Identification of FANCA interacting proteins in mammalian cells using tandem affinity purification and mass spectrometry

Scientific Research and Essays

Volumn 3, Issue 4, 2008, Pages 143-153

  Conner, Sarah L ^a   Wang, Mu ^a  

^a INDIANA UNIVERSITY SCHOOL OF MEDICINE   (United States)

Author keywords

Fanconi anemia; Mass spectrometry; Proteomics; Tandem affinity purification

Indexed keywords

MAMMALIA;

EID: 70350161473     PISSN: None     EISSN: 19922248     Source Type: Journal    
DOI: None     Document Type: Article

References (31)

1. Bauer A, Kuster B (2003). Affinity purification-mass spectrometry. Powerful tools for the characterization of protein complexes, Eur. J. Biochem. 270: 570-578.
2. Burckstummer T, Bennett KL, Preradovic A, Schutze G, Hantschel O, Superti-Furga G, Bauch A (2006). An efficient tandem affinity purification procedure for interaction proteomics in mammalian cells, Nat. Methods. 3: 1013-1019.
3. D'Andrea, A. D., and Grompe, M. (2003) The Fanconi anaemia/BRCA pathway, Nat. Rev. Cancer 3: 23-34.
4. de Winter JP, Rooiman MA, van Der Weel L, van Berkel CG, Alon N, Bosnoyan-Collins L, de Groot J, Zhi Y, Waisfisz Q, Pronk JC, Arwert F, Mathew CG, Scheper RJ, Hoatlin ME, Buchwald M, Joenje H (2000). The Fanconi anaemia gene FANCF encodes a novel protein with homology to ROM, Nat. Genet. 24: 15-16.
5. Dziembowski A, Seraphin B (2004). Recent developments in the analysis of protein complexes, FEBS Lett. 556: 1-6.
6. Folias A, Matkovic M, Bruun D, Reid S, Hejna J, Grompe M, D'Andre A, Moses, R (2002). BRCA1 interacts directly with the Fanconi anemia protein FANCA, Hum. Mol. Genet. 11: 2591-2597.
7. Hale JE, Butler JP, Gelfanova V, You JS, Knierman MD (2004). A simplified procedure for the reduction and alkylation of cysteine residues in proteins prior to proteolytic digestion and mass spectral analysis, Anal. Biochem. 333: 174-181.
8. Higgs RE, Knierman MD, Freeman AB, Gelbert LM, Patil ST, Hale JE (2007). Estimating the statistical significance of Peptide identifications from shotgun proteomics experiments, J. Proteome Res. 6: 1758-1767.
9. Higgs RE, Knierman MD, Gelfanova V, Butler JP, Hale JE (2005). Comprehensive label-free method for the relative quantification of proteins from biological samples, J. Proteome Res. 4: 1442-1450.
10. Humbert S, Bryson EA, Cordelieres FP, Connors NC, Datta SR, Finkbeiner S, Greenberg ME, Saudou F (2002). The IGF-1/Akt pathway is neuroprotective in Huntington's disease and involves Huntingtin phosphorylation by Akt, Dev. Cell 2: 831-837.
11. Hyun TS, Ross TS (2004). HIP1: trafficking roles and regulation of tumorigenesis, Trends Mol. Med. 10: 194-199.
12. Kennedy RD, D'Andrea AD (2005). The Fanconi Anemia/BRCA pathway: new faces in the crowd, Genes. Dev. 19: 2925-2940.
13. Li SH, Cheng AL, Zhou H, Lam S, Rao M, Li H, Li XJ (2002). Interaction of Huntington disease protein with transcriptional activator Sp1, Mol. Cell Biol. 22: 1277-1287.
14. Medhurst AL, Laghmani el H, Steltenpool J, Ferrer M, Fontaine C, de Groot J, Rooimans MA, Scheper RJ, Meetei AR, Wang W, Joenje H, de Winter JP (2006) Evidence for subcomplexes in the Fanconi anemia pathway, Blood 108: 2072-2080.
15. Meetei AR, Levitus M, Xue Y, Medhurst AL, Zwaan M, Ling C, Rooimans MA, Bier P, Hoatlin M, Pals G, de Winter JP, Wang W, Joenje H (2004). X-linked inheritance of Fanconi anemia complementation group B, Epub 2004 Oct 1224.Nat. Genet. 36: 1219-1224.
