Home LiteratureArticle Details
PMID: 16473935 Published · ppublish English Journal Article Research Support, Non-U.S. Gov't

The DDB1-CUL4ADDB2 ubiquitin ligase is deficient in xeroderma pigmentosum group E and targets histone H2A at UV-damaged DNA sites.

Kapetanaki MG, Guerrero-Santoro J, Bisi DC, Hsieh CL, Rapić-Otrin V, Levine AS

Abstract

Xeroderma pigmentosum (XP) is a heritable human disorder characterized by defects in nucleotide excision repair (NER) and the development of skin cancer. Cells from XP group E (XP-E) patients have a defect in the UV-damaged DNA-binding protein complex (UV-DDB), involved in the damage recognition step of NER. UV-DDB comprises two subunits, products of the DDB1 and DDB2 genes, respectively. Mutations in the DDB2 gene account for the underlying defect in XP-E. The UV-DDB complex is a component of the newly identified cullin 4A-based ubiquitin E3 ligase, DDB1-CUL4A(DDB2). The E3 ubiquitin ligases recognize specific substrates and mediate their ubiquitination to regulate protein activity or target proteins for degradation by the proteasomal pathway. In this study, we have addressed the role of the UV-DDB-based E3 in NER and sought a physiological substrate. We demonstrate that monoubiquitinated histone H2A in native chromatin coimmunoprecipitates with the endogenous DDB1-CUL4A(DDB2) complex in response to UV irradiation. Further, mutations in DDB2 alter the formation and binding activity of the DDB1-CUL4A(DDB2) ligase, accompanied by impaired monoubiquitination of H2A after UV treatment of XP-E cells, compared with repair-proficient cells. This finding indicates that DDB2, as the substrate receptor of the DDB1-CUL4A-based ligase, specifically targets histone H2A for monoubiquitination in a photolesion-binding-dependent manner. Given that the loss of monoubiquitinated histone H2A at the sites of UV-damaged DNA is associated with decreased global genome repair in XP-E cells, this study suggests that histone modification, mediated by the XPE factor, facilitates the initiation of NER.

