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Zinc in PDB 4g7z: Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1

Enzymatic activity of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1

All present enzymatic activity of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1:
2.7.7.6;

Protein crystallography data

The structure of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1, PDB code: 4g7z was solved by Y.Zhang, R.H.Ebright, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.85 / 3.81
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 185.465, 103.590, 296.507, 90.00, 98.53, 90.00
R / Rfree (%) 17.6 / 23.2

Other elements in 4g7z:

The structure of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1 also contains other interesting chemical elements:

Bromine (Br) 2 atoms
Magnesium (Mg) 2 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1 (pdb code 4g7z). 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 of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1, PDB code: 4g7z:
Jump to Zinc binding site number: 1; 2; 3; 4;

Zinc binding site 1 out of 4 in 4g7z

Go back to Zinc Binding Sites List in 4g7z
Zinc binding site 1 out of 4 in the Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2001

b:0.1
occ:1.00
 SG D:CYS1201 2.0 0.3 1.0
SG D:CYS1204 2.1 0.2 1.0
SG D:CYS1112 2.3 0.3 1.0
SG D:CYS1194 2.4 0.4 1.0
CB D:CYS1204 2.7 0.2 1.0
CB D:CYS1194 3.3 0.6 1.0
CB D:CYS1201 3.4 0.6 1.0
N D:CYS1204 3.5 0.8 1.0
CA D:CYS1204 3.6 1.0 1.0
NH2 D:ARG1189 3.8 1.0 1.0
CG2 D:THR1114 4.0 0.2 1.0
O D:CYS1201 4.0 0.4 1.0
CB D:CYS1112 4.1 0.7 1.0
NE D:ARG1189 4.1 0.3 1.0
CA D:CYS1194 4.2 0.0 1.0
N D:CYS1112 4.2 0.2 1.0
CA D:CYS1201 4.3 0.9 1.0
N D:CYS1201 4.3 0.5 1.0
CZ D:ARG1189 4.5 0.4 1.0
C D:CYS1201 4.5 0.9 1.0
C D:LYS1203 4.5 0.3 1.0
OD1 D:ASP1111 4.5 0.3 1.0
CA D:CYS1112 4.8 0.3 1.0
CB D:LYS1203 4.9 0.7 1.0

Zinc binding site 2 out of 4 in 4g7z

Go back to Zinc Binding Sites List in 4g7z
Zinc binding site 2 out of 4 in the Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2002

b:0.2
occ:1.00
 SG D:CYS76 2.1 0.1 1.0
SG D:CYS73 2.4 0.2 1.0
SG D:CYS58 2.4 0.8 1.0
SG D:CYS60 2.4 0.9 1.0
CB D:CYS58 3.2 0.8 1.0
CB D:CYS76 3.2 0.4 1.0
CB D:CYS73 3.3 0.8 1.0
N D:CYS60 3.4 0.1 1.0
CB D:CYS60 3.7 0.5 1.0
CA D:CYS60 3.9 0.2 1.0
N D:ALA59 4.0 0.3 1.0
C D:CYS58 4.1 0.5 1.0
N D:CYS76 4.1 0.6 1.0
CB D:LYS62 4.1 0.6 1.0
N D:LYS62 4.2 1.0 1.0
N D:GLY61 4.2 0.5 1.0
CA D:CYS58 4.2 0.4 1.0
CA D:CYS76 4.3 0.1 1.0
C D:CYS60 4.3 0.8 1.0
CD2 D:TYR63 4.4 0.9 1.0
C D:ALA59 4.5 0.6 1.0
CA D:ALA59 4.6 0.6 1.0
O D:CYS58 4.6 0.1 1.0
CA D:LYS62 4.7 0.6 1.0
CA D:CYS73 4.7 0.8 1.0
N D:TYR63 4.8 0.0 1.0
CB D:ARG75 4.9 1.0 1.0

