메뉴 건너뛰기




Volumn 8, Issue 1, 2014, Pages

Modular assembly of designer PUF proteins for specific post-transcriptional regulation of endogenous RNA

Author keywords

Golden Gate; Post transcriptional regulation; Protein engineering; PUF; Pumilio; RNA binding protein; Tristetraprolin; TTP

Indexed keywords

PEPTIDES AND PROTEINS; PUMILIO FEM 3 MRNA BINDING FACTOR; RNA; TRISTETRAPROLIN; UNCLASSIFIED DRUG;

EID: 84896734892     PISSN: None     EISSN: 17541611     Source Type: Journal    
DOI: 10.1186/1754-1611-8-7     Document Type: Article
Times cited : (46)

References (45)
  • 1
    • 44449166478 scopus 로고    scopus 로고
    • RNA-binding proteins and post-transcriptional gene regulation
    • Glisovic T, Bachorik JL, Yong J, Dreyfuss G. RNA-binding proteins and post-transcriptional gene regulation. FEBS Lett 2008, 582:1977-1986.
    • (2008) FEBS Lett , vol.582 , pp. 1977-1986
    • Glisovic, T.1    Bachorik, J.L.2    Yong, J.3    Dreyfuss, G.4
  • 3
    • 84860513145 scopus 로고    scopus 로고
    • The spliceosome: a flexible, reversible macromolecular machine
    • Hoskins AA, Moore MJ. The spliceosome: a flexible, reversible macromolecular machine. Trends Biochem Sci 2012, 37:179-188.
    • (2012) Trends Biochem Sci , vol.37 , pp. 179-188
    • Hoskins, A.A.1    Moore, M.J.2
  • 4
    • 84863912960 scopus 로고    scopus 로고
    • Assembly of mRNA-protein complexes for directional mRNA transport in eukaryotes-an overview
    • Jansen RP, Niessing D. Assembly of mRNA-protein complexes for directional mRNA transport in eukaryotes-an overview. Curr Protein Pept Sci 2012, 13:284-293.
    • (2012) Curr Protein Pept Sci , vol.13 , pp. 284-293
    • Jansen, R.P.1    Niessing, D.2
  • 5
    • 34249316905 scopus 로고    scopus 로고
    • RNA-binding proteins: modular design for efficient function
    • Lunde BM, Moore C, Varani G. RNA-binding proteins: modular design for efficient function. Nat Rev Mol Cell Biol 2007, 8:479-490.
    • (2007) Nat Rev Mol Cell Biol , vol.8 , pp. 479-490
    • Lunde, B.M.1    Moore, C.2    Varani, G.3
  • 6
    • 81255210981 scopus 로고    scopus 로고
    • Designer RNA-binding proteins: New tools for manipulating the transcriptome
    • Filipovska A, Rackham O. Designer RNA-binding proteins: New tools for manipulating the transcriptome. RNA Biol 2011, 8:978-983.
    • (2011) RNA Biol , vol.8 , pp. 978-983
    • Filipovska, A.1    Rackham, O.2
  • 7
    • 79952363146 scopus 로고    scopus 로고
    • The prospects for designer single-stranded RNA-binding proteins
    • Mackay JP, Font J, Segal DJ. The prospects for designer single-stranded RNA-binding proteins. Nat Struct Mol Biol 2011, 18:256-261.
    • (2011) Nat Struct Mol Biol , vol.18 , pp. 256-261
    • Mackay, J.P.1    Font, J.2    Segal, D.J.3
  • 8
    • 0033200316 scopus 로고    scopus 로고
    • Translation driven by an eIF4G core domain in vivo
    • De Gregorio E, Preiss T, Hentze MW. Translation driven by an eIF4G core domain in vivo. EMBO J 1999, 18:4865-4874.
    • (1999) EMBO J , vol.18 , pp. 4865-4874
    • De Gregorio, E.1    Preiss, T.2    Hentze, M.W.3
  • 9
    • 0032532439 scopus 로고    scopus 로고
    • MRNA stabilization by poly (A) binding protein is independent of poly (A) and requires translation
    • Coller JM, Gray NK, Wickens MP. mRNA stabilization by poly (A) binding protein is independent of poly (A) and requires translation. Genes Dev 1998, 12:3226-3235.
    • (1998) Genes Dev , vol.12 , pp. 3226-3235
    • Coller, J.M.1    Gray, N.K.2    Wickens, M.P.3
  • 10
    • 0032038213 scopus 로고    scopus 로고
    • Arginine/serine-rich domains of SR proteins can function as activators of pre-mRNA splicing
    • Graveley BR, Maniatis T. Arginine/serine-rich domains of SR proteins can function as activators of pre-mRNA splicing. Mol Cell 1998, 1:765-771.
