4DFP: Crystal Structure Of The Large Fragment Of Dna Polymerase I From Thermus Aqauticus In A Ternary Complex With 7-(Aminopentinyl)-7- Deaza-Dgtp

Citation:
Abstract
The capability of DNA polymerases to accept chemically modified nucleotides is of paramount importance for many biotechnological applications. Although these analogues are widely used, the structural basis for the acceptance of the unnatural nucleotide surrogates has been only sparsely explored. Here we present in total six crystal structures of modified 2'-deoxynucleoside-5'-O-triphosphates (dNTPs) carrying modifications at the C5 positions of pyrimidines or C7 positions of 7-deazapurines in complex with a DNA polymerase and a primer/template complex. The modified dNTPs are in positions poised for catalysis leading to incorporation. These structural data provide insight into the mechanism of incorporation and acceptance of modified dNTPs. Our results open the door for rational design of modified nucleotides, which should offer great opportunities for future applications.
PDB ID: 4DFPDownload
MMDB ID: 99721
PDB Deposition Date: 2012/1/24
Updated in MMDB: 2012/08
Experimental Method:
x-ray diffraction
Resolution: 2  Å
Source Organism:
synthetic construct
Similar Structures:
Biological Unit for 4DFP: trimeric; determined by author and by software (PISA)
Molecular Components in 4DFP
Label Count Molecule
Protein (1 molecule)
1
DNA Polymerase I, Thermostable
Molecule annotation
Nucleotides(2 molecules)
1
DNA (5'-d(*gp*ap*cp*cp*ap*cp*gp*gp*cp*gp*cp*(doc))-3')
Molecule annotation
1
5'-d(aaacggcgccgtggtc)-3'
Molecule annotation
Chemicals (18 molecules)
1
5
2
5
3
7
4
1
* Click molecule labels to explore molecular sequence information.

Citing MMDB
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