4B9M: Structure Of The High Fidelity Dna Polymerase I With An Oxidative Formamidopyrimidine-da Dna Lesion -thymine Basepair In The Post-insertion Site

Citation:
Abstract
8-Oxopurines (8-oxodG and 8-oxodA) and formamidopyrimidines (FaPydG and FaPydA) are major oxidative DNA lesions involved in cancer development and aging. Their mutagenicity is believed to result from a conformational shift of the N9-C1' glycosidic bonds from anti to syn, which allows the lesions to form noncanonical Hoogsteen-type base pairs with incoming triphosphates during DNA replication. Here we present biochemical data and what are to our knowledge the first crystal structures of carbocyclic FaPydA and FaPydG containing DNA in complex with a high-fidelity polymerase. Crystallographic snapshots show that the cFaPy lesions keep the anti geometry of the glycosidic bond during error-free and error-prone replication. The observed dG.dC-->dT.dA transversion mutations are the result of base shifting and tautomerization.
PDB ID: 4B9MDownload
MMDB ID: 109143
PDB Deposition Date: 2012/9/5
Updated in MMDB: 2013/07
Experimental Method:
x-ray diffraction
Resolution: 2.05  Å
Source Organism:
Similar Structures:
Biological Unit for 4B9M: trimeric; determined by author and by software (PISA)
Molecular Components in 4B9M
Label Count Molecule
Protein (1 molecule)
1
DNA Polymerase I
Molecule annotation
Nucleotides(2 molecules)
1
5'-d(*gp*cp*cp*tp*gp*ap*cp*tp*cp*tp*tp)-3'
Molecule annotation
1
5'-d(*dc*da*da*fax*ap*gp*ap*gp*tp*cp*ap*gp*gp*cp*tp)-3'
Molecule annotation
Chemicals (7 molecules)
1
1
2
6
* Click molecule labels to explore molecular sequence information.

Citing MMDB
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