    • (1998) Mol Cell , vol.1 , pp. 765-771
    • Graveley, B.R.1    Maniatis, T.2
  • 11
    • 0034406803 scopus 로고    scopus 로고
    • She2p is a novel RNA-binding protein that recruits the Myo4p-She3p complex to ASH1 mRNA
    • Long RM, Gu W, Lorimer E, Singer RH, Chartrand P. She2p is a novel RNA-binding protein that recruits the Myo4p-She3p complex to ASH1 mRNA. EMBO J 2000, 19:6592-6601.
    • (2000) EMBO J , vol.19 , pp. 6592-6601
    • Long, R.M.1    Gu, W.2    Lorimer, E.3    Singer, R.H.4    Chartrand, P.5
  • 12
    • 38449094651 scopus 로고    scopus 로고
    • Tethered function assays: an adaptable approach to study RNA regulatory proteins
    • Coller J, Wickens M. Tethered function assays: an adaptable approach to study RNA regulatory proteins. Methods Enzymol 2007, 429:299-321.
    • (2007) Methods Enzymol , vol.429 , pp. 299-321
    • Coller, J.1    Wickens, M.2
  • 13
    • 84866145891 scopus 로고    scopus 로고
    • A combinatorial amino acid code for RNA recognition by pentatricopeptide repeat proteins
    • Barkan A, Rojas M, Fujii S, Yap A, Chong YS, Bond CS, Small I. A combinatorial amino acid code for RNA recognition by pentatricopeptide repeat proteins. PLoS Genet 2012, 8:e1002910.
    • (2012) PLoS Genet , vol.8
    • Barkan, A.1    Rojas, M.2    Fujii, S.3    Yap, A.4    Chong, Y.S.5    Bond, C.S.6    Small, I.7
  • 14
    • 84874588115 scopus 로고    scopus 로고
    • Elucidation of the RNA recognition code for pentatricopeptide repeat proteins involved in organelle RNA editing in plants
    • Yagi Y, Hayashi S, Kobayashi K, Hirayama T, Nakamura T. Elucidation of the RNA recognition code for pentatricopeptide repeat proteins involved in organelle RNA editing in plants. PLoS ONE 2013, 8:e57286.
    • (2013) PLoS ONE , vol.8
    • Yagi, Y.1    Hayashi, S.2    Kobayashi, K.3    Hirayama, T.4    Nakamura, T.5
  • 15
    • 0037162703 scopus 로고    scopus 로고
    • Modular recognition of RNA by a human pumilio-homology domain
    • Wang X, McLachlan J, Zamore PD, Hall TM. Modular recognition of RNA by a human pumilio-homology domain. Cell 2002, 110:501-512.
    • (2002) Cell , vol.110 , pp. 501-512
    • Wang, X.1    McLachlan, J.2    Zamore, P.D.3    Hall, T.M.4
  • 16
    • 33748784359 scopus 로고    scopus 로고
    • Engineering RNA sequence specificity of Pumilio repeats
    • Cheong CG, Hall TM. Engineering RNA sequence specificity of Pumilio repeats. Proc Natl Acad Sci U S A 2006, 103:13635-13639.
    • (2006) Proc Natl Acad Sci U S A , vol.103 , pp. 13635-13639
    • Cheong, C.G.1    Hall, T.M.2
  • 19
    • 79151471434 scopus 로고    scopus 로고
    • PUF proteins: repression, activation and mRNA localization
    • Quenault T, Lithgow T, Traven A. PUF proteins: repression, activation and mRNA localization. Trends Cell Biol 2011, 21:104-112.
    • (2011) Trends Cell Biol , vol.21 , pp. 104-112
    • Quenault, T.1    Lithgow, T.2    Traven, A.3
  • 20
    • 0035917508 scopus 로고    scopus 로고
    • Structure of Pumilio reveals similarity between RNA and peptide binding motifs
    • Edwards TA, Pyle SE, Wharton RP, Aggarwal AK. Structure of Pumilio reveals similarity between RNA and peptide binding motifs. Cell 2001, 105:281-289.
    • (2001) Cell , vol.105 , pp. 281-289
    • Edwards, T.A.1    Pyle, S.E.2    Wharton, R.P.3    Aggarwal, A.K.4
  • 21
    • 0035022798 scopus 로고    scopus 로고
    • Crystal structure of a Pumilio homology domain
    • Wang X, Zamore PD, Hall TM. Crystal structure of a Pumilio homology domain. Mol Cell 2001, 7:855-865.
    • (2001) Mol Cell , vol.7 , pp. 855-865
    • Wang, X.1    Zamore, P.D.2    Hall, T.M.3
  • 22
    • 33644991514 scopus 로고    scopus 로고
    • A single spacer nucleotide determines the specificities of two mRNA regulatory proteins
