Zinc in PDB 7ubm: Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex

All present enzymatic activity of Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex:
2.7.7.6;

The structure of Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex also contains other interesting chemical elements:

Magnesium

(Mg)

1 atom

The binding sites of Zinc atom in the Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex (pdb code 7ubm). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 3 binding sites of Zinc where determined in the Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex, PDB code: 7ubm:
Jump to Zinc binding site number: 1; 2; 3;

Zinc binding site 1 out of 3 in the Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1501 b:103.4 occ:1.00 SG D:CYS85 2.3 70.1 1.0 SG D:CYS72 2.3 68.1 1.0 SG D:CYS70 2.3 65.2 1.0 SG D:CYS88 2.3 64.0 1.0 CB D:CYS85 3.3 70.1 1.0 N D:CYS72 3.4 68.1 1.0 CB D:CYS70 3.4 65.2 1.0 CB D:CYS72 3.4 68.1 1.0 CB D:CYS88 3.6 64.0 1.0 CA D:CYS72 3.9 68.1 1.0 CB D:LYS74 4.0 68.5 1.0 N D:LEU71 4.0 64.0 1.0 N D:CYS88 4.1 64.0 1.0 N D:GLY73 4.2 65.9 1.0 C D:CYS72 4.3 68.1 1.0 N D:LYS74 4.3 68.5 1.0 CB D:LYS87 4.4 70.3 1.0 CA D:CYS88 4.4 64.0 1.0 C D:LEU71 4.5 64.0 1.0 C D:CYS70 4.5 65.2 1.0 CA D:CYS70 4.6 65.2 1.0 CA D:CYS85 4.6 70.1 1.0 O D:CYS85 4.7 70.1 1.0 CA D:LEU71 4.7 64.0 1.0 C D:LYS87 4.8 70.3 1.0 CA D:LYS74 4.8 68.5 1.0 C D:CYS85 4.9 70.1 1.0 CA D:LYS87 5.0 70.3 1.0

Zinc binding site 2 out of 3 in the Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1502 b:102.2 occ:1.00 SG D:CYS895 2.3 68.2 1.0 SG D:CYS898 2.3 69.5 1.0 SG D:CYS814 2.3 85.2 1.0 SG D:CYS888 2.3 75.6 1.0 CB D:CYS898 2.8 69.5 1.0 CB D:CYS814 3.1 85.2 1.0 CB D:CYS888 3.3 75.6 1.0 CB D:CYS895 3.3 68.2 1.0 CA D:CYS888 3.6 75.6 1.0 N D:ASP889 4.0 82.6 1.0 CA D:CYS898 4.0 69.5 1.0 N D:CYS895 4.0 68.2 1.0 N D:CYS898 4.0 69.5 1.0 N D:CYS814 4.1 85.2 1.0 CA D:CYS814 4.2 85.2 1.0 OG1 D:THR890 4.2 74.7 1.0 CA D:CYS895 4.2 68.2 1.0 C D:CYS888 4.3 75.6 1.0 NH2 D:ARG883 4.4 78.9 1.0 C D:CYS895 4.8 68.2 1.0 O D:CYS895 4.8 68.2 1.0 N D:CYS888 4.8 75.6 1.0 CG2 D:THR816 4.8 91.9 1.0 CZ D:ARG883 4.9 78.9 1.0

Zinc binding site 3 out of 3 in the Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Transcription Antitermination Complex: "Pre-Engaged" Qlambda-Loading Complex within 5.0Å range: probe atom residue distance (Å) B Occ Q:Zn1500 b:139.9 occ:1.00 SG Q:CYS147 2.3 129.6 1.0 SG Q:CYS121 2.3 99.3 1.0 SG Q:CYS144 2.3 125.9 1.0 SG Q:CYS118 2.3 101.8 1.0 CB Q:CYS121 2.7 99.3 1.0 CB Q:CYS118 3.1 101.8 1.0 CB Q:CYS147 3.2 129.6 1.0 CB Q:CYS144 3.4 125.9 1.0 N Q:CYS121 3.6 99.3 1.0 CA Q:CYS121 3.8 99.3 1.0 N Q:CYS147 3.8 129.6 1.0 CA Q:CYS147 4.1 129.6 1.0 C Q:CYS121 4.6 99.3 1.0 CA Q:GLY125 4.6 103.6 1.0 N Q:GLY125 4.6 103.6 1.0 CA Q:CYS118 4.6 101.8 1.0 CB Q:ARG146 4.7 130.5 1.0 O Q:GLY151 4.8 107.0 1.0 CA Q:CYS144 4.8 125.9 1.0 C Q:CYS147 4.9 129.6 1.0 C Q:ASP120 4.9 112.4 1.0 C Q:ARG146 4.9 130.5 1.0 N Q:HIS122 4.9 87.6 1.0

Z.Yin, J.G.Bird, J.T.Kaelber, B.E.Nickels, R.H.Ebright. In Transcription Antitermination By Q Lambda , Nusa Induces Refolding of Q Lambda to Form A Nozzle That Extends the Rna Polymerase Rna-Exit Channel. Proc.Natl.Acad.Sci.Usa V. 119 78119 2022.
ISSN: ESSN 1091-6490
PubMed: 35951650
DOI: 10.1073/PNAS.2205278119