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Magnesium in PDB 4f5o: Open Ternary Complex of R283K Dna Polymerase Beta with A One Metal Bound Dctp Analog

Enzymatic activity of Open Ternary Complex of R283K Dna Polymerase Beta with A One Metal Bound Dctp Analog

All present enzymatic activity of Open Ternary Complex of R283K Dna Polymerase Beta with A One Metal Bound Dctp Analog:
2.7.7.7;

Protein crystallography data

The structure of Open Ternary Complex of R283K Dna Polymerase Beta with A One Metal Bound Dctp Analog, PDB code: 4f5o was solved by B.D.Freudenthal, W.A.Beard, S.H.Wilson, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 22.57 / 2.00
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 54.480, 78.923, 55.134, 90.00, 106.61, 90.00
R / Rfree (%) 20.3 / 26.7

Other elements in 4f5o:

The structure of Open Ternary Complex of R283K Dna Polymerase Beta with A One Metal Bound Dctp Analog also contains other interesting chemical elements:

Fluorine (F) 2 atoms

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Open Ternary Complex of R283K Dna Polymerase Beta with A One Metal Bound Dctp Analog (pdb code 4f5o). 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 Open Ternary Complex of R283K Dna Polymerase Beta with A One Metal Bound Dctp Analog, PDB code: 4f5o:

Magnesium binding site 1 out of 1 in 4f5o

Go back to Magnesium Binding Sites List in 4f5o
Magnesium binding site 1 out of 1 in the Open Ternary Complex of R283K Dna Polymerase Beta with A One Metal Bound Dctp Analog


Mono view


Stereo pair view

A full contact list of Magnesium with other atoms in the Mg binding site number 1 of Open Ternary Complex of R283K Dna Polymerase Beta with A One Metal Bound Dctp Analog within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg402

b:51.0
occ:1.00
 HO1A A:6CF401 1.8 69.3 1.0
O A:HOH700 2.1 49.0 1.0
O A:HOH703 2.1 44.0 1.0
O A:HOH702 2.1 49.1 1.0
O1A A:6CF401 2.1 57.8 1.0
OD2 A:ASP190 2.1 44.0 1.0
O3G A:6CF401 2.2 45.4 1.0
CG A:ASP190 3.0 34.8 1.0
OD1 A:ASP190 3.2 31.5 1.0
H5' A:6CF401 3.4 76.3 1.0
O A:HOH704 3.4 30.0 1.0
P3 A:6CF401 3.5 53.6 1.0
P1 A:6CF401 3.7 68.4 1.0
O3B A:6CF401 3.9 59.5 1.0
O P:HOH106 4.0 34.8 1.0
C5' A:6CF401 4.2 63.5 1.0
O1G A:6CF401 4.3 46.3 1.0
O2A A:6CF401 4.3 60.9 1.0
O A:HOH684 4.3 43.5 1.0
CB A:ASP190 4.3 25.9 1.0
H5'A A:6CF401 4.4 76.3 1.0
O5' A:6CF401 4.5 67.6 1.0
O3' P:DA10 4.5 53.8 1.0
C3' P:DA10 4.5 47.1 1.0
O2G A:6CF401 4.6 42.6 1.0
OD2 A:ASP192 4.6 48.1 1.0
P2 A:6CF401 4.7 65.8 1.0
C3A A:6CF401 4.7 63.0 1.0
N A:ASP190 4.7 30.0 1.0
O2B A:6CF401 4.8 58.9 1.0
C A:GLY189 4.9 34.6 1.0
F2A A:6CF401 5.0 67.0 1.0

Reference:

B.D.Freudenthal, W.A.Beard, S.H.Wilson. Structures of Dntp Intermediate States During Dna Polymerase Active Site Assembly. Structure V. 20 1829 2012.
ISSN: ISSN 0969-2126
PubMed: 22959623
DOI: 10.1016/J.STR.2012.08.008
Page generated: Fri Aug 16 14:42:55 2024

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