    • Opperman L, Hook B, DeFino M, Bernstein DS, Wickens M. A single spacer nucleotide determines the specificities of two mRNA regulatory proteins. Nat Struct Mol Biol 2005, 12:945-951.
    • (2005) Nat Struct Mol Biol , vol.12 , pp. 945-951
    • Opperman, L.1    Hook, B.2    DeFino, M.3    Bernstein, D.S.4    Wickens, M.5
  • 23
    • 80053159210 scopus 로고    scopus 로고
    • Targeted translational regulation using the PUF protein family scaffold
    • Cooke A, Prigge A, Opperman L, Wickens M. Targeted translational regulation using the PUF protein family scaffold. Proc Natl Acad Sci U S A 2011, 108:15870-15875.
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 15870-15875
    • Cooke, A.1    Prigge, A.2    Opperman, L.3    Wickens, M.4
  • 24
    • 84869419167 scopus 로고    scopus 로고
    • Engineering RNA endonucleases with customized sequence specificities
    • Choudhury R, Tsai YS, Dominguez D, Wang Y, Wang Z. Engineering RNA endonucleases with customized sequence specificities. Nat Commun 2012, 3:1147.
    • (2012) Nat Commun , vol.3 , pp. 1147
    • Choudhury, R.1    Tsai, Y.S.2    Dominguez, D.3    Wang, Y.4    Wang, Z.5
  • 25
    • 70350719211 scopus 로고    scopus 로고
    • Engineering splicing factors with designed specificities
    • Wang Y, Cheong CG, Hall TM, Wang Z. Engineering splicing factors with designed specificities. Nat Methods 2009, 6:825-830.
    • (2009) Nat Methods , vol.6 , pp. 825-830
    • Wang, Y.1    Cheong, C.G.2    Hall, T.M.3    Wang, Z.4
  • 26
    • 34250210525 scopus 로고    scopus 로고
    • Imaging dynamics of endogenous mitochondrial RNA in single living cells
    • Ozawa T, Natori Y, Sato M, Umezawa Y. Imaging dynamics of endogenous mitochondrial RNA in single living cells. Nat Methods 2007, 4:413-419.
    • (2007) Nat Methods , vol.4 , pp. 413-419
    • Ozawa, T.1    Natori, Y.2    Sato, M.3    Umezawa, Y.4
  • 28
    • 79960361264 scopus 로고    scopus 로고
    • Visualization of nonengineered single mRNAs in living cells using genetically encoded fluorescent probes
    • Yamada T, Yoshimura H, Inaguma A, Ozawa T. Visualization of nonengineered single mRNAs in living cells using genetically encoded fluorescent probes. Anal Chem 2011, 83:5708-5714.
    • (2011) Anal Chem , vol.83 , pp. 5708-5714
    • Yamada, T.1    Yoshimura, H.2    Inaguma, A.3    Ozawa, T.4
  • 29
    • 56649114274 scopus 로고    scopus 로고
    • A one pot, one step, precision cloning method with high throughput capability
    • Engler C, Kandzia R, Marillonnet S. A one pot, one step, precision cloning method with high throughput capability. PLoS ONE 2008, 3:e3647.
    • (2008) PLoS ONE , vol.3
    • Engler, C.1    Kandzia, R.2    Marillonnet, S.3
  • 30
    • 77956261147 scopus 로고    scopus 로고
    • MAPKAP kinase 2 blocks tristetraprolin-directed mRNA decay by inhibiting CAF1 deadenylase recruitment
    • Marchese FP, Aubareda A, Tudor C, Saklatvala J, Clark AR, Dean JL. MAPKAP kinase 2 blocks tristetraprolin-directed mRNA decay by inhibiting CAF1 deadenylase recruitment. J Biol Chem 2010, 285:27590-27600.
    • (2010) J Biol Chem , vol.285 , pp. 27590-27600
    • Marchese, F.P.1    Aubareda, A.2    Tudor, C.3    Saklatvala, J.4    Clark, A.R.5    Dean, J.L.6
  • 32
    • 0033049125 scopus 로고    scopus 로고
    • Evidence that tristetraprolin binds to AU-rich elements and promotes the deadenylation and destabilization of tumor necrosis factor alpha mRNA
    • Lai WS, Carballo E, Strum JR, Kennington EA, Phillips RS, Blackshear PJ. Evidence that tristetraprolin binds to AU-rich elements and promotes the deadenylation and destabilization of tumor necrosis factor alpha mRNA. Mol Cell Biol 1999, 19:4311-4323.
    • (1999) Mol Cell Biol , vol.19 , pp. 4311-4323
