Retraction Notice to: Cockayne Syndrome A and B Proteins Differentially Regulate Recruitment of Chromatin Remodeling and Repair Factors to Stalled RNA Polymerase II In Vivo (Molecular Cell (2006) 23(4) (471–482), (S1097276506004655), (10.1016/j.molcel.2006.06.029));Cockayne Syndrome A and B Proteins Differentially Regulate Recruitment of Chromatin Remodeling and Repair Factors to Stalled RNA Polymerase II In Vivo

Molecular Cell

Volumn 23, Issue 4, 2006, Pages 471-482

  Fousteri, Maria ^a   Vermeulen, Wim ^b   van Zeeland, Albert A ^a   Mullenders, Leon H F ^a  

^a LEIDEN UNIVERSITY MEDICAL CENTER   (Netherlands)

^b ERASMUS MEDICAL CENTER   (Netherlands)

Author keywords

DNA; HUMDISEASE

Indexed keywords

BINDING PROTEIN; COCKAYNE SYNDROME A PROTEIN; COCKAYNE SYNDROME B PROTEIN; HIGH MOBILITY GROUP NUCLEOSOME BINDING DOMAIN 1 PROTEIN; HISTONE ACETYLTRANSFERASE; PROTEIN; RNA POLYMERASE II; TRANSCRIPTION FACTOR S II; UBIQUITIN PROTEIN LIGASE; UNCLASSIFIED DRUG; XPA BINDING PROTEIN 2;

ARTICLE; CHROMATIN ASSEMBLY AND DISASSEMBLY; COCKAYNE SYNDROME; CONTROLLED STUDY; EXCISION REPAIR; HUMAN; HUMAN CELL; PROTEIN ANALYSIS; PROTEIN BINDING; PROTEIN FUNCTION; PROTEIN STRUCTURE;

MAMMALIA;

EID: 33747194740     PISSN: 10972765     EISSN: 10974164     Source Type: Journal    
DOI: 10.1016/j.molcel.2021.11.021     Document Type: Erratum

References (57)

