Replication protein A 32 interacts through a similar binding interface with TIPIN, XPA, and UNG2

International Journal of Biochemistry and Cell Biology

Volumn 42, Issue 7, 2010, Pages 1210-1215

  Ali, Seikh Imtiaz ^a   Shin, Jae Sun ^a   Bae, Sung Hun ^a   Kim, Byoungkook ^a   Choi, Byong Seok ^a  

^a Korea Advanced Institute of Science and Technology (KAIST)   (South Korea)

Author keywords

DNA repair; HADDOCK; NMR spectroscopy; Replication protein A; TIPIN

Indexed keywords

BINDING PROTEIN; PROTEIN TIPIN; PROTEIN UNG2; REPLICATION FACTOR A; TIMELESS INTERACTING PROTEIN; UNCLASSIFIED DRUG; XERODERMA PIGMENTOSUM GROUP A PROTEIN; DNA GLYCOSYLTRANSFERASE; NUCLEAR PROTEIN; PROTEIN BINDING; RECOMBINANT PROTEIN;

ALPHA HELIX; ARTICLE; BINDING AFFINITY; CIRCULAR DICHROISM; DNA REPAIR; HOMOLOGOUS RECOMBINATION; MOLECULAR MODEL; NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY; PROTEIN BINDING; PROTEIN INTERACTION; PROTEIN STRUCTURE; SEQUENCE HOMOLOGY; AMINO ACID SEQUENCE; BINDING SITE; CHEMICAL STRUCTURE; CHEMISTRY; METABOLISM; MOLECULAR GENETICS; PROTEIN SECONDARY STRUCTURE; STATIC ELECTRICITY; SURFACE PROPERTY;

AMINO ACID SEQUENCE; BINDING SITES; CIRCULAR DICHROISM; DNA GLYCOSYLASES; MAGNETIC RESONANCE SPECTROSCOPY; MODELS, MOLECULAR; MOLECULAR SEQUENCE DATA; NUCLEAR PROTEINS; PROTEIN BINDING; PROTEIN STRUCTURE, SECONDARY; RECOMBINANT PROTEINS; REPLICATION PROTEIN A; STATIC ELECTRICITY; SURFACE PROPERTIES; XERODERMA PIGMENTOSUM GROUP A PROTEIN;

EID: 77953538381     PISSN: 13572725     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.biocel.2010.04.011     Document Type: Article

References (34)