MeSH Terms
Chromatin/metabolism Cullin Proteins/analysis,metabolism DNA/chemistry,radiation effects DNA Damage DNA-Binding Proteins/analysis,genetics,metabolism Histones/analysis,metabolism Humans Mutation Tumor Cells, Cultured Ubiquitin Ubiquitin-Protein Ligases/analysis,metabolism Ultraviolet Rays Xeroderma Pigmentosum/enzymology,genetics
Chemicals
CUL4A protein, human Chromatin Cullin Proteins DDB1 protein, human DDB2 protein, human DNA-Binding Proteins Histones Ubiquitin DNA Ubiquitin-Protein Ligases
Authors & Affiliations
6 authors, click to expand affiliations / ORCID
Kapetanaki Maria G
Department of Molecular Genetics and Biochemistry, School of Medicine, and Cancer Institute, University of Pittsburgh, Hillman Cancer Center, Research Pavilion, Suite 2.6, 5117 Centre Avenue, Pittsburgh, PA 15213, USA.
Guerrero-Santoro Jennifer
Bisi Dawn C
Hsieh Ching L
Rapić-Otrin Vesna
Levine Arthur S
References (55)
55 references, click to expand
  1. Reconstitution of human DNA repair excision nuclease in a highly defined system.
    J Biol Chem. 1995 Feb 10;270(6):2415-8 PMID: 7852297
  2. Translocation of a UV-damaged DNA binding protein into a tight association with chromatin after treatment of mammalian cells with UV light.
    J Cell Sci. 1997 May;110 ( Pt 10):1159-68 PMID: 9191040
  3. Characterization of DNA recognition by the human UV-damaged DNA-binding protein.
    J Biol Chem. 1999 Jul 9;274(28):20027-33 PMID: 10391953
  4. Rescue of arrested RNA polymerase II complexes.
    J Cell Sci. 2003 Feb 1;116(Pt 3):447-51 PMID: 12508106
  5. The xeroderma pigmentosum group E gene product DDB2 is a specific target of cullin 4A in mammalian cells.
    Mol Cell Biol. 2001 Oct;21(20):6738-47 PMID: 11564859
  6. Nucleotide excision repair in chromatin: the shape of things to come.
    DNA Repair (Amst). 2005 Jul 28;4(8):909-18 PMID: 15905137
  7. UV-induced ubiquitylation of XPC protein mediated by UV-DDB-ubiquitin ligase complex.
    Cell. 2005 May 6;121(3):387-400 PMID: 15882621
  8. Level of ubiquitinated histone H2B in chromatin is coupled to ongoing transcription.
    Biochemistry. 1990 May 22;29(20):4752-7 PMID: 2163669
  9. The levels of ubiquitinated histone H2A are highly upregulated in transformed human cells: partial colocalization of uH2A clusters and PCNA/cyclin foci in a fraction of cells in S-phase.
    J Cell Sci. 1995 Mar;108 ( Pt 3):1205-15 PMID: 7622605
  10. Histone H2B (and H2A) ubiquitination allows normal histone octamer and core particle reconstitution.
    Biochim Biophys Acta. 1994 Jun 21;1218(2):187-93 PMID: 8018719
  11. Xeroderma pigmentosum complementation group E and UV-damaged DNA-binding protein.
    DNA Repair (Amst). 2002 Aug 6;1(8):601-16 PMID: 12509284
  12. In vivo recruitment of XPC to UV-induced cyclobutane pyrimidine dimers by the DDB2 gene product.
    J Biol Chem. 2003 Nov 21;278(47):46906-10 PMID: 12944386
  13. True XP group E patients have a defective UV-damaged DNA binding protein complex and mutations in DDB2 which reveal the functional domains of its p48 product.
    Hum Mol Genet. 2003 Jul 1;12(13):1507-22 PMID: 12812979
  14. Function and regulation of cullin-RING ubiquitin ligases.
    Nat Rev Mol Cell Biol. 2005 Jan;6(1):9-20 PMID: 15688063
  15. Characterization of a human DNA damage binding protein implicated in xeroderma pigmentosum E.
    J Biol Chem. 1993 Oct 5;268(28):21293-300 PMID: 8407967
  16. Regulation of repair by the 26S proteasome.
    J Biomed Biotechnol. 2002;2(2):94-105 PMID: 12488589
  17. UV radiation-induced XPC translocation within chromatin is mediated by damaged-DNA binding protein, DDB2.
    Carcinogenesis. 2004 Jun;25(6):1033-43 PMID: 14742321
  18. Purification of an ultraviolet-inducible, damage-specific DNA-binding protein from primate cells.
    J Biol Chem. 1991 Nov 25;266(33):22493-500 PMID: 1657999
  19. Comparative analysis of binding of human damaged DNA-binding protein (XPE) and Escherichia coli damage recognition protein (UvrA) to the major ultraviolet photoproducts: T[c,s]T, T[t,s]T, T[6-4]T, and T[Dewar]T.
    J Biol Chem. 1993 Oct 5;268(28):21301-8 PMID: 8407968
  20. Relationship of the xeroderma pigmentosum group E DNA repair defect to the chromatin and DNA binding proteins UV-DDB and replication protein A.
    Mol Cell Biol. 1998 Jun;18(6):3182-90 PMID: 9584159
  21. Chromosomal localization and cDNA cloning of the genes (DDB1 and DDB2) for the p127 and p48 subunits of a human damage-specific DNA binding protein.
    Genomics. 1995 Sep 1;29(1):62-9 PMID: 8530102
  22. Reversible histone modifications and the chromosome cell cycle.
    Bioessays. 1992 Jan;14(1):9-16 PMID: 1312335
  23. Xeroderma pigmentosum group E cells lack a nuclear factor that binds to damaged DNA.
    Science. 1988 Oct 28;242(4878):564-7 PMID: 3175673
  24. Histone H2A ubiquitination does not preclude histone H1 binding, but it facilitates its association with the nucleosome.
    J Biol Chem. 2005 Feb 11;280(6):4975-82 PMID: 15546875
  25. Human DNA repair genes.
    Science. 2001 Feb 16;291(5507):1284-9 PMID: 11181991
  26. COP9 signalosome: a multifunctional regulator of SCF and other cullin-based ubiquitin ligases.
    Cell. 2003 Sep 19;114(6):663-71 PMID: 14505567
  27. Mammalian DNA nucleotide excision repair reconstituted with purified protein components.
