Magnesium in PDB 6kon: Mycobacterium Tuberculosis Initial Transcription Complex Comprising Sigma H and 5'-Oh Rna of 5 Nt

Enzymatic activity of Mycobacterium Tuberculosis Initial Transcription Complex Comprising Sigma H and 5'-Oh Rna of 5 Nt

All present enzymatic activity of Mycobacterium Tuberculosis Initial Transcription Complex Comprising Sigma H and 5'-Oh Rna of 5 Nt:
2.7.7.6;

Protein crystallography data

The structure of Mycobacterium Tuberculosis Initial Transcription Complex Comprising Sigma H and 5'-Oh Rna of 5 Nt, PDB code: 6kon 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) 48.65 / 3.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 129.330, 161.219, 129.469, 90.00, 117.78, 90.00
R / Rfree (%) 22 / 27.1

Other elements in 6kon:

The structure of Mycobacterium Tuberculosis Initial Transcription Complex Comprising Sigma H and 5'-Oh Rna of 5 Nt also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Mycobacterium Tuberculosis Initial Transcription Complex Comprising Sigma H and 5'-Oh Rna of 5 Nt (pdb code 6kon). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total only one binding site of Magnesium was determined in the Mycobacterium Tuberculosis Initial Transcription Complex Comprising Sigma H and 5'-Oh Rna of 5 Nt, PDB code: 6kon:

Magnesium binding site 1 out of 1 in 6kon

Go back to Magnesium Binding Sites List in 6kon
Magnesium binding site 1 out of 1 in the Mycobacterium Tuberculosis Initial Transcription Complex Comprising Sigma H and 5'-Oh Rna of 5 Nt


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Mycobacterium Tuberculosis Initial Transcription Complex Comprising Sigma H and 5'-Oh Rna of 5 Nt within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg2003

b:58.5
occ:1.00
O3' I:A10 1.9 75.1 1.0
OD1 D:ASP535 2.1 64.0 1.0
OD1 D:ASP537 2.2 61.9 1.0
OD1 D:ASP539 2.2 64.6 1.0
CG D:ASP539 2.7 64.8 1.0
OD2 D:ASP539 2.8 60.9 1.0
CG D:ASP537 3.0 65.7 1.0
O2' I:A10 3.1 71.5 1.0
C3' I:A10 3.1 77.0 1.0
OD2 D:ASP537 3.2 72.1 1.0
CG D:ASP535 3.2 62.2 1.0
O D:ASP535 3.6 59.4 1.0
C2' I:A10 3.6 69.9 1.0
OD2 D:ASP535 3.7 68.1 1.0
C4' I:A10 3.7 73.7 1.0
NH2 D:ARG500 3.8 71.9 1.0
CB D:ASP539 4.0 64.8 1.0
N D:ASP535 4.3 53.1 1.0
C D:ASP535 4.3 56.1 1.0
CB D:ASP535 4.4 54.4 1.0
CB D:ASP537 4.4 54.2 1.0
N D:ASP539 4.6 63.2 1.0
CA D:ASP535 4.6 52.6 1.0
C5' I:A10 4.6 72.5 1.0
N D:ASP537 4.6 60.0 1.0
CA D:ASP539 4.8 60.1 1.0
CZ D:ARG500 4.9 60.5 1.0
C1' I:A10 4.9 72.8 1.0
O4' I:A10 4.9 74.8 1.0
CA D:ASP537 5.0 52.8 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: Mon Dec 14 23:06:57 2020

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