Zinc in PDB 8rea: Cryo-Em Structure of Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 5NT Post-Translocated Complex

All present enzymatic activity of Cryo-Em Structure of Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 5NT Post-Translocated Complex:
2.7.7.6;

The structure of Cryo-Em Structure of Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 5NT Post-Translocated Complex also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Cryo-Em Structure of Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 5NT Post-Translocated Complex (pdb code 8rea). 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 Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 5NT Post-Translocated Complex, PDB code: 8rea:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Cryo-Em Structure of Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 5NT Post-Translocated Complex


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 Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 5NT Post-Translocated Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1502 b:42.3 occ:1.00 SG D:CYS88 2.3 28.1 1.0 SG D:CYS70 2.3 25.4 1.0 O D:LEU71 2.5 26.9 1.0 CB D:CYS85 2.9 23.6 1.0 CB D:CYS70 3.5 25.4 1.0 C D:LEU71 3.6 26.9 1.0 N D:LEU71 3.8 26.9 1.0 CB D:CYS88 4.0 28.1 1.0 C D:CYS70 4.1 25.4 1.0 CA D:LEU71 4.2 26.9 1.0 O D:CYS88 4.3 28.1 1.0 CA D:CYS85 4.4 23.6 1.0 CB D:LYS74 4.4 26.4 1.0 CA D:CYS70 4.4 25.4 1.0 N D:LYS74 4.5 26.4 1.0 N D:CYS88 4.5 28.1 1.0 CB D:LEU71 4.6 26.9 1.0 O D:CYS70 4.6 25.4 1.0 CB D:CYS72 4.7 33.7 1.0 CA D:CYS88 4.7 28.1 1.0 N D:CYS72 4.7 33.7 1.0 CB D:VAL90 4.8 24.8 1.0 C D:CYS88 4.8 28.1 1.0 O D:VAL90 4.8 24.8 1.0 N D:CYS85 4.8 23.6 1.0 N D:GLY73 4.8 26.4 1.0 N D:TYR75 4.9 27.6 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 5NT Post-Translocated Complex


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 Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 5NT Post-Translocated Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1503 b:38.8 occ:1.00 SG D:CYS814 2.3 22.5 1.0 SG D:CYS898 2.3 14.5 1.0 CB D:CYS888 2.5 18.8 1.0 CA D:CYS888 2.7 18.8 1.0 CB D:CYS898 2.9 14.5 1.0 O D:CYS888 3.0 18.8 1.0 CB D:CYS895 3.2 9.1 1.0 C D:CYS888 3.3 18.8 1.0 CB D:CYS814 3.4 22.5 1.0 N D:CYS895 3.9 9.1 1.0 N D:CYS888 4.0 18.8 1.0 CA D:CYS895 4.1 9.1 1.0 CA D:CYS898 4.2 14.5 1.0 N D:CYS898 4.3 14.5 1.0 N D:ASP889 4.6 23.1 1.0 CA D:CYS814 4.6 22.5 1.0 N D:CYS814 4.7 22.5 1.0 O D:SER887 4.7 17.4 1.0 CG2 D:THR816 4.7 24.5 1.0 C D:SER887 4.8 17.4 1.0 C D:CYS895 4.9 9.1 1.0 O D:CYS895 4.9 9.1 1.0 NH2 D:ARG883 5.0 18.4 1.0

F.Gao, F.Ye, B.Zhang, N.Cronin, M.Buck, X.Zhang. Structural Basis of Sigma 54 Displacement and Promoter Escape in Bacterial Transcription. Proc.Natl.Acad.Sci.Usa V. 121 70120 2024.
ISSN: ESSN 1091-6490
PubMed: 38170755
DOI: 10.1073/PNAS.2309670120