3IAY

Ternary complex of DNA polymerase delta

Summary for 3IAY

• Entry DOI: 10.2210/pdb3iay/pdb
• Descriptor: 5'-D(*AP*TP*CP*CP*TP*CP*CP*CP*CP*TP*AP*(DOC))-3', 5'-D(*TP*AP*AP*GP*GP*TP*AP*GP*GP*GP*GP*AP*GP*GP*AP*T)-3', DNA polymerase delta catalytic subunit, ... (7 entities in total)
• Functional Keywords: dna polymerase, protein-dna complex, dna replication, dna-binding, dna-directed dna polymerase, exonuclease, hydrolase, metal-binding, nuclease, nucleotidyltransferase, nucleus, phosphoprotein, transferase, zinc-finger, transferase-dna complex, transferase/dna
• Biological source: Saccharomyces cerevisiae; More
• Cellular location: Nucleus: P15436
• Total number of polymer chains: 3
• Total formula weight: 113831.39

Authors

Swan, M.K.,Aggarwal, A.K. (deposition date: 2009-07-15, release date: 2009-09-22, Last modification date: 2024-02-21)

Primary citation

Swan, M.K.,Johnson, R.E.,Prakash, L.,Prakash, S.,Aggarwal, A.K.
Structural basis of high-fidelity DNA synthesis by yeast DNA polymerase delta
Nat.Struct.Mol.Biol., 16:979-986, 2009

PubMed Abstract: DNA polymerase delta (Pol delta) is a high-fidelity polymerase that has a central role in replication from yeast to humans. We present the crystal structure of the catalytic subunit of yeast Pol delta in ternary complex with a template primer and an incoming nucleotide. The structure, determined at 2.0-A resolution, catches the enzyme in the act of replication, revealing how the polymerase and exonuclease domains are juxtaposed relative to each other and how a correct nucleotide is selected and incorporated. The structure also reveals the 'sensing' interactions near the primer terminus, which signal a switch from the polymerizing to the editing mode. Taken together, the structure provides a chemical basis for the bulk of DNA synthesis in eukaryotic cells and a framework for understanding the effects of cancer-causing mutations in Pol delta.

PubMed: 19718023
DOI: 10.1038/nsmb.1663

Experimental method

X-RAY DIFFRACTION (2 Å)