1. Birger Y., West K.L., Postnikov Y.V., Lim J.H., Furusawa T., Wagner J.P., Laufer C.S., Kraemer K.H., and Bustin M. Chromosomal protein HMGN1 enhances the rate of DNA repair in chromatin. EMBO J. 22 (2003) 1665-1675
2. Bootsma D., Weeda G., Vermeulen W., van Vuuren H., Troelstra C., van der Spek P.J., and Hoeijmakers J.H. Nucleotide excision repair syndromes: molecular basis and clinical symptoms. Philos. Trans. R. Soc. Lond. B Biol. Sci. 347 (1995) 75-81
3. Bregman D.B., Halaban R., Vangool A.J., Henning K.A., Friedberg E.C., and Warren S.L. UV-induced ubiquitination of RNA polymerase II: a novel modification deficient in cockayne syndrome cells. Proc. Natl. Acad. Sci. USA 93 (1996) 11586-11590
4. Bustin M. Chromatin unfolding and activation by HMGN1 chromosomal proteins. Trends Biochem. Sci. 26 (2001) 431-437
5. Citterio E., Rademakers S., van der Horst G.T.J., Vangool A.J., Hoeijmakers J.H.J., and Vermeulen W. Biochemical and biological characterization of wild-type and ATPase-deficient Cockayne syndrome B repair protein. J. Biol. Chem. 273 (1998) 11844-11851
6. Cramer P., Bushnell D.A., and Kornberg R.D. Structural basis of transcritpion: RNA polymerase II at 2.8 angstrom resolution. Science 292 (2001) 1863-1876
7. De Laat W.L., Jaspers N.G.J., and Hoeijmakers J.H.J. Molecular mechanism of nucleotide excision repair. Genes Dev. 13 (1999) 768-785
8. Eisen J.A., Sweder K.S., and Hanawalt P.C. Evolution of the SNF2 family of proteins: subfamilies with distinct sequences and functions. Nucleic Acids Res. 23 (1995) 2715-2723
9. Ford J.M., and Hanawalt P.C. Expression of wild-type p53 is required for efficient global genomic nucleotide excision repair in UV-irradiated human fibroblasts. J. Biol. Chem. 272 (1997) 28073-28077
10. Frit P., Kwon K., Coin F., Auriol J., Dubaele S., Salles B., and Egly J.M. Transcriptional activators stimulate DNA repair. Mol. Cell 10 (2002) 1391-1401
11. Groisman R., Polanowska J., Kuraoka I., Sawada J., Saijo M., Drapkin R., Kisselev A.F., Tanaka K., and Nakatani Y. The ubiquitin ligase activity in the DDB2 and CSA complexes is differentially regulated by the COP9 signalosome in response to DNA damage. Cell 113 (2003) 357-367
12. Hasan S., Hassa P.O., Imhof R., and Hottiger M.O. Transcription coactivator p300 binds PCNA and may have a role in DNA repair synthesis. Nature 410 (2001) 387-391
13. Henning K.A., Li L., Iyer N., Mcdaniel L.D., Reagan M.S., Legerski R., Schultz R.A., Stefanini M., Lehmann A.R., Mayne L.V., and Friedberg E.C. The Cockayne syndrome group A gene encodes a WD repeat protein that interacts with CSB protein and a subunit of RNA polymerase II TFIIH. Cell 82 (1995) 555-564
14. Horibata K., Iwamoto Y., Kuraoka I., Jaspers N.G.J., Kurimasa A., Oshimura M., Ichihashi M., and Tanaka K. Complete absence of Cockayne syndrome group B gene product gives rise to UV-sensitive syndrome but not Cockayne syndrome. Proc. Natl. Acad. Sci. USA 101 (2004) 15410-15415
15. Jung Y., and Lippard S.J. RNA polymerase II blockage by cisplatin-damaged DNA. Stability and polyubiquitylation of stalled polymerase. J. Biol. Chem. 281 (2006) 1361-1370
16. Kalogeraki V.S., Tornaletti S., Cooper P.K., and Hanawalt P. Comparative TFIIS-mediated transcript cleavage by mammalian RNA polymerase II arrested at a lesion in different transcription systems. DNA Repair (Amst.) 4 (2005) 1075-1087
17. Kamiuchi S., Saijo M., Citterio E., de Jager M., Hoeijmakers J.H., and Tanaka K. Translocation of Cockayne syndrome group A protein to the nuclear matrix: Possible relevance to transcription-coupled DNA repair. Proc. Natl. Acad. Sci. USA 99 (2002) 201-206
18. Kettenberger H., Armache K.J., and Cramer P. Architecture of the RNA polymerase II-TFIIS complex and implications for mRNA cleavage. Cell 114 (2003) 347-357
19. Kwei J.S.M., Kuraoka I., Horibata K., Ubukata M., Kobatake E., Iwai S., Handa H., and Tanaka K. Blockage of RNA polymerase II at a cyclobutane pyrimidine dimer and 6-4 photoproduct. Biochem. Biophys. Res. Commun. 320 (2004) 1133-1138
