Zinc in PDB 8rec: Cryo-Em Structure of Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 7NT Complex

All present enzymatic activity of Cryo-Em Structure of Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 7NT Complex:
2.7.7.6;

The structure of Cryo-Em Structure of Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 7NT 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 - 7NT Complex (pdb code 8rec). 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 - 7NT Complex, PDB code: 8rec:
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 - 7NT 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 - 7NT Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1502 b:82.1 occ:1.00 O D:LEU71 2.1 50.8 1.0 SG D:CYS70 2.3 53.3 1.0 SG D:CYS88 2.3 55.1 1.0 CB D:CYS85 3.2 52.8 1.0 C D:LEU71 3.3 50.8 1.0 N D:LEU71 3.8 50.8 1.0 CB D:CYS70 3.9 53.3 1.0 CB D:CYS88 4.0 55.1 1.0 CA D:LEU71 4.0 50.8 1.0 CB D:LYS74 4.2 51.9 1.0 C D:CYS70 4.2 53.3 1.0 N D:CYS88 4.2 55.1 1.0 O D:CYS88 4.3 55.1 1.0 CB D:CYS72 4.3 56.6 1.0 SG D:CYS72 4.3 56.6 1.0 N D:CYS72 4.3 56.6 1.0 CB D:LEU71 4.4 50.8 1.0 N D:LYS74 4.5 51.9 1.0 CA D:CYS88 4.6 55.1 1.0 CA D:CYS85 4.7 52.8 1.0 CA D:CYS70 4.7 53.3 1.0 O D:CYS70 4.7 53.3 1.0 CA D:CYS72 4.7 56.6 1.0 CB D:LYS87 4.8 55.2 1.0 C D:CYS88 4.8 55.1 1.0 N D:GLY73 4.9 51.0 1.0 CB D:VAL90 5.0 49.3 1.0 CA D:LYS74 5.0 51.9 1.0

Zinc binding site 2 out of 2 in the Cryo-Em Structure of Bacterial Rna Polymerase-SIGMA54 Initial Transcribing Complex - 7NT 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 - 7NT Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1503 b:56.8 occ:1.00 SG D:CYS898 2.3 31.0 1.0 O D:CYS888 2.4 33.8 1.0 CB D:CYS895 2.7 25.1 1.0 CA D:CYS888 2.9 33.8 1.0 C D:CYS888 3.0 33.8 1.0 CB D:CYS888 3.1 33.8 1.0 CB D:CYS814 3.2 41.4 1.0 CB D:CYS898 3.5 31.0 1.0 N D:CYS895 3.9 25.1 1.0 CA D:CYS895 3.9 25.1 1.0 SG D:CYS814 4.2 41.4 1.0 N D:CYS888 4.3 33.8 1.0 N D:CYS814 4.3 41.4 1.0 N D:ASP889 4.3 41.0 1.0 CG2 D:THR890 4.3 36.7 1.0 CA D:CYS814 4.3 41.4 1.0 NH2 D:ARG883 4.4 36.2 1.0 CG2 D:THR816 4.5 45.1 1.0 O D:SER887 4.6 28.7 1.0 N D:CYS898 4.6 31.0 1.0 N D:THR890 4.6 36.7 1.0 CA D:CYS898 4.7 31.0 1.0 CB D:THR890 4.8 36.7 1.0 C D:CYS895 4.8 25.1 1.0 C D:SER887 4.9 28.7 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