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Magnesium in PDB 4cch: Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with D5SICS As Templating Nucleotide

Enzymatic activity of Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with D5SICS As Templating Nucleotide

All present enzymatic activity of Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with D5SICS As Templating Nucleotide:
2.7.7.7;

Protein crystallography data

The structure of Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with D5SICS As Templating Nucleotide, PDB code: 4cch was solved by K.Betz, D.A.Malyshev, T.Lavergne, W.Welte, K.Diederichs, F.E.Romesberg, A.Marx, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 43.526 / 2.55
Space group P 31 2 1
Cell size a, b, c (Å), α, β, γ (°) 114.262, 114.262, 91.537, 90.00, 90.00, 120.00
R / Rfree (%) 20.7 / 26.08

Magnesium Binding Sites:

The binding sites of Magnesium atom in the Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with D5SICS As Templating Nucleotide (pdb code 4cch). 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 Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with D5SICS As Templating Nucleotide, PDB code: 4cch:

Magnesium binding site 1 out of 1 in 4cch

Go back to Magnesium Binding Sites List in 4cch
Magnesium binding site 1 out of 1 in the Crystal Structure of the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with D5SICS As Templating Nucleotide


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 the Large Fragment of Dna Polymerase I From Thermus Aquaticus in An Open Binary Complex with D5SICS As Templating Nucleotide within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Mg1112

b:62.2
occ:1.00
 O B:HOH2010 2.2 48.7 1.0
O B:HOH2012 2.2 77.4 1.0
O B:HOH2008 2.2 61.5 1.0
O B:HOH2013 2.2 41.7 1.0
O B:HOH2011 2.2 40.7 1.0
O B:HOH2009 2.2 47.5 1.0
O6 B:DG108 3.9 33.0 1.0
H41 C:DC209 4.1 50.8 1.0
H42 C:DC209 4.1 50.8 1.0
O B:HOH2007 4.2 41.7 1.0
O6 B:DG107 4.4 31.4 1.0
N4 C:DC209 4.4 42.3 1.0
N7 B:DG107 4.5 34.1 1.0
H5 B:DC106 4.7 64.2 1.0

Reference:

K.Betz, D.A.Malyshev, T.Lavergne, W.Welte, K.Diederichs, F.E.Romesberg, A.Marx. Structural Insights Into Dna Replication Without Hydrogen Bonds. J.Am.Chem.Soc. V. 135 18637 2013.
ISSN: ISSN 0002-7863
PubMed: 24283923
DOI: 10.1021/JA409609J
Page generated: Mon Aug 11 07:14:20 2025

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