Zinc in PDB 6xll: Cryo-Em Structure of E. Coli Rnap-Promoter Initial Transcribing Complex with 5-Nt Rna Transcript (Rpitc-5NT)

All present enzymatic activity of Cryo-Em Structure of E. Coli Rnap-Promoter Initial Transcribing Complex with 5-Nt Rna Transcript (Rpitc-5NT):
2.7.7.6;

The structure of Cryo-Em Structure of E. Coli Rnap-Promoter Initial Transcribing Complex with 5-Nt Rna Transcript (Rpitc-5NT) also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Cryo-Em Structure of E. Coli Rnap-Promoter Initial Transcribing Complex with 5-Nt Rna Transcript (Rpitc-5NT) (pdb code 6xll). 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 Rnap-Promoter Initial Transcribing Complex with 5-Nt Rna Transcript (Rpitc-5NT), PDB code: 6xll:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of E. Coli Rnap-Promoter Initial Transcribing Complex with 5-Nt Rna Transcript (Rpitc-5NT)


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 Rnap-Promoter Initial Transcribing Complex with 5-Nt Rna Transcript (Rpitc-5NT) within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1502 b:119.8 occ:1.00 SG D:CYS85 2.1 103.4 1.0 SG D:CYS70 2.1 99.5 1.0 SG D:CYS72 2.2 103.5 1.0 CB D:CYS70 2.8 99.5 1.0 CB D:CYS85 2.9 103.4 1.0 SG D:CYS88 2.9 101.5 1.0 CB D:CYS72 3.9 103.5 1.0 O D:CYS88 3.9 101.5 1.0 N D:CYS72 4.0 103.5 1.0 N D:CYS88 4.0 101.5 1.0 CA D:CYS70 4.0 99.5 1.0 C D:CYS70 4.1 99.5 1.0 CD1 D:TYR75 4.2 104.4 1.0 CB D:LYS74 4.3 106.0 1.0 CB D:CYS88 4.3 101.5 1.0 N D:LEU71 4.3 97.4 1.0 CA D:CYS85 4.4 103.4 1.0 N D:LYS74 4.4 106.0 1.0 CA D:CYS72 4.4 103.5 1.0 CA D:CYS88 4.5 101.5 1.0 C D:CYS88 4.6 101.5 1.0 N D:GLY73 4.6 105.3 1.0 O D:CYS70 4.6 99.5 1.0 C D:CYS72 4.7 103.5 1.0 N D:TYR75 4.7 104.4 1.0 CB D:LYS87 4.8 105.7 1.0 CE1 D:TYR75 4.8 104.4 1.0 CA D:LYS74 4.8 106.0 1.0 C D:LYS87 4.9 105.7 1.0 C D:CYS85 5.0 103.4 1.0 N D:CYS70 5.0 99.5 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of E. Coli Rnap-Promoter Initial Transcribing Complex with 5-Nt Rna Transcript (Rpitc-5NT)


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 Rnap-Promoter Initial Transcribing Complex with 5-Nt Rna Transcript (Rpitc-5NT) within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1503 b:98.8 occ:1.00 SG D:CYS888 2.1 81.7 1.0 SG D:CYS814 2.1 84.5 1.0 SG D:CYS898 2.1 78.5 1.0 SG D:CYS895 2.2 76.5 1.0 CB D:CYS898 2.9 78.5 1.0 CB D:CYS888 3.2 81.7 1.0 CA D:CYS888 3.4 81.7 1.0 CB D:CYS814 3.6 84.5 1.0 CB D:CYS895 3.6 76.5 1.0 N D:ASP889 4.0 86.3 1.0 CA D:CYS898 4.1 78.5 1.0 N D:CYS898 4.1 78.5 1.0 C D:CYS888 4.2 81.7 1.0 CG2 D:THR816 4.2 89.5 1.0 N D:CYS814 4.3 84.5 1.0 N D:CYS895 4.3 76.5 1.0 NH2 D:ARG883 4.5 85.0 1.0 CA D:CYS895 4.5 76.5 1.0 CA D:CYS814 4.5 84.5 1.0 N D:CYS888 4.6 81.7 1.0 OG1 D:THR890 4.7 82.4 1.0 N D:THR890 4.8 82.4 1.0 O D:SER887 5.0 80.8 1.0 NE D:ARG883 5.0 85.0 1.0

Y.Yang, C.Liu, W.Shi, D.G.Schatz, Y.Hu, B.Liu. Structural Visualization of Bacterial Multidrug-Activated Transcription To Be Published.