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Zinc in PDB 6jcy: Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E

Enzymatic activity of Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E

All present enzymatic activity of Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E:
2.7.7.6;

Protein crystallography data

The structure of Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E, PDB code: 6jcy 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) 48.77 / 3.11
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 128.943, 163.005, 129.315, 90.00, 117.81, 90.00
R / Rfree (%) 19.5 / 23.8

Other elements in 6jcy:

The structure of Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E also contains other interesting chemical elements:

Magnesium (Mg) 1 atom

Zinc Binding Sites:

The binding sites of Zinc atom in the Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E (pdb code 6jcy). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E, PDB code: 6jcy:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6jcy

Go back to Zinc Binding Sites List in 6jcy
Zinc binding site 1 out of 2 in the Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2001

b:99.3
occ:1.00
 SG D:CYS968 2.2 89.6 1.0
SG D:CYS975 2.3 85.9 1.0
SG D:CYS978 2.3 94.2 1.0
SG D:CYS891 2.4 0.2 1.0
CB D:CYS978 2.6 98.2 1.0
CB D:CYS968 3.0 93.9 1.0
CA D:CYS968 3.3 94.2 1.0
CB D:CYS975 3.6 96.1 1.0
NH2 D:ARG963 3.7 94.2 1.0
CB D:CYS891 3.8 0.4 1.0
N D:ALA969 3.9 99.5 1.0
CA D:CYS978 4.0 98.5 1.0
C D:CYS968 4.1 95.9 1.0
OG1 D:THR970 4.1 95.0 1.0
N D:CYS975 4.2 95.0 1.0
N D:CYS978 4.2 99.9 1.0
CA D:CYS975 4.4 97.1 1.0
CG2 D:THR893 4.5 0.3 1.0
N D:CYS968 4.5 90.3 1.0
N D:CYS891 4.5 0.9 1.0
O D:CYS975 4.7 97.0 1.0
N D:THR970 4.7 94.3 1.0
CA D:CYS891 4.8 0.7 1.0
CZ D:ARG963 4.8 95.7 1.0
C D:CYS975 4.9 98.6 1.0

Zinc binding site 2 out of 2 in 6jcy

Go back to Zinc Binding Sites List in 6jcy
Zinc binding site 2 out of 2 in the Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Mycobacterium Tuberculosis Rna Polymerase Transcription Initiation Open Complex with A Chimeric Ecf Sigma Factor Sigh/E within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2002

b:0.7
occ:1.00
 SG D:CYS75 2.2 0.5 1.0
SG D:CYS62 2.3 0.1 1.0
SG D:CYS60 2.3 0.2 1.0
SG D:CYS78 2.3 1.0 1.0
CB D:CYS75 3.3 0.7 1.0
CB D:CYS60 3.4 0.1 1.0
N D:CYS62 3.4 0.6 1.0
CB D:CYS62 3.5 0.9 1.0
CB D:CYS78 3.6 0.7 1.0
CA D:CYS62 3.9 0.4 1.0
N D:CYS78 4.1 0.3 1.0
N D:TYR61 4.1 0.9 1.0
C D:CYS62 4.2 0.4 1.0
N D:GLY63 4.2 0.6 1.0
CB D:LYS64 4.2 0.6 1.0
N D:LYS64 4.3 0.2 1.0
CA D:CYS78 4.4 0.1 1.0
CB D:ARG77 4.5 0.9 1.0
C D:CYS60 4.5 0.4 1.0
C D:TYR61 4.5 0.6 1.0
CA D:CYS60 4.6 0.5 1.0
CA D:CYS75 4.7 0.1 1.0
CD2 D:TYR65 4.8 0.3 1.0
CA D:TYR61 4.8 0.3 1.0
CA D:LYS64 4.9 0.9 1.0
C D:ARG77 4.9 0.2 1.0
O D:CYS62 5.0 0.5 1.0

Reference:

C.Fang, L.Li, L.Shen, J.Shi, S.Wang, Y.Feng, Y.Zhang. Structures and Mechanism of Transcription Initiation By Bacterial Ecf Factors. Nucleic Acids Res. V. 47 7094 2019.
ISSN: ESSN 1362-4962
PubMed: 31131408
DOI: 10.1093/NAR/GKZ470
Page generated: Tue Oct 29 01:00:42 2024

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