20. Lai J.S., and Herr W. Ethidium bromide provides a simple tool for identifying genuine DNA-dependent protein associations. Proc. Natl. Acad. Sci. USA 89 (1992) 6958-6962
21. Laine J.P., and Egly J.M. Initiation of DNA repair mediated by a stalled RNA polymerase IIO. EMBO J. 2 (2006) 387-397
22. Lee S.K., Yu S.L., Prakash L., and Prakash S. Yeast RAD26, a homolog of the human CSB gene, functions independently of nucleotide excision repair and base excision repair in promoting transcription through damaged bases. Mol. Cell. Biol. 22 (2002) 4383-4389
23. Lim J.H., Catez F., Birger Y., West K.L., Prymakowska-Bosak M., Postnikov Y.V., and Bustin M. Chromosomal protein HMGN1 modulates histone H3 phosphorylation. Mol. Cell 15 (2004) 573-584
24. Lim J.H., West K.L., Rubinstein Y., Bergel M., Postnikov Y.V., and Bustin M. Chromosomal protein HMGN1 enhances the acetylation of lysine 14 in histone H3. EMBO J. 17 (2005) 3038-3048
25. Mullenders L.H.F., van Kesteren A.C., Bussmann C.J.M., van Zeeland A.A., and Natarajan A.T. Distribution of UV-induced repair events in higher-order chromtin loops in human and hamster fibroblasts. Carcinogenesis 7 (1986) 995-1002
26. Nakatsu Y., Asahina H., Citterio E., Rademakers S., Vemeulen W., Kamiuchi S., Yeo J.P., Khaw M.C., Saijo M., Kodo N., et al. XAB2, a novel tetracopeptide repeat protein involved in transcription-coupled DNA repair and transcription. J. Biol. Chem. 45 (2000) 34931-34937
27. Neer E.J., Schmidt C.J., Nambudripad R., and Smith T.F. The ancient regulatory family of WD-repeat proteins. Nature 371 (1994) 297-300
28. Nudler E. Transcription elongation: structural basis and mechanisms. J. Mol. Biol. 1 (1999) 1-12
29. Orlando V., Strutt H., and Paro R. Analysis of chromatin structure by in vivo formaldehyde cross-linking. Methods 11 (1997) 205-214
30. Palancade B., and Bensaude O. Investigating RNA polymerase II carboxyl-terminal domain (CTD) phosphorylation. Eur. J. Biochem. 270 (2003) 3859-3870
31. Pan Z.Q., Kentsis A., Dias D.C., Yamoah K., and Wu K. Nedd8 on cullin: building an expressway to protein destruction. Oncogene 23 (2004) 1985-1997
32. Parekh B.S., and Maniatis T. Virus infection leads to localized hyperacetylation of histones H3 and H4 at the IFN-beta promoter. Mol. Cell 3 (1999) 125-129
33. Ramanathan B., and Smerdon M.J. Enhanced DNA repair synthesis in hyperacetylated nucleosomes. J. Biol. Chem. 264 (1989) 11026-11034
34. Rapic-Otrin V., McLenigan M.P., Bisi D.C., Gonzalez M., and Levine A.S. Sequential binding of UV DNA damage binding factor and degradation of the p48 subunit as early events after UV irradiation. Nucleic Acids Res. 30 (2002) 2588-2598
35. Riedl T., Hanaoka F., and Egly J.M. The comings and goings of nucleotide excision repair factors on damaged DNA. EMBO J. 22 (2003) 5293-5303
36. Rockx A., Mason R., van Hoffen A., Barton M.C., Citterio E., Bregman D.B., van Zeeland A.A., Vrieling H., and Mullenders L.H. UV-induced inhibition of transcription involves repression of transcription initiation and phosphorylation of RNA polymerase II. Proc. Natl. Acad. Sci. USA 97 (2000) 10503-10508
37. Sarker A.H., Tsutakawa S.E., Kostek S., Ng C., Shin D.S., Peris M., Campeau E., Tainer J.A., Nogales E., and Cooper P.K. Recognition of RNA polymerase II and transcription bubbles by XPG, CSB, and TFIIH: insights for transcription-coupled repair and Cockayne Syndrome. Mol. Cell 20 (2005) 187-198
38. Selby C.P., and Sancar A. Human transcription-repair coupling factor CSB/ERCC6 is a DNA-stimulated ATPase but is not a helicase and does not disrupt the ternary transcription complex of stalled RNA polymerase II. J. Biol. Chem. 272 (1997) 1885-1890
39. Shikama N., Lyon J., and Thangue N.B.L. The p300/CPB family: integrating signals with transcription factors and chromatin. Trends Cell Biol. 7 (1997) 230-236
