Zinc in PDB 4lk0: Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex

All present enzymatic activity of Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex:
2.7.7.6;

The structure of Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex, PDB code: 4lk0 was solved by B.Bae, S.A.Darst, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	39.94 / 3.91
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	186.364, 206.283, 307.999, 90.00, 90.00, 90.00
R / Rfree (%)	21.9 / 26

The structure of Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex also contains other interesting chemical elements:

Magnesium

(Mg)

2 atoms

The binding sites of Zinc atom in the Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex (pdb code 4lk0). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex, PDB code: 4lk0:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in the Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1502 b:0.3 occ:1.00 SG D:CYS85 2.2 42.0 1.0 SG D:CYS70 2.2 54.1 1.0 SG D:CYS72 2.3 46.9 1.0 CB D:CYS85 3.1 82.7 1.0 SG D:CYS88 3.2 0.9 1.0 O D:CYS88 3.7 0.0 1.0 CB D:CYS72 3.7 0.8 1.0 CB D:CYS70 3.8 0.9 1.0 N D:CYS72 3.9 0.7 1.0 N D:CYS88 4.0 0.4 1.0 CB D:LYS87 4.2 0.9 1.0 N D:GLY73 4.2 0.6 1.0 CA D:CYS72 4.3 98.1 1.0 CB D:LYS74 4.3 80.1 1.0 N D:LYS74 4.3 96.9 1.0 C D:CYS88 4.5 0.5 1.0 CA D:CYS85 4.6 0.3 1.0 CB D:CYS88 4.6 0.3 1.0 CA D:CYS88 4.6 1.0 1.0 N D:LEU71 4.6 77.3 1.0 C D:CYS72 4.6 0.4 1.0 N D:LYS87 4.8 72.8 1.0 CA D:LYS87 4.9 0.1 1.0 CA D:LYS74 4.9 91.0 1.0 C D:CYS70 4.9 69.9 1.0 C D:LEU71 4.9 98.5 1.0 C D:LYS87 5.0 0.8 1.0 CA D:CYS70 5.0 77.5 1.0

Zinc binding site 2 out of 4 in the Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ D:Zn1503 b:36.1 occ:1.00 SG D:CYS888 2.3 28.5 1.0 SG D:CYS814 2.3 41.0 1.0 SG D:CYS898 2.3 44.1 1.0 SG D:CYS895 2.4 31.1 1.0 CB D:CYS898 2.9 65.7 1.0 CB D:CYS814 3.1 32.3 1.0 CB D:CYS888 3.2 46.9 1.0 CB D:CYS895 3.5 53.8 1.0 CA D:CYS888 3.7 37.9 1.0 NH2 D:ARG883 3.9 36.7 1.0 CA D:CYS898 4.1 46.0 1.0 N D:CYS814 4.2 35.1 1.0 N D:ASP889 4.2 62.5 1.0 N D:CYS895 4.2 44.4 1.0 OG1 D:THR890 4.2 56.5 1.0 CA D:CYS814 4.2 32.4 1.0 N D:CYS898 4.3 39.5 1.0 CA D:CYS895 4.3 57.1 1.0 C D:CYS888 4.4 65.2 1.0 O D:CYS895 4.6 48.4 1.0 CG2 D:THR816 4.7 57.7 1.0 N D:THR890 4.8 62.1 1.0 C D:CYS895 4.8 34.2 1.0 CZ D:ARG883 4.9 42.0 1.0 CB D:THR890 5.0 37.3 1.0 N D:CYS888 5.0 42.1 1.0

Zinc binding site 3 out of 4 in the Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn1502 b:71.3 occ:1.00 SG J:CYS85 2.2 37.5 1.0 SG J:CYS70 2.2 83.8 1.0 SG J:CYS72 2.3 63.4 1.0 CB J:CYS85 3.1 65.9 1.0 SG J:CYS88 3.2 0.7 1.0 O J:CYS88 3.7 0.4 1.0 CB J:CYS72 3.7 0.0 1.0 CB J:CYS70 3.8 0.3 1.0 N J:CYS72 3.9 96.8 1.0 N J:CYS88 4.0 0.1 1.0 CB J:LYS87 4.2 82.2 1.0 N J:GLY73 4.2 98.6 1.0 CB J:LYS74 4.3 0.2 1.0 CA J:CYS72 4.3 94.8 1.0 N J:LYS74 4.3 97.2 1.0 C J:CYS88 4.5 0.5 1.0 CA J:CYS85 4.6 76.2 1.0 CB J:CYS88 4.6 0.6 1.0 CA J:CYS88 4.6 0.9 1.0 C J:CYS72 4.7 0.3 1.0 N J:LEU71 4.7 69.6 1.0 N J:LYS87 4.8 72.8 1.0 CA J:LYS87 4.9 94.7 1.0 CA J:LYS74 4.9 0.8 1.0 C J:CYS70 4.9 76.0 1.0 C J:LYS87 5.0 0.4 1.0 C J:LEU71 5.0 93.5 1.0 CA J:CYS70 5.0 78.4 1.0

Zinc binding site 4 out of 4 in the Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure Analysis of the E.Coli Holoenzyme/T7 GP2 Complex within 5.0Å range: probe atom residue distance (Å) B Occ J:Zn1503 b:23.8 occ:1.00 SG J:CYS888 2.3 29.1 1.0 SG J:CYS898 2.3 67.1 1.0 SG J:CYS814 2.3 59.6 1.0 SG J:CYS895 2.4 31.5 1.0 CB J:CYS898 2.8 13.8 1.0 CB J:CYS814 3.1 41.5 1.0 CB J:CYS888 3.2 73.6 1.0 CB J:CYS895 3.5 58.9 1.0 CA J:CYS888 3.7 40.8 1.0 NH2 J:ARG883 3.9 33.5 1.0 CA J:CYS898 4.1 19.1 1.0 N J:CYS814 4.2 30.9 1.0 N J:ASP889 4.2 41.6 1.0 N J:CYS895 4.2 52.2 1.0 N J:CYS898 4.2 30.2 1.0 OG1 J:THR890 4.2 57.5 1.0 CA J:CYS814 4.2 40.7 1.0 CA J:CYS895 4.3 57.8 1.0 C J:CYS888 4.4 54.9 1.0 O J:CYS895 4.6 42.6 1.0 CG2 J:THR816 4.7 63.2 1.0 N J:THR890 4.8 58.3 1.0 C J:CYS895 4.8 36.1 1.0 CZ J:ARG883 4.8 36.9 1.0 CB J:THR890 5.0 40.2 1.0 N J:CYS888 5.0 36.1 1.0

B.Bae, E.Davis, D.Brown, E.A.Campbell, S.Wigneshweraraj, S.A.Darst. Phage T7 GP2 Inhibition of Escherichia Coli Rna Polymerase Involves Misappropriation of Sigma 70 Domain 1.1. Proc.Natl.Acad.Sci.Usa V. 110 19772 2013.
ISSN: ISSN 0027-8424
PubMed: 24218560
DOI: 10.1073/PNAS.1314576110