The prolyl isomerase, FKBP25, interacts with RNA-engaged nucleolin and the pre-60S ribosomal subunit

RNA

Volumn 20, Issue 7, 2014, Pages 1014-1022

  Gudavicius, Geoff ^a   Dilworth, David ^a   Serpa, Jason J ^a,b   Sessler, Nicole ^a,b   Petrotchenko, Evgeniy V ^a,b   Borchers, Christoph H ^a,b   Nelson, Christopher J ^a  

^a UNIVERSITY OF VICTORIA   (Canada)

^b UNIVERSITY OF VICTORIA   (Canada)

Author keywords

Fk506 binding protein; Nucleolin; Nucleus; Ribosome biogenesis

Indexed keywords

CHAPERONE; FK 25 BINDING PROTEIN; NUCLEAR PROTEIN; NUCLEOLIN; PEPTIDYLPROLYL ISOMERASE; RIBOSOME PROTEIN; RIBOSOME RNA; UNCLASSIFIED DRUG;

ARTICLE; BIOGENESIS; BIOLOGICAL FUNCTIONS; CHROMATIN; GENETIC ASSOCIATION; HUMAN; IMMUNOPRECIPITATION; LARGE RIBOSOMAL SUBUNIT; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN INTERACTION; PROTEOMICS; RIBOSOME SUBUNIT; RNA PROCESSING; STEADY STATE;

FK506 BINDING PROTEIN; NUCLEOLIN; NUCLEUS; RIBOSOME BIOGENESIS;

CELL NUCLEUS; HEK293 CELLS; HUMANS; PEPTIDYLPROLYL ISOMERASE; PHOSPHOPROTEINS; PROTEIN BINDING; PROTEIN PRECURSORS; RIBOSOME SUBUNITS, LARGE, EUKARYOTIC; RNA PRECURSORS; RNA, RIBOSOMAL; RNA, RIBOSOMAL, 28S; RNA-BINDING PROTEINS; TACROLIMUS BINDING PROTEINS;

EID: 84902660010     PISSN: 13558382     EISSN: 14699001     Source Type: Journal    
DOI: 10.1261/rna.042648.113     Document Type: Article

References (36)