40. Smerdon M.J., and Conconi A. Modulation of DNA damage and DNA repair in chromatin. Prog. Nucleic Acid Res. Mol. Biol. 62 (1999) 227-255
41. Smerdon M.J., Lan S.Y., Calza R.E., and Reeves R. Sodium-Butyrate Stimulates DNA-Repair in UV-Irradiated Normal and Xeroderma Pigmentosum Human-Fibroblasts. J. Biol. Chem. 257 (1982) 3441-3447
42. Somesh B.P., Reid J., Liu W.F., Sogaard T.M., Erdjument-Bromage H., Tempst P., and Svejstrup J.Q. Multiple mechanisms confining RNA polymerase II ubiquitylation to polymerases undergoing transcriptional arrest. Cell 6 (2005) 913-923
43. Spivak G., Itoh T., Matsunaga T., Nikaido O., Hanawalt P., and Yamaizumi M. Ultraviolet-sensitive syndrome cells are defective in transcription-coupled repair of cyclobutane pyrimidine dimers. DNA Repair (Amst.) 8 (2002) 629-643
44. Svejstrup J.Q. Mechanisms of transcription-coupled DNA repair. Nat. Rev. Mol. Cell Biol. 3 (2002) 21-29
45. Tantin D., Kansal A., and Carey M. Recruitment of the putative transcription-repair coupling factor CSB/ERCC6 to RNA polymerase II elongation complexes. Mol. Cell. Biol. 17 (1997) 6803-6814
46. Tornaletti S., Reines D., and Hanawalt P.C. Structural characterization of RNA polymerase II complexes arrested by a cyclobutane pyrimidine dimer in the transcribed strand of template DNA. J. Biol. Chem. 274 (1999) 24124-24130
47. Tremeau-Bravard A., Riedl T., Egly J.M., and Dahmus M.E. Fate of RNA polymerase II stalled at a Cisplatin lesion. J. Biol. Chem. 279 (2004) 7751-7759
48. Troelstra C., van Gool A., de Wit J., Vermeulen W., Bootsma D., and Hoeijmakers J.H. ERCC6, a member of a subfamily of putative helicases, is involved in Cockayne's syndrome and preferential repair of active genes. Cell 71 (1992) 939-953
49. van den Boom V., Citterio E., Hoogstraten D., Zotter A., Egly J.M., van Cappellen W.A., Hoeijmakers J.H.J., Houtsmuller A.B., and Vermeulen W. DNA damage stabilizes interaction of CSB with the transcription elongation machinery. J. Cell Biol. 166 (2004) 27-36
50. van Gool A.J., Citterio E., Rademakers S., Vanos R., Vermeulen W., Constantinou A., Egly J.M., Bootsma D., and Hoeijmakers J.H.J. The Cockayne syndrome B protein, involved in transcription-coupled DNA repair, resides in an RNA polymerase II- containing complex. EMBO J. 16 (1997) 5955-5965
51. van Hoffen A., Natarajan A.T., Mayne L.V., van Zeeland A.A., Mullenders L.H., and Venema J. Deficient repair of the transcribed strand of active genes in Cockayne's syndrome cells. Nucleic Acids Res. 21 (1993) 5890-5895
52. van Hoffen A., Venema J., Meschini R., van Zeeland A.A., and Mullenders L.H.F. Transcription-coupled repair removes both cyclobutane pyrimidine dimers and 6-4-photoproducts with equal efficiency and in a sequential way from transcribed DNA in xeroderma-pigmentosum group-C fibroblasts. EMBO J. 14 (1995) 360-367
53. van Oosterwijk M.F., Versteeg A., Filon R., van Zeeland A.A., and Mullenders L.H. The sensitivity of Cockayne's syndrome cells to DNA-damaging agents is not due to defective transcription-coupled repair of active genes. Mol. Cell. Biol. 8 (1996) 4436-4444
54. Venema J., Mullenders L.H., Natarajan A.T., van Zeeland A.A., and Mayne L.V. The genetic defect in Cockayne syndrome is associated with a defect in repair of UV-induced DNA damage in transcriptionally active DNA. Proc. Natl. Acad. Sci. USA 87 (1990) 4707-4711
55. Venema J., van Hoffen A., Natarajan A.T., van Zeeland A.A., and Mullenders L.H.F. The residual repair capacity of Xeroderma pigmentosum complementation group-C fibroblasts is highly specific for transcriptionally active DNA. Nucleic Acids Res. 18 (1990) 443-448
56. Volker M., Mone M.J., Karmakar P., van Hoffen A., Schul W., Vermeulen W., Hoeijmakers J.H., van Driel R., van Zeeland A.A., and Mullenders L.H. Sequential assembly of the nucleotide excision repair factors in vivo. Mol. Cell 8 (2001) 213-224
57. Zhou H.X., and Wang G. Predicted structures of two proteins involved in human diseases. Cell Biochem. Biophys. 35 (2001) 35-47