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Magnesium in PDB 2ktq: Open Ternary Complex of the Large Fragment of Dna Polymerase I From Thermus Aquaticus

Enzymatic activity of Open Ternary Complex of the Large Fragment of Dna Polymerase I From Thermus Aquaticus

All present enzymatic activity of Open Ternary Complex of the Large Fragment of Dna Polymerase I From Thermus Aquaticus:
2.7.7.7;

Protein crystallography data

The structure of Open Ternary Complex of the Large Fragment of Dna Polymerase I From Thermus Aquaticus, PDB code: 2ktq was solved by Y.Li, G.Waksman, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 30.00 / 2.30
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 108.414, 108.414, 89.843, 90.00, 90.00, 120.00
R / Rfree (%) 22.4 / 28.8

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Open Ternary Complex of the Large Fragment of Dna Polymerase I From Thermus Aquaticus (pdb code 2ktq). 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 the Large Fragment of Dna Polymerase I From Thermus Aquaticus, PDB code: 2ktq:

Magnesium binding site 1 out of 1 in 2ktq

Go back to Magnesium Binding Sites List in 2ktq
Magnesium binding site 1 out of 1 in the Open Ternary Complex of the Large Fragment of Dna Polymerase I From Thermus Aquaticus


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 the Large Fragment of Dna Polymerase I From Thermus Aquaticus within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mg901

b:47.9
occ:1.00
OD1 A:ASP785 2.4 29.2 1.0
O A:HOH3030 2.4 23.3 1.0
O1G A:DCT113 2.7 75.1 0.3
O2A A:DCT113 2.7 59.3 0.3
O A:TYR611 2.7 19.0 1.0
O3B A:DCT113 2.9 76.7 0.3
CG A:ASP785 3.1 24.3 1.0
PG A:DCT113 3.4 75.2 0.3
OD2 A:ASP785 3.4 24.9 1.0
CB A:ASP610 3.5 23.9 1.0
O2B A:DCT113 3.5 74.2 0.3
O A:HOH3003 3.6 28.8 1.0
OD2 A:ASP610 3.6 33.6 1.0
PB A:DCT113 3.7 72.4 0.3
PA A:DCT113 3.9 59.6 0.3
C A:TYR611 3.9 19.1 1.0
O3A A:DCT113 3.9 69.8 0.3
CG A:ASP610 4.0 29.1 1.0
N A:TYR611 4.1 18.1 1.0
C A:ASP610 4.3 19.4 1.0
O A:ASP785 4.3 16.8 1.0
CB A:ASP785 4.3 19.9 1.0
CA A:ASP610 4.3 20.9 1.0
O2G A:DCT113 4.4 75.0 0.3
O3G A:DCT113 4.5 75.1 0.3
C5' A:DCT113 4.6 42.6 0.3
CA A:TYR611 4.7 19.1 1.0
OE1 A:GLU786 4.7 24.1 1.0
O5' A:DCT113 4.8 53.4 0.3
C A:ASP785 4.8 17.6 1.0
N A:SER612 4.9 20.8 1.0
O A:ASP610 4.9 18.8 1.0
CA A:SER612 5.0 23.7 1.0

Reference:

Y.Li, S.Korolev, G.Waksman. Crystal Structures of Open and Closed Forms of Binary and Ternary Complexes of the Large Fragment of Thermus Aquaticus Dna Polymerase I: Structural Basis For Nucleotide Incorporation. Embo J. V. 17 7514 1998.
ISSN: ISSN 0261-4189
PubMed: 9857206
DOI: 10.1093/EMBOJ/17.24.7514
Page generated: Mon Dec 14 07:30:02 2020

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