Zinc in PDB 6dvd: Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Sigma Factor L) with 6 Nt Spacer and Bromine Labelled in Position "-11

Enzymatic activity of Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Sigma Factor L) with 6 Nt Spacer and Bromine Labelled in Position "-11

All present enzymatic activity of Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Sigma Factor L) with 6 Nt Spacer and Bromine Labelled in Position "-11:
2.7.7.6;

Protein crystallography data

The structure of Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Sigma Factor L) with 6 Nt Spacer and Bromine Labelled in Position "-11, PDB code: 6dvd was solved by W.Lin, K.Das, Y.Feng, R.H.Ebright, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.90 / 3.90
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 142.135, 161.485, 239.367, 90.00, 90.00, 90.00
R / Rfree (%) 22 / 24.6

Zinc Binding Sites:

The binding sites of Zinc atom in the Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Sigma Factor L) with 6 Nt Spacer and Bromine Labelled in Position "-11 (pdb code 6dvd). 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 Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Sigma Factor L) with 6 Nt Spacer and Bromine Labelled in Position "-11, PDB code: 6dvd:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 6dvd

Go back to Zinc Binding Sites List in 6dvd
Zinc binding site 1 out of 2 in the Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Sigma Factor L) with 6 Nt Spacer and Bromine Labelled in Position "-11


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 Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Sigma Factor L) with 6 Nt Spacer and Bromine Labelled in Position "-11 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2001

b:60.3
occ:1.00
SG D:CYS968 2.4 72.4 1.0
SG D:CYS978 2.4 74.9 1.0
SG D:CYS975 2.4 74.1 1.0
SG D:CYS891 2.5 85.1 1.0
CB D:CYS968 2.6 66.3 1.0
CB D:CYS978 2.8 69.8 1.0
CA D:CYS968 3.0 65.2 1.0
CB D:CYS975 3.7 76.4 1.0
CB D:CYS891 3.8 79.7 1.0
C D:CYS968 4.0 66.1 1.0
CA D:CYS978 4.1 68.3 1.0
N D:CYS968 4.2 64.9 1.0
N D:CYS975 4.2 60.7 1.0
N D:CYS978 4.2 64.2 1.0
N D:ALA969 4.2 75.7 1.0
NH2 D:ARG963 4.4 81.7 1.0
CA D:CYS975 4.5 68.2 1.0
OG1 D:THR970 4.5 72.8 1.0
N D:CYS891 4.5 80.6 1.0
O D:CYS975 4.7 59.4 1.0
OG1 D:THR893 4.7 84.4 1.0
CA D:CYS891 4.8 83.2 1.0
O D:SER964 4.8 82.0 1.0
O D:CYS968 4.9 64.8 1.0
C D:CYS975 4.9 65.5 1.0

Zinc binding site 2 out of 2 in 6dvd

Go back to Zinc Binding Sites List in 6dvd
Zinc binding site 2 out of 2 in the Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Sigma Factor L) with 6 Nt Spacer and Bromine Labelled in Position "-11


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 Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Sigma Factor L) with 6 Nt Spacer and Bromine Labelled in Position "-11 within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2002

b:68.3
occ:1.00
SG D:CYS62 2.4 55.6 1.0
SG D:CYS78 2.4 80.7 1.0
SG D:CYS60 2.5 92.3 1.0
CB D:CYS60 2.9 80.5 1.0
SG D:CYS75 2.9 65.0 1.0
N D:CYS62 3.3 74.0 1.0
CB D:CYS62 3.5 70.5 1.0
CB D:CYS78 3.6 75.3 1.0
CB D:CYS75 3.7 69.9 1.0
N D:TYR61 3.8 66.5 1.0
CA D:CYS62 3.9 73.3 1.0
N D:GLY63 4.1 87.2 1.0
CA D:CYS60 4.1 84.6 1.0
C D:CYS60 4.1 85.4 1.0
N D:LYS64 4.3 84.7 1.0
C D:CYS62 4.3 80.0 1.0
C D:TYR61 4.3 74.3 1.0
N D:CYS78 4.5 79.9 1.0
CA D:TYR61 4.5 67.3 1.0
CB D:LYS64 4.6 91.4 1.0
CD1 D:TYR65 4.6 87.2 1.0
CA D:CYS78 4.7 74.6 1.0
N D:TYR65 4.9 90.2 1.0
CA D:LYS64 5.0 86.4 1.0
CB D:TYR61 5.0 70.1 1.0
O D:CYS60 5.0 88.7 1.0

Reference:

W.Lin, S.Mandal, D.Degen, M.S.Cho, Y.Feng, K.Das, R.H.Ebright. Structural Basis of Ecf-Sigma-Factor-Dependent Transcription Initiation. Nat Commun V. 10 710 2019.
ISSN: ESSN 2041-1723
PubMed: 30755604
DOI: 10.1038/S41467-019-08443-3
Page generated: Wed Dec 16 11:41:16 2020

Last articles

Zn in 8WB0
Zn in 8WAX
Zn in 8WAU
Zn in 8WAZ
Zn in 8WAY
Zn in 8WAV
Zn in 8WAW
Zn in 8WAT
Zn in 8W7M
Zn in 8WD3
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy