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Magnesium in PDB 4xls: Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter.

Enzymatic activity of Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter.

All present enzymatic activity of Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter.:
2.7.7.6;

Protein crystallography data

The structure of Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter., PDB code: 4xls was solved by B.Bae, S.A.Darst, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 49.79 / 4.01
Space group P 43 21 2
Cell size a, b, c (Å), α, β, γ (°) 293.150, 293.150, 539.130, 90.00, 90.00, 90.00
R / Rfree (%) 23.2 / 27.2

Other elements in 4xls:

The structure of Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter. also contains other interesting chemical elements:

Zinc (Zn) 4 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter. (pdb code 4xls). This binding sites where shown within 5.0 Angstroms radius around Magnesium atom.
In total 2 binding sites of Magnesium where determined in the Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter., PDB code: 4xls:
Jump to Magnesium binding site number: 1; 2;

Magnesium binding site 1 out of 2 in 4xls

Go back to Magnesium Binding Sites List in 4xls
Magnesium binding site 1 out of 2 in the Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter. within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Mg2003

b:0.1
occ:1.00
 OD1 D:ASP743 2.1 0.1 1.0
OD1 D:ASP739 2.2 0.7 1.0
OD2 D:ASP741 2.2 0.4 1.0
OD2 D:ASP743 2.2 0.8 1.0
CG D:ASP743 2.4 0.8 1.0
CG D:ASP741 2.8 0.2 1.0
OD1 D:ASP741 2.8 0.1 1.0
CG D:ASP739 3.4 0.2 1.0
CB D:ASP743 3.8 0.3 1.0
OD2 D:ASP739 3.9 1.0 1.0
O D:ASP739 4.0 0.9 1.0
CB D:ASP741 4.2 99.5 1.0
N D:ASP739 4.4 0.5 1.0
CA D:ASP743 4.5 0.5 1.0
N D:ASP743 4.5 0.4 1.0
CB D:ASP739 4.6 0.7 1.0
C D:ASP739 4.6 1.0 1.0
N D:ASP741 4.6 0.2 1.0
CA D:ASP739 4.8 0.2 1.0
NH2 D:ARG704 4.8 0.7 1.0
CA D:ASP741 4.9 0.8 1.0

Magnesium binding site 2 out of 2 in 4xls

Go back to Magnesium Binding Sites List in 4xls
Magnesium binding site 2 out of 2 in the Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter.


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 2 of Crystal Structure of T. Aquaticus Transcription Initiation Complex with Card Containing Upstream Fork Promoter. within 5.0Å range:
probe atom residue distance (Å) B Occ
J:Mg2003

b:0.1
occ:1.00
 OD2 J:ASP743 2.0 0.3 1.0
OD1 J:ASP743 2.0 0.2 1.0
OD2 J:ASP741 2.1 0.1 1.0
OD1 J:ASP739 2.1 0.8 1.0
CG J:ASP743 2.2 0.6 1.0
CG J:ASP741 2.8 0.0 1.0
OD1 J:ASP741 2.9 0.1 1.0
CG J:ASP739 3.3 0.5 1.0
CB J:ASP743 3.6 0.0 1.0
O J:ASP739 3.7 0.2 1.0
OD2 J:ASP739 4.0 0.8 1.0
CB J:ASP741 4.2 0.2 1.0
N J:ASP739 4.3 0.2 1.0
CA J:ASP743 4.3 0.2 1.0
N J:ASP743 4.3 0.4 1.0
C J:ASP739 4.4 0.6 1.0
N J:ASP741 4.5 0.9 1.0
CB J:ASP739 4.5 0.8 1.0
CA J:ASP739 4.6 0.9 1.0
NH2 J:ARG704 4.8 0.7 1.0
CA J:ASP741 4.8 0.7 1.0
NH1 J:ARG704 4.9 0.7 1.0

Reference:

B.Bae, J.Chen, E.Davis, K.Leon, S.A.Darst, E.A.Campbell. Card Uses A Minor Groove Wedge Mechanism to Stabilize the Rna Polymerase Open Promoter Complex. Elife V. 4 2015.
ISSN: ESSN 2050-084X
PubMed: 26349034
DOI: 10.7554/ELIFE.08505
Page generated: Tue Aug 20 15:34:22 2024

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