Zinc binding site 3 out of 4 in 4g7z

Go back to Zinc Binding Sites List in 4g7z
Zinc binding site 3 out of 4 in the Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 3 of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1 within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn2001

b:0.5
occ:1.00
 SG N:CYS1201 2.1 0.8 1.0
SG N:CYS1194 2.2 0.9 1.0
SG N:CYS1112 2.2 0.2 1.0
SG N:CYS1204 2.2 0.4 1.0
CB N:CYS1112 3.0 0.1 1.0
CB N:CYS1201 3.3 0.6 1.0
CB N:CYS1194 3.5 0.5 1.0
CA N:CYS1194 3.5 0.3 1.0
N N:GLN1195 3.7 0.0 1.0
N N:CYS1112 3.7 0.8 1.0
CG2 N:THR1114 3.7 0.9 1.0
CA N:CYS1112 3.9 0.0 1.0
OG1 N:THR1196 3.9 0.5 1.0
CB N:CYS1204 3.9 0.6 1.0
C N:CYS1194 4.1 0.5 1.0
NH2 N:ARG1189 4.2 0.2 1.0
CB N:THR1114 4.3 0.5 1.0
N N:CYS1201 4.4 0.3 1.0
CA N:CYS1201 4.5 0.9 1.0
C N:CYS1112 4.5 0.6 1.0
N N:THR1196 4.5 0.1 1.0
N N:GLY1113 4.6 0.4 1.0
N N:THR1114 4.6 0.9 1.0
OD1 N:ASP1111 4.6 0.7 1.0
N N:CYS1194 4.8 0.3 1.0
CA N:GLN1195 4.8 0.4 1.0
N N:CYS1204 4.9 0.3 1.0
C N:ASP1111 4.9 0.3 1.0
CA N:CYS1204 5.0 0.2 1.0

Zinc binding site 4 out of 4 in 4g7z

Go back to Zinc Binding Sites List in 4g7z
Zinc binding site 4 out of 4 in the Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 4 of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Containing 5-Bru at Template-Strand Position +1 within 5.0Å range:
probe atom residue distance (Å) B Occ
N:Zn2002

b:0.5
occ:1.00
 SG N:CYS73 2.2 0.7 1.0
SG N:CYS58 2.3 1.0 1.0
SG N:CYS60 2.4 0.3 1.0
SG N:CYS76 2.4 1.0 1.0
CB N:CYS73 2.8 0.6 1.0
CB N:CYS58 3.0 0.2 1.0
CB N:LYS62 3.8 1.0 1.0
CB N:CYS60 3.9 0.8 1.0
CB N:CYS76 4.0 0.7 1.0
N N:LYS62 4.0 0.8 1.0
N N:CYS60 4.0 0.4 1.0
N N:CYS76 4.2 0.5 1.0
N N:GLY61 4.2 0.4 1.0
CA N:CYS73 4.3 0.2 1.0
CA N:CYS60 4.4 0.9 1.0
CA N:CYS58 4.4 0.6 1.0
CA N:LYS62 4.5 0.0 1.0
C N:CYS58 4.5 0.2 1.0
C N:CYS60 4.6 0.8 1.0
N N:ALA59 4.6 0.6 1.0
CB N:ARG75 4.6 0.0 1.0
CD2 N:TYR63 4.7 0.4 1.0
CA N:CYS76 4.7 0.3 1.0
N N:TYR63 4.7 0.6 1.0
C N:CYS73 4.9 0.2 1.0
CG N:LYS62 5.0 0.8 1.0

Reference:

Y.Zhang, Y.Feng, S.Chatterjee, S.Tuske, M.X.Ho, E.Arnold, R.H.Ebright. Structural Basis of Transcription Initiation. Science V. 338 1076 2012.
ISSN: ISSN 0036-8075
PubMed: 23086998
DOI: 10.1126/SCIENCE.1227786
Page generated: Sat Oct 26 23:08:24 2024

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