Magnesium in PDB 5vi8: Structure of A Mycobacterium Smegmatis Transcription Initiation Complex with An Upstream-Fork Promoter Fragment

Enzymatic activity of Structure of A Mycobacterium Smegmatis Transcription Initiation Complex with An Upstream-Fork Promoter Fragment

All present enzymatic activity of Structure of A Mycobacterium Smegmatis Transcription Initiation Complex with An Upstream-Fork Promoter Fragment:
2.7.7.6;

Protein crystallography data

The structure of Structure of A Mycobacterium Smegmatis Transcription Initiation Complex with An Upstream-Fork Promoter Fragment, PDB code: 5vi8 was solved by E.A.Hubin, E.A.Campbell, S.A.Darst, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 51.99 / 2.76
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 133.012, 161.633, 139.211, 90.00, 107.72, 90.00
R / Rfree (%) 24 / 28.1

Other elements in 5vi8:

The structure of Structure of A Mycobacterium Smegmatis Transcription Initiation Complex with An Upstream-Fork Promoter Fragment also contains other interesting chemical elements:

Zinc (Zn) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Structure of A Mycobacterium Smegmatis Transcription Initiation Complex with An Upstream-Fork Promoter Fragment (pdb code 5vi8). 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 Structure of A Mycobacterium Smegmatis Transcription Initiation Complex with An Upstream-Fork Promoter Fragment, PDB code: 5vi8:

Magnesium binding site 1 out of 1 in 5vi8

Go back to Magnesium Binding Sites List in 5vi8
Magnesium binding site 1 out of 1 in the Structure of A Mycobacterium Smegmatis Transcription Initiation Complex with An Upstream-Fork Promoter Fragment


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Structure of A Mycobacterium Smegmatis Transcription Initiation Complex with An Upstream-Fork Promoter Fragment within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg2003

b:79.6
occ:1.00
OD1 D:ASP539 2.6 88.7 1.0
OD2 D:ASP537 2.6 81.4 1.0
OD1 D:ASP537 3.0 67.7 1.0
CG D:ASP537 3.2 71.0 1.0
CG D:ASP539 3.5 75.6 1.0
OD2 D:ASP535 3.6 99.7 1.0
OD2 D:ASP539 3.6 71.7 1.0
CB D:ASP535 3.8 64.6 1.0
NH2 D:ARG500 3.9 70.1 1.0
CG D:ASP535 4.2 88.0 1.0
CB D:ASP537 4.7 70.0 1.0
CB D:ASP539 4.9 59.3 1.0
CA D:ASP535 5.0 60.7 1.0

Reference:

E.A.Hubin, M.Lilic, S.A.Darst, E.A.Campbell. Structural Insights Into the Mycobacteria Transcription Initiation Complex From Analysis of X-Ray Crystal Structures. Nat Commun V. 8 16072 2017.
ISSN: ESSN 2041-1723
PubMed: 28703128
DOI: 10.1038/NCOMMS16072
Page generated: Mon Dec 14 21:18:26 2020

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