16. Meetei AR, Sechi S, Wallisch M, Yang D, Young MK, Joenje H, Hoatlin ME, Wang W (2003). A multiprotein nuclear complex connects Fanconi anemia and Bloom syndrome, Mol. Cell Biol. 23: 3417-3426.
17. Mi J, Qiao F, Wilson JB, High AA, Schroeder MJ, Stukenberg PT, Moss A, Shabanowitz J, Hunt DF, Jones NJ, Kupfer GM (2004). FANCG is phosphorylated at serines 383 and 387 during mitosis, Mol. Cell Biol. 24: 8576-8585.
18. Naf D, Kupfer GM, Suliman A, Lambert K, D'Andrea AD (1998). Functional activity of the fanconi anemia protein FAA requires FAC binding and nuclear localization, Mol. Cell Biol. 18: 5952-5960.
19. Otsuki T, Furukawa Y, Ikeda K, Endo H, Yamashita T, Shinohara A, Iwamatsu A, Ozawa K, Liu JM (2001). Fanconi anemia protein, FANCA, associates with BRG1, a component of the human SWI/SNF complex, Hum. Mol. Genet. 10: 2651-2660.
20. Otsuki T, Kajigaya S, Ozawa K, Liu JM (1999). SNX5, a new member of the sorting nexin family, binds to the Fanconi anemia complementation group A protein, Biochem. Biophys. Res. Commun. 265: 630-635.
21. Otsuki T, Nagashima T, Komatsu N, Kirito K, Furukawa Y, Kobayashi SS, Liu JM, Ozawa K (2002). Phosphorylation of Fanconi anemia protein, FANCA, is regulated by Akt kinase, Biochem. Biophys. Res. Commun. 291: 628-634.
22. Otsuki T, Young DB, Sasaki DT, Pando MP, Li J, Manning A, Hoekstra M, Hoatlin ME, Mercurio F, Liu JM (2002). Fanconi anemia protein complex is a novel target of the IKK signalsome, J. Cell Biochem. 86: 613-623.
23. Puig O, Caspary F, Rigaut G, Rutz B, Bouveret E, Bragado-Nilsson E, Wilm M, d Seraphin B (2001). The tandem affinity purification (TAP) method: a general procedure of protein complex purification, Methods 24: 218-229.
24. Reiner A, Yekutieli D, Benjamini Y (2003). Identifying differentially expressed genes using false discovery rate controlling procedures, Bioinformatics 19: 368-375.
25. Reuter TY, Medhurst AL, Waisfisz Q, Zhi Y, Herterich S, Hoehn H, Gross HJ, Joenje H, Hoatlin ME, Mathew CG, Huber PA (2003). east two-hybrid screens imply involvement of Fanconi anemia proteins in transcription regulation, cell signaling, oxidative metabolism, and cellular transport, Exp. Cell Res. 289: 211-221.
26. Rigaut G, Shevchenko A, Rutz B, Wilm M, Mann M, Seraphin B (1999) A generic protein purification method for protein complex characterization and proteome exploration, Nat. Biotechnol. 17: 1030-1032.
27. Rong J, Li SH, Li XJ (2007). Regulation of intracellular HAP1 trafficking, J. Neurosci. Res. 85: 3025-3029.
28. Serebriiskii IG, Mitina O, Pugacheva EN, Benevolenskaya E, Kotova E, Toby GG, Khazak V, Kaelin WG, Chernoff J, Golemis EA (2002). Detection of peptides, proteins, and drugs that selectively interact with protein targets, Genome Res. 12: 1785-1791.
29. Thomashevski A, High AA, Drozd M, Shabanowitz J, Hunt DF, Grant PA, Kupfer GM (2004). The Fanconi anemia core complex forms four complexes of different sizes in different subcellular compartments, Epub 22004 Apr 26213. J. Biol. Chem. 279: 26201-26209.
30. Waisfisz Q, de Winter JP, Kruyt FA, de Groot J, van der Weel L, Dijkmans LM, Zhi Y, Arwert F, Scheper RJ, Youssoufian H, Hoatlin ME, Joenje H (1999). A physical complex of the Fanconi anemia proteins FANCG/XRCC9 and FANCA, Proc. Natl. Acad. Sci. U.S.A 96: 10320-10325.
31. Zhang X, Li J, Sejas DP, Rathbun KR, Bagby GC, Pang Q (2004). The FA proteins functionally interact with the protein kinase PKR. J. Biol. Chem. 279: 43910-43919.