Ydc2 protein domain

In molecular biology, the protein domain, Ydc2 (also known as SpCce1), is a Holliday junction resolvase from the fission yeast Schizosaccharomyces pombe that is involved in the maintenance of mitochondrial DNA.

Ydc2 protein domain
Crystal structure of the yeast mitochondrial Holliday junction resolvase, YDC2
Identifiers
Symbol	Ydc2-catalyst
Pfam	PF09159
Pfam clan	CL0219
InterPro	IPR015242
SCOP2	1kcf / SCOPe / SUPFAM
CDD	cd00529
Available protein structures: Pfam   structures / ECOD   PDB RCSB PDB; PDBe; PDBj PDBsum structure summary

Function

In molecular biology, the Ydc2 domains are enzymes, or in other words biological catalysts, capable of resolving Holliday junctions into separate DNA duplexes by cleaving DNA after 5'-CT-3, and 5'-TT-3, sequences.

Properties

The junction resolving enzymes are very diverse, but have the following properties in common:

• high structure specificity for binding
• metal dependent, sequence specific cleavage activity^[1]

Essentially, they are highly specific.

Limiting factors

Furthermore, the cleavage efficiency is affected by:

• strand type (continuous or exchange)
• nucleotide sequence at cleavage site^[1]

Structure

This protein domain forms a ribonuclease H fold consisting of two beta sheets and one alpha helix, arranged as a beta-alpha-beta motif. Each beta sheet has five strands, arranged in a 32145 order, with the second strand being antiparallel to the rest.^[2]