Zinc in PDB 7eh0: Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp

Enzymatic activity of Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp

All present enzymatic activity of Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp:
2.7.7.6;

Protein crystallography data

The structure of Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp, PDB code: 7eh0 was solved by L.Li, Y.Zhang, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 48.75 / 2.81
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 183.784, 103.433, 295.626, 90, 98.95, 90
R / Rfree (%) 20.3 / 24.3

Other elements in 7eh0:

The structure of Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp also contains other interesting chemical elements:

Magnesium (Mg) 5 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp (pdb code 7eh0). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp, PDB code: 7eh0:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 7eh0

Go back to Zinc Binding Sites List in 7eh0
Zinc binding site 1 out of 2 in the Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2001

b:49.8
occ:1.00
SG D:CYS1194 2.2 42.1 1.0
SG D:CYS1204 2.3 38.3 1.0
SG D:CYS1112 2.3 41.8 1.0
SG D:CYS1201 2.3 39.7 1.0
CB D:CYS1194 3.1 42.5 1.0
CB D:CYS1204 3.2 40.0 1.0
CB D:CYS1112 3.4 38.0 1.0
CA D:CYS1194 3.5 40.6 1.0
CB D:CYS1201 3.5 43.5 1.0
N D:GLN1195 3.9 45.0 1.0
N D:CYS1112 4.0 44.7 1.0
NH2 D:ARG1189 4.1 45.5 1.0
OG1 D:THR1196 4.1 46.5 1.0
N D:CYS1201 4.2 43.2 1.0
C D:CYS1194 4.2 44.5 1.0
CA D:CYS1112 4.3 40.0 1.0
CG2 D:THR1114 4.3 43.6 1.0
CA D:CYS1201 4.4 44.9 1.0
CA D:CYS1204 4.4 42.7 1.0
N D:CYS1204 4.5 44.2 1.0
N D:THR1196 4.7 37.9 1.0
N D:CYS1194 4.7 39.4 1.0
CZ D:ARG1189 5.0 48.4 1.0

Zinc binding site 2 out of 2 in 7eh0

Go back to Zinc Binding Sites List in 7eh0
Zinc binding site 2 out of 2 in the Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Thermus Thermophilus Rna Polymerase Transcription Initiation Complex Containing A Template-Strand Purine at Position Tss-2, Upa Rna Primer and Cmpcpp within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2002

b:92.1
occ:1.00
SG D:CYS76 2.2 73.2 1.0
SG D:CYS73 2.3 91.5 1.0
SG D:CYS58 2.3 91.5 1.0
SG D:CYS60 2.3 81.8 1.0
CB D:CYS73 3.0 83.7 1.0
CB D:CYS58 3.1 81.5 1.0
CB D:CYS76 3.7 82.3 1.0
CB D:CYS60 3.8 75.0 1.0
N D:CYS60 3.9 85.2 1.0
N D:GLY61 4.0 78.2 1.0
N D:CYS76 4.1 90.3 1.0
N D:LYS62 4.2 90.0 1.0
N D:ALA59 4.3 70.7 1.0
CB D:LYS62 4.3 97.2 1.0
CA D:CYS60 4.3 85.5 1.0
CA D:CYS58 4.3 77.9 1.0
C D:CYS58 4.4 72.0 1.0
CA D:CYS76 4.4 87.1 1.0
CD2 D:TYR63 4.5 97.5 1.0
CA D:CYS73 4.5 82.1 1.0
C D:CYS60 4.7 82.4 1.0
CB D:ARG75 4.8 89.5 1.0
CA D:LYS62 4.8 95.3 1.0
CE2 D:TYR63 4.8 92.3 1.0
C D:ALA59 4.9 84.4 1.0
N D:GLY77 5.0 84.4 1.0

Reference:

K.S.Skalenko, L.Li, Y.Zhang, I.O.Vvedenskaya, J.T.Winkelman, A.L.Cope, D.M.Taylor, P.Shah, R.H.Ebright, J.B.Kinney, Y.Zhang, B.E.Nickels. Promoter-Sequence Determinants and Structural Basis of Primer-Dependent Transcription Initiation in Escherichia Coli . Proc.Natl.Acad.Sci.Usa V. 118 2021.
ISSN: ESSN 1091-6490
PubMed: 34187896
DOI: 10.1073/PNAS.2106388118
Page generated: Sun Aug 22 09:42:47 2021

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