1. Andersen JS, Lam YW, Leung AK, Ong SE, Lyon CE, Lamond AI, Mann M. 2005. Nucleolar proteome dynamics. Nature 433: 77-83.
2. Arévalo-Rodríguez M, Pan X, Boeke JD, Heitman J. 2004. FKBP12 controls aspartate pathway flux in Saccharomyces cerevisiae to prevent toxic intermediate accumulation. Eukaryot Cell 3: 1287-1296.
3. Becherel OJ, Gueven N, Birrell GW, Schreiber V, Suraweera A, Jakob B, Taucher-Scholz G, Lavin MF. 2006. Nucleolar localization of aprataxin is dependent on interaction with nucleolin and on active ribosomal DNA transcription. Hum Mol Genet 15: 2239-2249.
4. Bochkareva E, Kaustov L, Ayed A, Yi GS, Lu Y, Pineda-Lucena A, Liao JC, Okorokov AL, Milner J, Arrowsmith CH, et al. 2005. Single-stranded DNA mimicry in the p53 transactivation domain interaction with replication protein A. Proc Natl Acad Sci 102: 15412-15417.
5. Bouvet P, Diaz JJ, Kindbeiter K, Madjar JJ, Amalric F. 1998. Nucleolin interacts with several ribosomal proteins through its RGG domain. J Biol Chem 273: 19025-19029.
6. Dilworth D, Gudavicius G, Leung A, Nelson CJ. 2012. The roles of peptidyl-proline isomerases in gene regulation. Biochem Cell Biol 90: 55-69.
7. Ferbitz L, Maier T, Patzelt H, Bukau B, Deuerling E, Ban N. 2004. Trigger factor in complex with the ribosome forms a molecular cradle for nascent proteins. Nature 431: 590-596.
8. Ginisty H, Amalric F, Bouvet P. 1998. Nucleolin functions in the first step of ribosomal RNA processing. EMBO J 17: 1476-1486.
9. Hadjiolova KV, Nicoloso M, Mazan S, Hadjiolov AA, Bachellerie JP. 1993. Alternative pre-rRNA processing pathways in human cells and their alteration by cycloheximide inhibition of protein synthesis. Eur J Biochem 212: 211-215.
10. Haluska P Jr, Saleem A, Edwards TK, Rubin EH. 1998. Interaction between the N-terminus of human topoisomerase I and SV40 large T antigen. Nucleic Acids Res 26: 1841-1847.
11. Helander S, Montecchio M, Lemak A, Fares C, Almlof J, Li Y, Yee A, Arrowsmith CH, Dhe-Paganon S, Sunnerhagen M. 2014. Basic Tilted Helix Bundle - a new protein fold in human FKBP25/FKBP3 and HectD1. Biochem Biophys Res Commun 447: 26-31.
12. Herrera AH, Olson MO. 1986. Association of protein C23 with rapidly labeled nucleolar RNA. Biochemistry 25: 6258-6264.
13. Ho Y, Gruhler A, Heilbut A, Bader GD, Moore L, Adams SL, Millar A, Taylor P, Bennett K, Boutilier K, et al. 2002. Systematic identification of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature 415: 180-183.
14. Huang da W, Sherman BT, Lempicki RA. 2009a. Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists. Nucleic Acids Res 37: 1-13.
15. Huang da W, Sherman BT, Lempicki RA. 2009b. Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources. Nat Protoc 4: 44-57.
16. Iadevaia V, Zhang Z, Jan E, Proud CG. 2012. mTOR signaling regulates the processing of pre-rRNA in human cells. Nucleic Acids Res 40: 2527-2539.
17. Jin YJ, Burakoff SJ. 1993. The 25-kDa FK506-binding protein is localized in the nucleus and associates with casein kinase II and nucleolin. Proc Natl Acad Sci 90: 7769-7773.
18. Krogan NJ, Cagney G, Yu H, Zhong G, Guo X, Ignatchenko A, Li J, Pu S, Datta N, Tikuisis AP, et al. 2006. Global landscape of protein complexes in the yeast Saccharomyces cerevisiae. Nature 440: 637-643.
19. Kuzuhara T, Horikoshi M. 2004. A nuclear FK506-binding protein is a histone chaperone regulating rDNA silencing. Nat Struct Mol Biol 11: 275-283.
20. Lu KP, Hanes SD, Hunter T. 1996. A human peptidyl-prolyl isomerase essential for regulation of mitosis. Nature 380: 544-547.
21. Nelson CJ, Santos-Rosa H, Kouzarides T. 2006. Proline isomerization of histone H3 regulates lysine methylation and gene expression. Cell 126: 905-916.
22. Ochocka AM, Kampanis P, Nicol S, Allende-Vega N, Cox M, Marcar L, Milne D, Fuller-Pace F, Meek D. 2009. FKBP25, a novel regulator of the p53 pathway, induces the degradation of MDM2 and activation of p53. FEBS Lett 583: 621-626.
23. Rickards B, Flint SJ, Cole MD, LeRoy G. 2007. Nucleolin is required for RNA polymerase I transcription in vivo. Mol Cell Biol 27: 937-948.
24. Riggs DL, Cox MB, Tardif HL, Hessling M, Buchner J, Smith DF. 2007. Noncatalytic role of the FKBP52 peptidyl-prolyl isomerase domain in the regulation of steroid hormone signaling. Mol Cell Biol 27: 8658-8669.
25. Roger B, Moisand A, Amalric F, Bouvet P. 2003. Nucleolin provides a link between RNA polymerase I transcription and pre-ribosome assembly. Chromosoma 111: 399-407.
26. Saveanu C, Namane A, Gleizes PE, Lebreton A, Rousselle JC, Noaillac-Depeyre J, Gas N, Jacquier A, Fromont-Racine M. 2003. Sequential protein association with nascent 60S ribosomal particles. Mol Cell Biol 23: 4449-4460.
27. Schultz DC, Friedman JR, Rauscher FJ 3rd. 2001. Targeting histone deacetylase complexes via KRAB-zinc finger proteins: The PHD and bromodomains of KAP-1 form a cooperative unit that recruits a novel isoform of the Mi-2α subunit of NuRD. Genes Dev 15: 428-443.
28. Supek F, Bosnjak M, Skunca N, Smuc T. 2011. REVIGO summarizes and visualizes long lists of gene ontology terms. PLoS One 6: e21800.
29. Tan BC, Yang CC, Hsieh CL, Chou YH, Zhong CZ, Yung BY, Liu H. 2012. Epigeneitc silencing of ribosomal RNA genes by Mybbp1a. J Biomed Sci 19: 57.
30. Valenzuela MT, Guerrero R, Núñez MI, Ruiz De Almodóvar JM, Sarker M, de Murcia G, Oliver FJ. 2002. PARP-1 modifies the effectiveness of p53-mediated DNA damage response. Oncogene 21: 1108-1116.
31. Wang C, Ivanov A, Chen L, Fredericks WJ, Seto E, Rauscher FJ III, Chen J. 2005. MDM2 interaction with nuclear corepressor KAP1 contributes to p53 inactivation. EMBO J 24: 3279-3290.
32. Wang Z, Song J, Milne TA, Wang GG, Li H, Allis CD, Patel DJ. 2010. Pro isomerization in MLL1 PHD3-bromo cassette connects H3K4me readout to CyP33 and HDAC-mediated repression. Cell 141: 1183-1194.
33. Yang TH, Tsai WH, Lee YM, Lei HY, Lai MY, Chen DS, Yeh NH, Lee SC. 1994. Purification and characterization of nucleolin and its identification as a transcription repressor. Mol Cell Biol 14: 6068-6074.
34. Yang WM, Yao YL, Seto E. 2001. The FK506-binding protein 25 functionally associates with histone deacetylases and with transcription factor YY1. EMBO J 20: 4814-4825.
35. Yeh ES, Means AR. 2007. PIN1, the cell cycle and cancer. Nat Rev Cancer 7: 381-388.
36. Yoshikawa H, Komatsu W, Hayano T, Miura Y, Homma K, Izumikawa K, Ishikawa H, Miyazawa N, Tachikawa H, Yamauchi Y, et al. 2011. Splicing factor 2-associated protein p32 participates in ribosome biogenesis by regulating the binding of Nop52 and fibrillarin to preribosome particles. Mol Cell Proteomics 10: M110.006148.