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Zinc in PDB 6lts: Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Comprising A Truncated Sigma Finger

Enzymatic activity of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Comprising A Truncated Sigma Finger

All present enzymatic activity of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Comprising A Truncated Sigma Finger:
2.7.7.6;

Protein crystallography data

The structure of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Comprising A Truncated Sigma Finger, PDB code: 6lts 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) 44.23 / 3.45
Space group C 1 2 1
Cell size a, b, c (Å), α, β, γ (°) 183.698, 103.847, 295.410, 90.00, 98.61, 90.00
R / Rfree (%) 22 / 25.8

Other elements in 6lts:

The structure of Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Comprising A Truncated Sigma Finger also contains other interesting chemical elements:

Magnesium (Mg) 5 atoms

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Comprising A Truncated Sigma Finger (pdb code 6lts). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Comprising A Truncated Sigma Finger, PDB code: 6lts:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6lts

Go back to Zinc Binding Sites List in 6lts
Zinc binding site 1 out of 2 in the Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Comprising A Truncated Sigma Finger


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 Comprising A Truncated Sigma Finger within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2001

b:60.5
occ:1.00
SG D:CYS1201 2.4 58.1 1.0
SG D:CYS1204 2.4 86.1 1.0
SG D:CYS1112 2.4 57.4 1.0
SG D:CYS1194 2.5 73.5 1.0
CB D:CYS1204 3.2 69.3 1.0
CB D:CYS1194 3.4 64.0 1.0
CB D:CYS1112 3.6 67.3 1.0
CA D:CYS1194 3.6 57.7 1.0
CB D:CYS1201 3.7 67.2 1.0
OG1 D:THR1196 3.8 72.3 1.0
NH2 D:ARG1189 4.1 62.1 1.0
N D:GLN1195 4.1 59.5 1.0
CG2 D:THR1114 4.2 68.8 1.0
N D:CYS1112 4.2 69.3 1.0
N D:CYS1201 4.2 65.2 1.0
N D:CYS1204 4.3 66.2 1.0
C D:CYS1194 4.3 59.5 1.0
CA D:CYS1204 4.4 68.8 1.0
CA D:CYS1112 4.5 70.1 1.0
CA D:CYS1201 4.5 70.1 1.0
N D:THR1196 4.7 59.4 1.0
N D:CYS1194 4.8 57.4 1.0
OD1 D:ASP1111 4.9 71.3 1.0
CB D:THR1196 5.0 60.5 1.0

Zinc binding site 2 out of 2 in 6lts

Go back to Zinc Binding Sites List in 6lts
Zinc binding site 2 out of 2 in the Crystal Structure of Thermus Thermophilus Transcription Initiation Complex Comprising A Truncated Sigma Finger


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 Comprising A Truncated Sigma Finger within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2002

b:0.4
occ:1.00
SG D:CYS76 2.3 97.4 1.0
SG D:CYS60 2.3 89.9 1.0
SG D:CYS73 2.4 0.5 1.0
SG D:CYS58 2.9 0.1 1.0
CB D:CYS73 3.1 98.5 1.0
CB D:CYS58 3.3 0.5 1.0
CB D:CYS76 3.5 84.8 1.0
CB D:CYS60 3.7 94.1 1.0
N D:CYS76 3.8 0.1 1.0
N D:CYS60 3.8 0.7 1.0
CB D:LYS62 4.0 0.7 1.0
N D:LYS62 4.0 0.1 1.0
N D:GLY61 4.1 0.9 1.0
CA D:CYS60 4.3 98.1 1.0
CA D:CYS76 4.3 98.2 1.0
N D:ALA59 4.3 94.1 1.0
CB D:ARG75 4.5 0.6 1.0
CA D:CYS58 4.5 0.4 1.0
C D:CYS58 4.6 99.2 1.0
CA D:CYS73 4.6 0.6 1.0
C D:CYS60 4.6 0.7 1.0
CA D:LYS62 4.6 0.5 1.0
C D:ALA59 4.8 0.9 1.0
CD2 D:TYR63 4.8 0.1 1.0
N D:GLY77 4.9 93.3 1.0
C D:ARG75 4.9 0.2 1.0
CA D:ALA59 5.0 95.0 1.0

Reference:

L.Li, V.Molodtsov, W.Lin, R.H.Ebright, Y.Zhang. Rna Extension Drives A Stepwise Displacement of An Initiation-Factor Structural Module in Initial Transcription Proc.Natl.Acad.Sci.Usa 2020.
ISSN: ESSN 1091-6490
DOI: 10.1073/PNAS.1920747117
Page generated: Wed Dec 16 12:16:59 2020

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