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

Enzymatic activity of Crystal Structure Analysis of the E.Coli Holoenzyme/GP2 Complex

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

Protein crystallography data

The structure of Crystal Structure Analysis of the E.Coli Holoenzyme/GP2 Complex, PDB code: 4llg 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) 45.21 / 3.79
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 187.510, 205.038, 308.797, 90.00, 90.00, 90.00
R / Rfree (%) 24.3 / 28.2

Other elements in 4llg:

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

Magnesium (Mg) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure Analysis of the E.Coli Holoenzyme/GP2 Complex (pdb code 4llg). 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/GP2 Complex, PDB code: 4llg:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 4llg

Go back to Zinc Binding Sites List in 4llg
Zinc binding site 1 out of 4 in the Crystal Structure Analysis of the E.Coli Holoenzyme/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/GP2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1502

b:0.0
occ:1.00
 SG D:CYS85 2.4 69.0 1.0
SG D:CYS72 2.4 46.6 1.0
SG D:CYS70 2.4 63.4 1.0
SG D:CYS88 2.7 0.2 1.0
CB D:CYS72 3.1 65.0 1.0
CB D:CYS85 3.2 37.5 1.0
O D:CYS88 3.3 81.2 1.0
N D:CYS72 3.5 75.1 1.0
N D:CYS88 3.7 0.9 1.0
CA D:CYS72 3.9 84.0 1.0
CB D:CYS88 4.1 0.9 1.0
C D:CYS88 4.2 85.4 1.0
CB D:LYS87 4.2 69.5 1.0
CB D:CYS70 4.2 75.9 1.0
CA D:CYS88 4.2 0.0 1.0
N D:LEU71 4.5 78.0 1.0
CA D:CYS85 4.6 64.8 1.0
N D:GLY73 4.6 0.8 1.0
C D:LEU71 4.7 74.0 1.0
C D:LYS87 4.7 0.9 1.0
C D:CYS72 4.7 91.7 1.0
CA D:LYS87 4.8 90.3 1.0
N D:LYS87 4.8 0.6 1.0
CB D:LYS74 4.9 93.8 1.0
C D:CYS85 4.9 85.3 1.0
CA D:LEU71 5.0 76.1 1.0

Zinc binding site 2 out of 4 in 4llg

Go back to Zinc Binding Sites List in 4llg
Zinc binding site 2 out of 4 in the Crystal Structure Analysis of the E.Coli Holoenzyme/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/GP2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn1503

b:0.7
occ:1.00
 SG D:CYS888 2.1 30.9 1.0
SG D:CYS814 2.1 35.6 1.0
SG D:CYS898 2.2 15.0 1.0
SG D:CYS895 2.2 28.6 1.0
CB D:CYS898 3.1 71.0 1.0
CB D:CYS888 3.2 43.0 1.0
CB D:CYS814 3.5 61.4 1.0
CA D:CYS888 3.6 51.1 1.0
CB D:CYS895 3.6 92.7 1.0
NH2 D:ARG883 3.9 78.1 1.0
N D:ASP889 4.1 64.2 1.0
CA D:CYS898 4.2 62.4 1.0
C D:CYS888 4.3 58.9 1.0
N D:CYS895 4.3 52.3 1.0
N D:CYS814 4.3 59.6 1.0
N D:CYS898 4.4 57.4 1.0
OG1 D:THR890 4.4 74.1 1.0
CA D:CYS895 4.5 59.9 1.0
CA D:CYS814 4.5 49.9 1.0
CG2 D:THR816 4.5 44.1 1.0
O D:CYS895 4.7 54.5 1.0
N D:THR890 4.7 66.1 1.0
CZ D:ARG883 4.8 57.3 1.0
N D:CYS888 4.8 43.9 1.0
NE D:ARG883 4.9 34.2 1.0
C D:CYS895 4.9 39.8 1.0

Zinc binding site 3 out of 4 in 4llg

Go back to Zinc Binding Sites List in 4llg
Zinc binding site 3 out of 4 in the Crystal Structure Analysis of the E.Coli Holoenzyme/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/GP2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1502

b:0.1
occ:1.00
 SG J:CYS85 2.4 46.6 1.0
SG J:CYS72 2.4 52.8 1.0
SG J:CYS70 2.4 62.0 1.0
SG J:CYS88 2.7 0.8 1.0
CB J:CYS72 3.1 76.8 1.0
CB J:CYS85 3.2 39.7 1.0
O J:CYS88 3.3 70.4 1.0
N J:CYS72 3.5 77.9 1.0
N J:CYS88 3.7 0.0 1.0
CA J:CYS72 3.9 84.9 1.0
CB J:CYS88 4.1 0.5 1.0
C J:CYS88 4.1 83.5 1.0
CB J:LYS87 4.2 73.2 1.0
CB J:CYS70 4.2 83.5 1.0
CA J:CYS88 4.2 0.9 1.0
N J:LEU71 4.5 76.6 1.0
CA J:CYS85 4.6 61.6 1.0
N J:GLY73 4.6 0.3 1.0
C J:LEU71 4.7 75.3 1.0
C J:LYS87 4.7 0.1 1.0
C J:CYS72 4.7 96.3 1.0
CA J:LYS87 4.8 95.8 1.0
N J:LYS87 4.8 0.9 1.0
CB J:LYS74 4.9 99.5 1.0
C J:CYS85 4.9 83.7 1.0
CA J:LEU71 5.0 71.3 1.0

Zinc binding site 4 out of 4 in 4llg

Go back to Zinc Binding Sites List in 4llg
Zinc binding site 4 out of 4 in the Crystal Structure Analysis of the E.Coli Holoenzyme/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/GP2 Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Zn1503

b:57.8
occ:1.00
 SG J:CYS898 2.0 39.3 1.0
SG J:CYS814 2.1 53.4 1.0
SG J:CYS888 2.2 52.8 1.0
SG J:CYS895 2.2 33.3 1.0
CB J:CYS898 3.1 63.0 1.0
CB J:CYS888 3.3 45.1 1.0
CB J:CYS814 3.4 56.6 1.0
CB J:CYS895 3.6 85.2 1.0
CA J:CYS888 3.6 41.3 1.0
NH2 J:ARG883 3.9 76.2 1.0
N J:ASP889 4.1 45.3 1.0
CA J:CYS898 4.2 64.7 1.0
N J:CYS814 4.3 48.2 1.0
C J:CYS888 4.3 51.6 1.0
N J:CYS895 4.3 53.3 1.0
OG1 J:THR890 4.3 67.2 1.0
N J:CYS898 4.4 45.0 1.0
CA J:CYS814 4.4 50.5 1.0
CA J:CYS895 4.5 57.3 1.0
CG2 J:THR816 4.5 48.0 1.0
O J:CYS895 4.7 49.0 1.0
N J:THR890 4.7 51.1 1.0
CZ J:ARG883 4.8 61.6 1.0
N J:CYS888 4.8 40.1 1.0
NE J:ARG883 4.9 46.8 1.0
C J:CYS895 4.9 44.0 1.0
CB J:THR890 5.0 50.5 1.0

Reference:

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
Page generated: Wed Dec 16 05:33:34 2020

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