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Zinc in PDB 6dve: Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Selenomethionine-Labelled Sigma Factor L) with 6 Nt Spacer

Enzymatic activity of Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Selenomethionine-Labelled Sigma Factor L) with 6 Nt Spacer

All present enzymatic activity of Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Selenomethionine-Labelled Sigma Factor L) with 6 Nt Spacer:
2.7.7.6;

Protein crystallography data

The structure of Crystal Structure of Mycobacterium Tuberculosis Transcription Initiation Complex(Ecf Selenomethionine-Labelled Sigma Factor L) with 6 Nt Spacer, PDB code: 6dve 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) 46.68 / 3.81
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 142.762, 160.613, 240.181, 90.00, 90.00, 90.00
R / Rfree (%) 20 / 24.8

Zinc Binding Sites:

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

Zinc binding site 1 out of 2 in 6dve

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


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 Selenomethionine-Labelled Sigma Factor L) with 6 Nt Spacer within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2001

b:57.6
occ:1.00
 SG D:CYS968 2.4 82.0 1.0
SG D:CYS978 2.4 86.8 1.0
SG D:CYS975 2.4 63.9 1.0
SG D:CYS891 2.4 0.4 1.0
CB D:CYS968 2.6 67.0 1.0
CB D:CYS978 2.8 84.4 1.0
CA D:CYS968 3.1 57.8 1.0
CB D:CYS891 3.5 75.2 1.0
CB D:CYS975 3.8 76.8 1.0
C D:CYS968 4.0 58.0 1.0
CA D:CYS978 4.1 80.4 1.0
N D:CYS968 4.2 65.0 1.0
N D:CYS975 4.2 62.8 1.0
N D:CYS978 4.2 66.6 1.0
N D:ALA969 4.3 79.4 1.0
N D:CYS891 4.4 87.1 1.0
CA D:CYS975 4.5 68.2 1.0
NH2 D:ARG963 4.6 79.8 1.0
CA D:CYS891 4.6 78.6 1.0
O D:CYS975 4.7 78.9 1.0
OG1 D:THR893 4.7 77.8 1.0
OG1 D:THR970 4.7 76.6 1.0
O D:SER964 4.7 72.9 1.0
C D:CYS975 4.9 63.5 1.0
O D:CYS968 4.9 65.3 1.0

Zinc binding site 2 out of 2 in 6dve

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


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 Selenomethionine-Labelled Sigma Factor L) with 6 Nt Spacer within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Zn2002

b:82.3
occ:1.00
 SG D:CYS62 2.4 33.4 1.0
SG D:CYS78 2.4 90.7 1.0
SG D:CYS75 2.5 1.0 1.0
SG D:CYS60 2.6 0.9 1.0
CB D:CYS60 3.0 84.0 1.0
CB D:CYS75 3.2 31.9 1.0
N D:CYS62 3.7 55.1 1.0
CB D:CYS62 3.7 86.2 1.0
CB D:CYS78 4.0 77.0 1.0
N D:TYR61 4.0 68.2 1.0
CA D:CYS62 4.2 90.5 1.0
CD1 D:TYR65 4.2 86.5 1.0
CA D:CYS60 4.3 69.0 1.0
N D:GLY63 4.4 86.6 1.0
N D:LYS64 4.4 83.9 1.0
C D:CYS60 4.5 70.1 1.0
N D:CYS78 4.5 94.8 1.0
CB D:LYS64 4.6 83.8 1.0
C D:CYS62 4.6 90.3 1.0
C D:TYR61 4.7 59.5 1.0
CA D:CYS75 4.7 45.3 1.0
N D:TYR65 4.8 45.6 1.0
CA D:CYS78 4.8 87.6 1.0
CE1 D:TYR65 4.8 81.8 1.0
CA D:TYR61 4.9 62.6 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: Mon Oct 28 19:50:22 2024

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