    Cell. 1995 Mar 24;80(6):859-68 PMID: 7697716
  28. Silencing of unpaired chromatin and histone H2A ubiquitination in mammalian meiosis.
    Mol Cell Biol. 2005 Feb;25(3):1041-53 PMID: 15657431
  29. Mutations specific to the xeroderma pigmentosum group E Ddb- phenotype.
    J Biol Chem. 1996 Oct 4;271(40):24317-20 PMID: 8798680
  30. Proteolysis of a nucleotide excision repair protein by the 26 S proteasome.
    Curr Genet. 2002 Oct;42(1):9-20 PMID: 12420141
  31. Local action of the chromatin assembly factor CAF-1 at sites of nucleotide excision repair in vivo.
    EMBO J. 2003 Oct 1;22(19):5163-74 PMID: 14517254
  32. Damaged DNA-binding protein DDB stimulates the excision of cyclobutane pyrimidine dimers in vitro in concert with XPA and replication protein A.
    J Biol Chem. 2001 May 4;276(18):15434-40 PMID: 11278856
  33. In situ visualization of ultraviolet-light-induced DNA damage repair in locally irradiated human fibroblasts.
    J Invest Dermatol. 2001 Nov;117(5):1156-61 PMID: 11710927
  34. DDB1-DDB2 (xeroderma pigmentosum group E) protein complex recognizes a cyclobutane pyrimidine dimer, mismatches, apurinic/apyrimidinic sites, and compound lesions in DNA.
    J Biol Chem. 2005 Dec 2;280(48):39982-9 PMID: 16223728
  35. UV-damaged DNA-binding proteins are targets of CUL-4A-mediated ubiquitination and degradation.
    J Biol Chem. 2001 Dec 21;276(51):48175-82 PMID: 11673459
  36. Sequential binding of UV DNA damage binding factor and degradation of the p48 subunit as early events after UV irradiation.
    Nucleic Acids Res. 2002 Jun 1;30(11):2588-98 PMID: 12034848
  37. DDB accumulates at DNA damage sites immediately after UV irradiation and directly stimulates nucleotide excision repair.
    J Biol Chem. 2002 Jan 18;277(3):1637-40 PMID: 11705987
  38. DNA repair factor XPC is modified by SUMO-1 and ubiquitin following UV irradiation.
    Nucleic Acids Res. 2005;33(13):4023-34 PMID: 16030353
  39. Nucleotide excision repair in chromatin and the right of entry.
    DNA Repair (Amst). 2005 Jul 28;4(8):884-96 PMID: 15961354
  40. Proteomics analysis of the centromere complex from HeLa interphase cells: UV-damaged DNA binding protein 1 (DDB-1) is a component of the CEN-complex, while BMI-1 is transiently co-localized with the centromeric region in interphase.
    Genes Cells. 2004 Feb;9(2):105-20 PMID: 15009096
  41. Structure of nucleosome core particles containing uH2A (A24).
    Nucleic Acids Res. 1981 Jun 11;9(11):2423-31 PMID: 6269048
  42. Subpathways of nucleotide excision repair and their regulation.
    Oncogene. 2002 Dec 16;21(58):8949-56 PMID: 12483511
  43. Immunoprecipitation of native chromatin: NChIP.
    Methods. 2003 Sep;31(1):76-82 PMID: 12893176
  44. The ubiquitin ligase activity in the DDB2 and CSA complexes is differentially regulated by the COP9 signalosome in response to DNA damage.
    Cell. 2003 May 2;113(3):357-67 PMID: 12732143
  45. A newly identified patient with clinical xeroderma pigmentosum phenotype has a non-sense mutation in the DDB2 gene and incomplete repair in (6-4) photoproducts.
    J Invest Dermatol. 1999 Aug;113(2):251-7 PMID: 10469312
  46. Ubiquitin as a central cellular regulator.
    Cell. 2004 Jan 23;116(2 Suppl):S29-32, 2 p following S32 PMID: 15055578
  47. Ubiquitin-binding domains.
    Nat Rev Mol Cell Biol. 2005 Aug;6(8):610-21 PMID: 16064137
  48. Histone ubiquitination: a tagging tail unfolds?
    Bioessays. 2002 Feb;24(2):166-74 PMID: 11835281
  49. The NEF4 complex regulates Rad4 levels and utilizes Snf2/Swi2-related ATPase activity for nucleotide excision repair.
    Mol Cell Biol. 2004 Jul;24(14):6362-78 PMID: 15226437
  50. A novel regulation mechanism of DNA repair by damage-induced and RAD23-dependent stabilization of xeroderma pigmentosum group C protein.
    Genes Dev. 2003 Jul 1;17(13):1630-45 PMID: 12815074
  51. Nucleotide excision repair and human syndromes.
    Carcinogenesis. 2000 Mar;21(3):453-60 PMID: 10688865
  52. Sequential assembly of the nucleotide excision repair factors in vivo.
    Mol Cell. 2001 Jul;8(1):213-24 PMID: 11511374
  53. UBA domains mediate protein-protein interactions between two DNA damage-inducible proteins.
    J Mol Biol. 2001 Nov 9;313(5):955-63 PMID: 11700052
  54. Caspase-dependent deubiquitination of monoubiquitinated nucleosomal histone H2A induced by diverse apoptogenic stimuli.
    Cell Death Differ. 2001 Dec;8(12):1182-96 PMID: 11753566
  55. The UV-damaged DNA binding protein mediates efficient targeting of the nucleotide excision repair complex to UV-induced photo lesions.
    DNA Repair (Amst). 2005 May 2;4(5):571-82 PMID: 15811629
Article Info
Journal
Proceedings of the National Academy of Sciences of the United States of America
Abbr.
Proc Natl Acad Sci U S A
ISSN
0027-8424
Published
2006-02-21
Epub
2006-00-10
Pages
2588-93
Language
English
Region
United States
NLM ID
7505876
PMCID
PMC1413840
Subset
IM
Analysis Services
Analysis Services

Contact

No. 2 Wenbo Road, Zhangqiu District, Jinan, Shandong

Qilu Normal University · Genelibs Bioinformatics Lab

750 Shunhua Rd, Jinan

2F, Bldg F, University Science Park

Tel: 0531-88819269

WeChat Official Account

Follow our WeChat subscription account for real-time updates and the latest in medical and biological research.


Business Email

E-mail: product@genelibs.com