1. Abraham R.T. Cell cycle checkpoint signaling through the ATM and ATR kinases. Genes Dev 2001, 15:2177-2196.
2. Cornilescu G., Delaglio F., Bax A. Protein backbone angle restraints from searching a database for chemical shift and sequence homology. J Biomol NMR 1999, 13:289-302.
3. Coverley D., Kenny M.K., Lane D.P., Wood R.D. A role for the human single-stranded DNA binding protein HSSB/RPA in an early stage of nucleotide excision repair. Nucleic Acids Res 1992, 20:3873-3880.
4. Coverley D., Kenny M.K., Munn M., Rupp W.D., Lane D.P., Wood R.D. Requirement for the replication protein SSB in human DMA excision repair. Nature 1991, 349:538-541.
5. Delaglio F., Grzesiek S., Vuister G.W., Zhu G., Pfeifer J., Bax A. NMRPipe: a multidimensional spectral processing system based on UNIX pipes. J Biomol NMR 1995, 6:277-293.
6. DeLano W.L. The PyMOL molecular graphics system 2002, DeLano Scientific, Palo Alto, CA, USA.
7. Deléage G., Geourjon C. An interactive graphic program for calculating the secondary structure content of proteins from circular dichroism spectrum. Comput Appl Biosci 1993, 2:197-199.
8. Dominguez C., Boelens R., Bonvin A.M.J.J. HADDOCK: a protein-protein docking approach based on biochemical or biophysical information. J Am Chem Soc 2003, 125:1731-1737.
9. Goddard T.D., Kneller D.G. SPARKY-NMR assignment and integrating software 1993, University of California, San Francisco.
10. Gotter A.L., Suppa C., Emanuel B.S. Mammalian TIMELESS and Tipin are evolutionarily conserved replication fork-associated factors. J Mol Biol 2007, 366:36-52.
11. Guntert P. Automated NMR structure calculation with CYANA. Methods Mol Biol 2004, 278:353-378.
12. Guo Z., Kumagai A., Wang S.X., Dunphy W.G. Requirement for Atr in phosphorylation of Chk1 and cell cycle regulation in response to DNA replication blocks and UV-damaged DNA in Xenopus egg extracts. Genes Dev 2000, 14:2745-2756.
13. He Z., Henricksen L.A., Wold M.S., Ingles C.J. RPA involvement in the damage-recognition and incision steps of nucleotide excision repair. Nature 1995, 374:566-569.
14. Herrmann T., Guntert P., Wuthrich K. Protein NMR structure determination with automated NOE-identification in the NOESY spectra using the new software ATNOS. J Biomol NMR 2002, 24:171-189.
15. Heyer W.D., Rao M.R.S., Erdile L.F., Kelly T.J., Kolodner R.D. An essential Saccharomyces cerevisiae single-stranded DNA binding protein is homologous to the large subunit of human RP-A. EMBO J 1990, 9:2321-2329.
16. Kacmaz K.U., Chastain P.D., Qu P.P., Minoo P., Stone M.C., Sancar A., et al. The human TIM/TIPIN complex coordinates an intra-S checkpoint response to UV that slows replication fork displacement. Mol Cell Biol 2007, 27:3131-3142.
17. Kaçmaz K.Ü., Mullen T.E., Kaufmann W.K., Sancar A. Coupling of human circadian and cell cycles by the TIMeless protein. Mol Cell Biol 2005, 25:3109-3116.
18. Laskowski R.A., MacArthur M.W., Moss D.S., Thornton J.M. PROCHECK: a program to check the stereochemical quality of protein structures. J Appl Crystallogr 1993, 26:283-291.
19. Laskowski R.A., Rullmannn J.A., MacArthur M.W., Kaptein R., Thornton J.M. AQUA and PROCHECK-NMR: programs for checking the quality of protein structures solved by NMR. J Biomol NMR 1996, 8:477-486.
20. Marti-Renom M.A., Stuart A.C., Fiser A., Sanchez R., Melo F., Sali A. Comparative protein structure modeling of genes and genomes. Annu Rev Biophys Biomol Struct 2000, 29:291-325.
21. McFarlane R.J., Mian S., Dalgaard J.Z. The many facets of the Tim-Tipin protein families' roles in chromosome biology. Cell Cycle 2010, 9:700-705.
22. Mer G., Bochkarev A., Gupta R., Bochkareva E., Frappier L., Ingles C.J., et al. Structural basis for the recognition of DNA repair proteins UNG2, XPA, and RAD52 by replication factor RPA. Cell 2000, 103:449-456.
23. Mer G., Edwards A.M., Chazin W.J. Letter to the Editor: 1H, 15N and 13C resonance assignments for the C-terminal protein interaction region of the 32kDa subunit of human replication protein A. J Biol NMR 2000, 17:179-180.
24. Moore S.P., Erdile L., Kelly T., Fishel R. The human homologous pairing protein HPP-1 is specifically sTIMulated by the cognate single-stranded binding protein hRP-A. Proc Natl Acad Sci U S A 1991, 88:9067-9071.
25. Nagelhus T.A., Haug T., Singh K.K., Keshav K.F., Skorpen F., Otterlei M., et al. A sequence in the N-terminal region of human uracil-DNA glycosylase with homology to XPA interacts with the C-terminal part of the 34-kDa subunit of replication protein A. J Biol Chem 1997, 272:6561-6566.
26. Park M.S., Ludwig D.L., Stigger E., Lee S.H. Physical interaction between human RAD52 and RPA is required for homologous recombination in mammalian cells. J Biol Chem 1996, 271:18996-19000.
27. Pettersen E.F., Goddard T.D., Huang C.C., Couch G.S., Greenblatt D.M., Meng E.C., et al. UCSF chimera-a visualization system for exploratory research and analysis. J Comput Chem 2004, 25:1605-1612.
28. Sancar A. DNA excision repair. Annu Rev Biochem 1996, 65:43-81.
29. Schwieters C.D., Kuszewski J.J., Tjandra N., Clore G.M. The Xplor-NIH NMR molecular structure determination package. J Magn Reson 2003, 160:65-73.
30. Suri V., Qian Z., Hall J.C., Rosbash M. Evidence that the TIM light response is relevant to light-induced phase shifts in Drosophila melanogaster. Neuron 1998, 21:225-234.
31. Wintjens R., Wieruszeski J.M., Drobecq H., Rousselot-Pailley P., Buee L., Lippens G., et al. 1H NMR study on the binding of Pin1 Trp-Trp domain with phosphothreonine peptides. J Biol Chem 2001, 276:25150-25156.
32. Wold M.S., Kelly T. Purification and characterization of replication protein A, a cellular protein required for in vitro replication of simian virus 40 DNA. Proc Natl Acad Sci U S A 1988, 85:2523-2527.
33. Yang J.T., Wu C.S., Martinez H.M. Calculation of protein conformation from circular dichroism. Methods Enzymol 1986, 130:208-269.
34. Yoshizawa S.N., Masai H. Human TIM/TIMeless-interacting protein, TIPIN, is required for efficient progression of S phase and DNA replication checkpoint. J Biol Chem 2007, 282:2729-2740.