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa (Nusa Elongation Complex in More-Swiveled Conformation)


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryoem Structure of E.Coli Rna Polymerase Elongation Complex Bound to Nusa (Nusa Elongation Complex in More-Swiveled Conformation) within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1503 b:255.8 occ:1.00 SG D:CYS898 1.9 190.2 1.0 NH2 D:ARG883 2.1 193.6 1.0 SG D:CYS814 2.3 205.1 1.0 SG D:CYS895 2.4 198.2 1.0 CB D:CYS895 2.7 198.2 1.0 CB D:CYS898 3.3 190.2 1.0 CB D:CYS888 3.3 193.0 1.0 CB D:CYS814 3.4 205.1 1.0 CZ D:ARG883 3.4 193.6 1.0 CA D:CYS888 3.5 193.0 1.0 SG D:CYS888 3.6 193.0 1.0 N D:ASP889 3.7 210.7 1.0 OG1 D:THR890 3.9 197.9 1.0 CA D:CYS895 4.0 198.2 1.0 C D:CYS888 4.0 193.0 1.0 NE D:ARG883 4.1 193.6 1.0 N D:CYS895 4.1 198.2 1.0 N D:CYS814 4.2 205.1 1.0 NH1 D:ARG883 4.4 193.6 1.0 CA D:CYS814 4.4 205.1 1.0 CA D:CYS898 4.5 190.2 1.0 CA D:ASP889 4.8 210.7 1.0 N D:CYS898 4.8 190.2 1.0 N D:CYS888 4.9 193.0 1.0 C D:ASP889 4.9 210.7 1.0 OD1 D:ASP813 4.9 197.7 1.0 CG2 D:THR816 4.9 202.8 1.0 C D:CYS895 4.9 198.2 1.0 O D:CYS895 5.0 198.2 1.0

C.Zhu, X.Guo, P.Dumas, M.Takacs, M.Abdelkareem, A.Vanden Broeck, C.Saint-Andre, G.Papai, C.Crucifix, J.Ortiz, A.Weixlbaumer. Transcription Factors Modulate Rna Polymerase Conformational Equilibrium. Nat Commun V. 13 1546 2022.
ISSN: ESSN 2041-1723
PubMed: 35318334
DOI: 10.1038/S41467-022-29148-0