3P87

Structure of human PCNA bound to RNASEH2B PIP box peptide

Summary for 3P87

• Entry DOI: 10.2210/pdb3p87/pdb
• Related: 1AXC 3P83
• Descriptor: Proliferating cell nuclear antigen, Ribonuclease H2 subunit B (2 entities in total)
• Functional Keywords: dna binding, dna replication, dna repair, sliding clamp, pcna peptide interacting peptide (pip) motif, pip-box motif, dna clamp, processivity factor, rnase h2, fen-1, ligase, polymerases, helicases, nucleases, nucleus, hydrolase-dna binding protein complex, hydrolase/dna binding protein
• Biological source: Homo sapiens (human); More
• Cellular location: Nucleus: P12004; Nucleus (Probable): Q5TBB1
• Total number of polymer chains: 12
• Total formula weight: 188153.04

Authors

Bubeck, D.,Reijns, M.A.,Graham, S.C.,Astell, K.R.,Jones, E.Y.,Jackson, A.P. (deposition date: 2010-10-13, release date: 2011-02-02, Last modification date: 2023-09-06)

Primary citation

Bubeck, D.,Reijns, M.A.,Graham, S.C.,Astell, K.R.,Jones, E.Y.,Jackson, A.P.
PCNA directs type 2 RNase H activity on DNA replication and repair substrates.
Nucleic Acids Res., 39:3652-3666, 2011

PubMed Abstract: Ribonuclease H2 is the major nuclear enzyme degrading cellular RNA/DNA hybrids in eukaryotes and the sole nuclease known to be able to hydrolyze ribonucleotides misincorporated during genomic replication. Mutation in RNASEH2 causes Aicardi-Goutières syndrome, an auto-inflammatory disorder that may arise from nucleic acid byproducts generated during DNA replication. Here, we report the crystal structures of Archaeoglobus fulgidus RNase HII in complex with PCNA, and human PCNA bound to a C-terminal peptide of RNASEH2B. In the archaeal structure, three binding modes are observed as the enzyme rotates about a flexible hinge while anchored to PCNA by its PIP-box motif. PCNA binding promotes RNase HII activity in a hinge-dependent manner. It enhances both cleavage of ribonucleotides misincorporated in DNA duplexes, and the comprehensive hydrolysis of RNA primers formed during Okazaki fragment maturation. In addition, PCNA imposes strand specificity on enzyme function, and by localizing RNase H2 and not RNase H1 to nuclear replication foci in vivo it ensures that RNase H2 is the dominant RNase H activity during nuclear replication. Our findings provide insights into how type 2 RNase H activity is directed during genome replication and repair, and suggest a mechanism by which RNase H2 may suppress generation of immunostimulatory nucleic acids.

PubMed: 21245041
DOI: 10.1093/nar/gkq980

Experimental method

X-RAY DIFFRACTION (2.99 Å)