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A Novel Proteomic Approach Identifies New Interaction Partners for Proliferating Cell Nuclear Antigen

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Meslet-Cladiére, Laurence, Norais, Cédric, Kuhn, Joëlle, Briffotaux, Julien, Sloostra, Jerry W., Ferrari, Elena, Hübscher, Ulrich, Flament, Didier, Myllykallio, Hannu·2007·Journal of Molecular Biology
DOI 10.1016/j.jmb.2007.06.056
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Abstract

During DNA replication and repair, many proteins bind to and dissociate in a highly specific and ordered manner from proliferating cell nuclear antigen (PCNA). We describe a combined approach of in silico searches at the genome level and combinatorial peptide synthesis to investigate the binding properties of hundreds of short PCNA-interacting peptides (PIP-peptides) to archaeal and eukaryal PCNAs. Biological relevance of our combined approach was demonstrated by identification an inactive complex of Pyrococcus abyssi ribonuclease HII with PCNA. Furthermore we show that PIP-peptides interact with PCNA largely in a sequence independent manner. Our experimental approach also identified many so far unidentified PCNA interacting peptides in a number of human proteins.

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  • RNase HII was also shown to bind PCNA in P. abyssi, suggesting conservation among archaeal species.

    “RNase HII was also shown to bind PCNA in P. abyssi, suggesting conservation among archaeal species (Meslet-Cladiere et al. 2007).”

    From Ribonucleotide errors, RNase HII, and ribonucleotide excision repair (2026) · cites this paper as Meslet-Cladiere et al. 2007

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Research works printed but not linked: 28

  1. Miyachi, 1978, Autoantibody to a nuclear antigen in proliferating cells, J. Immunol., 121, 2228, 10.4049/jimmunol.121.6.2228 · DOI · Paper page
  2. Prelich, 1987, Functional identity of proliferating cell nuclear antigen and a DNA polymerase-delta auxiliary protein, Nature, 326, 517, 10.1038/326517a0 · DOI
  3. Gulbis, 1996, Structure of the C-terminal region of p21(WAF1/CIP1) complexed with human PCNA, Cell, 87, 297, 10.1016/S0092-8674(00)81347-1 · DOI
  4. Maga, 2003, Proliferating cell nuclear antigen (PCNA): a dancer with many partners, J. Cell Sci., 116, 3051, 10.1242/jcs.00653 · DOI
  5. Duggin, 2006, The chromosome replication machinery of the archaeon Sulfolobus solfataricus, J. Biol. Chem., 281, 15029, 10.1074/jbc.R500029200 · DOI
  6. Warbrick, 1998, PCNA binding through a conserved motif, Bioessays, 20, 195, 10.1002/(SICI)1521-1878(199803)20:3<195::AID-BIES2>3.0.CO;2-R · DOI
  7. Jonsson, 1998, Regulation of DNA replication and repair proteins through interaction with the front side of proliferating cell nuclear antigen, EMBO J., 17, 2412, 10.1093/emboj/17.8.2412 · DOI
  8. Xu, 2001, A novel PCNA-binding motif identified by the panning of a random peptide display library, Biochemistry, 40, 4512, 10.1021/bi010103+ · DOI
  9. Warbrick, 2006, A functional analysis of PCNA-binding peptides derived from protein sequence, interaction screening and rational design, Oncogene, 25, 2850, 10.1038/sj.onc.1209320 · DOI
  10. Kiyonari, 2006, Identification of a novel binding motif in Pyrococcus furiosus DNA ligase for the functional interaction with proliferating cell nuclear antigen, J. Biol. Chem., 281, 28023, 10.1074/jbc.M603403200 · DOI
  11. Haruki, 2002, Cleavage of a DNA-RNA-DNA/DNA chimeric substrate containing a single ribonucleotide at the DNA-RNA junction with prokaryotic RNases HII, FEBS Letters, 531, 204, 10.1016/S0014-5793(02)03503-2 · DOI
  12. Liu, 2004, FLAP ENDONUCLEASE 1: a central component of DNA metabolism, Annu. Rev. Biochem., 73, 589, 10.1146/annurev.biochem.73.012803.092453 · DOI
  13. Sandler, 2005, Requirements for replication restart proteins during constitutive stable DNA replication in Escherichia coli K-12, Genetics, 169, 1799, 10.1534/genetics.104.036962 · DOI
  14. Yu, 2006, Detection and structural analysis of R-loops, Methods Enzymol., 409, 316, 10.1016/S0076-6879(05)09018-X · DOI
  15. Rossi, 2006, Lagging strand replication proteins in genome stability and DNA repair, Chem. Rev., 106, 453, 10.1021/cr040497l · DOI
  16. Kelman, 2005, Archaeal DNA replication and repair, Curr. Opin. Microbiol., 8, 669, 10.1016/j.mib.2005.10.001 · DOI
  17. Bruning, 2004, Structural and thermodynamic analysis of human PCNA with peptides derived from DNA polymerase-delta p66 subunit and flap endonuclease-1, Structure, 12, 2209, 10.1016/j.str.2004.09.018 · DOI · Paper page
  18. Chapados, 2004, Structural basis for FEN-1 substrate specificity and PCNA-mediated activation in DNA replication and repair, Cell, 116, 39, 10.1016/S0092-8674(03)01036-5 · DOI
  19. Vijayakumar, 2007, The C-terminal domain of yeast PCNA is required for physical and functional interactions with Cdc9 DNA ligase, Nucl. Acids Res., 35, 1624, 10.1093/nar/gkm006 · DOI
  20. Neduva, 2005, Linear motifs: evolutionary interaction switches, FEBS Letters, 579, 3342, 10.1016/j.febslet.2005.04.005 · DOI · Paper page
  21. Neduva, 2006, Peptides mediating interaction networks: new leads at last, Curr. Opin. Biotechnol., 17, 465, 10.1016/j.copbio.2006.08.002 · DOI
  22. Schurtenberger, 1998, The solution structure of functionally active human proliferating cell nuclear antigen determined by small-angle neutron scattering, J. Mol. Biol., 275, 123, 10.1006/jmbi.1997.1435 · DOI
  23. Slootstra, 1996, Structural aspects of antibody-antigen interaction revealed through small random peptide libraries, Mol. Divers, 1, 87, 10.1007/BF01721323 · DOI
  24. Chapados, 2001, Structural biochemistry of a type 2 RNase H: RNA primer recognition and removal during DNA replication, J. Mol. Biol., 307, 541, 10.1006/jmbi.2001.4494 · DOI
  25. Allers, 2004, Development of additional selectable markers for the halophilic archaeon Haloferax volcanii based on the leuB and trpA genes, Appl. Environ. Microbiol., 70, 943, 10.1128/AEM.70.2.943-953.2004 · DOI
  26. Bitan-Banin, 2003, Development of a gene knockout system for the halophilic archaeon Haloferax volcanii by use of the pyrE gene, J. Bacteriol., 185, 772, 10.1128/JB.185.3.772-778.2003 · DOI
  27. Cline, 1989, Transformation of the archaebacterium Halobacterium volcanii with genomic DNA, J. Bacteriol., 171, 4987, 10.1128/jb.171.9.4987-4991.1989 · DOI
  28. Myllykallio, 2000, Bacterial mode of replication with eukaryotic-like machinery in a hyperthermophilic archaeon, Science, 288, 2212, 10.1126/science.288.5474.2212 · DOI

