4FYD

Crystal structure of yeast DNA polymerase alpha bound to DNA/RNA and dGTP

Summary for 4FYD

• Entry DOI: 10.2210/pdb4fyd/pdb
• Related: 4B08 4FVM 4FXD
• Descriptor: DNA polymerase alpha catalytic subunit A, DNA (5'-D(*TP*GP*AP*GP*CP*GP*TP*G*TP*GP*TP*AP*CP*CP*CP*CP*TP*GP*CP*CP*CP*GP*CP*CP*G)-3'), DNA/RNA (5'-R(*CP*GP*GP*CP*GP*GP*GP*CP*AP*G)-D(P*GP*G)-3'), ... (4 entities in total)
• Functional Keywords: dna polymerase, dna replication, transferase-dna complex, transferase/dna
• Biological source: Saccharomyces cerevisiae (Baker's yeast); More
• Cellular location: Nucleus: P13382
• Total number of polymer chains: 6
• Total formula weight: 230932.41

Authors

Perera, R.L.,Pellegrini, L. (deposition date: 2012-07-04, release date: 2013-02-27, Last modification date: 2023-09-13)

Primary citation

Perera, R.L.,Torella, R.,Klinge, S.,Kilkenny, M.L.,Maman, J.D.,Pellegrini, L.
Mechanism for priming DNA synthesis by yeast DNA Polymerase alpha
eLife, 2:e00482-, 2013

PubMed Abstract: The DNA Polymerase α (Pol α)/primase complex initiates DNA synthesis in eukaryotic replication. In the complex, Pol α and primase cooperate in the production of RNA-DNA oligonucleotides that prime synthesis of new DNA. Here we report crystal structures of the catalytic core of yeast Pol α in unliganded form, bound to an RNA primer/DNA template and extending an RNA primer with deoxynucleotides. We combine the structural analysis with biochemical and computational data to demonstrate that Pol α specifically recognizes the A-form RNA/DNA helix and that the ensuing synthesis of B-form DNA terminates primer synthesis. The spontaneous release of the completed RNA-DNA primer by the Pol α/primase complex simplifies current models of primer transfer to leading- and lagging strand polymerases. The proposed mechanism of nucleotide polymerization by Pol α might contribute to genomic stability by limiting the amount of inaccurate DNA to be corrected at the start of each Okazaki fragment. DOI:http://dx.doi.org/10.7554/eLife.00482.001.

PubMed: 23599895
DOI: 10.7554/eLife.00482

Experimental method

X-RAY DIFFRACTION (3.1 Å)