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Metadata

Authors
Meslet-Cladiére, L., Norais, C., Kuhn, J., Briffotaux, J., Sloostra, J. W., Ferrari, E., Hübscher, U., Flament, D., & Myllykallio, H.
Affiliations
  • Université Paris-Sud (FR)
  • Ifremer (FR)
  • Pepscan (Netherlands) (NL)
  • University of Zurich (CH)
Corresponding author
  • Flament, Didier
  • Myllykallio, Hannu
ORCID
Venue
Journal of Molecular Biology
Publisher
Elsevier BV
Published
2007-10
Volume
372
Issue
5
Pages
1137-1148
ISSN
0022-2836 (ISSN-L)
DOI
10.1016/j.jmb.2007.06.056
OpenAlex
W1998273544
Cited by
54
References
1
Citations by year
2026: 1 · 2025: 3 · 2024: 1 · 2023: 2 · 2022: 1 · 2021: 3 · 2020: 2 · 2018: 4 · 2017: 1 · 2016: 2 · 2015: 6 · 2013: 2 · 2012: 5
FWCI
1.73
Type
journal article
Language
en
Open access
Licence
Locations
  • Journal of Molecular Biology (publishedVersion)
  • PubMed (publishedVersion)
  • Institutional Archive of Ifremer (French Research Institute for Exploitation of the Sea) (submittedVersion)
  • HAL (submittedVersion)
Funders
  • Institut National de la Santé et de la Recherche Médicale
  • Fondation Bettencourt Schueller
Topics
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › DNA Repair Mechanisms
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protein Structure and Dynamics
  • Physical Sciences › Chemistry › Organic Chemistry › Chemical Synthesis and Analysis
Keywords
proliferating cell nuclear antigen, PCNA, protein-protein interaction, DNA replication, DNA repair, Pyrococcus abyssi, combinatorial peptide synthesis, human protein
MeSH terms
Amino Acid Sequence, DNA Repair, Humans, Molecular Sequence Data, Peptides, DNA Ligases, Sequence Alignment, Ribonuclease H, Proliferating Cell Nuclear Antigen, Archaeal Proteins, Proteome, Pyrococcus abyssi, Flap Endonucleases

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