    • Lai, W.S.1    Carballo, E.2    Strum, J.R.3    Kennington, E.A.4    Phillips, R.S.5    Blackshear, P.J.6
  • 33
    • 0032059805 scopus 로고    scopus 로고
    • The Pumilio RNA-binding domain is also a translational regulator
    • Wharton RP, Sonoda J, Lee T, Patterson M, Murata Y. The Pumilio RNA-binding domain is also a translational regulator. Mol Cell 1998, 1:863-872.
    • (1998) Mol Cell , vol.1 , pp. 863-872
    • Wharton, R.P.1    Sonoda, J.2    Lee, T.3    Patterson, M.4    Murata, Y.5
  • 34
    • 33646590585 scopus 로고    scopus 로고
    • Tethering KSRP, a decay-promoting AU-rich element-binding protein, to mRNAs elicits mRNA decay
    • Chou CF, Mulky A, Maitra S, Lin WJ, Gherzi R, Kappes J, Chen CY. Tethering KSRP, a decay-promoting AU-rich element-binding protein, to mRNAs elicits mRNA decay. Mol Cell Biol 2006, 26:3695-3706.
    • (2006) Mol Cell Biol , vol.26 , pp. 3695-3706
    • Chou, C.F.1    Mulky, A.2    Maitra, S.3    Lin, W.J.4    Gherzi, R.5    Kappes, J.6    Chen, C.Y.7
  • 35
    • 13244298460 scopus 로고    scopus 로고
    • Recruitment and activation of mRNA decay enzymes by two ARE-mediated decay activation domains in the proteins TTP and BRF-1
    • Lykke-Andersen J, Wagner E. Recruitment and activation of mRNA decay enzymes by two ARE-mediated decay activation domains in the proteins TTP and BRF-1. Genes Dev 2005, 19:351-361.
    • (2005) Genes Dev , vol.19 , pp. 351-361
    • Lykke-Andersen, J.1    Wagner, E.2
  • 36
    • 0031440357 scopus 로고    scopus 로고
    • The Pumilio protein binds RNA through a conserved domain that defines a new class of RNA-binding proteins
    • Zamore PD, Williamson JR, Lehmann R. The Pumilio protein binds RNA through a conserved domain that defines a new class of RNA-binding proteins. RNA 1997, 3:1421-1433.
    • (1997) RNA , vol.3 , pp. 1421-1433
    • Zamore, P.D.1    Williamson, J.R.2    Lehmann, R.3
  • 37
    • 41449107841 scopus 로고    scopus 로고
    • Structures of human Pumilio with noncognate RNAs reveal molecular mechanisms for binding promiscuity
    • Gupta YK, Nair DT, Wharton RP, Aggarwal AK. Structures of human Pumilio with noncognate RNAs reveal molecular mechanisms for binding promiscuity. Structure 2008, 16:549-557.
    • (2008) Structure , vol.16 , pp. 549-557
    • Gupta, Y.K.1    Nair, D.T.2    Wharton, R.P.3    Aggarwal, A.K.4
  • 38
    • 0037699954 scopus 로고    scopus 로고
    • The biology of VEGF and its receptors
    • Ferrara N, Gerber HP, LeCouter J. The biology of VEGF and its receptors. Nat Med 2003, 9:669-676.
    • (2003) Nat Med , vol.9 , pp. 669-676
    • Ferrara, N.1    Gerber, H.P.2    LeCouter, J.3
  • 39
    • 0029994507 scopus 로고    scopus 로고
    • Effects of transition metals on the expression of the erythropoietin gene: further evidence that the oxygen sensor is a heme protein
    • Ho VT, Bunn HF. Effects of transition metals on the expression of the erythropoietin gene: further evidence that the oxygen sensor is a heme protein. Biochem Biophys Res Commun 1996, 223:175-180.
    • (1996) Biochem Biophys Res Commun , vol.223 , pp. 175-180
    • Ho, V.T.1    Bunn, H.F.2
  • 40
    • 84875486247 scopus 로고    scopus 로고
    • Orthogonal control of endogenous gene expression in mammalian cells using synthetic ligands
    • Liang J, McLachlan MJ, Zhao H. Orthogonal control of endogenous gene expression in mammalian cells using synthetic ligands. Biotechnol Bioeng 2013, 110:1419-1429.
    • (2013) Biotechnol Bioeng , vol.110 , pp. 1419-1429
    • Liang, J.1    McLachlan, M.J.2    Zhao, H.3
  • 41
    • 79952460244 scopus 로고    scopus 로고
    • Alternate modes of cognate RNA recognition by human PUMILIO proteins
    • Lu G, Hall TM. Alternate modes of cognate RNA recognition by human PUMILIO proteins. Structure 2011, 19:361-367.
    • (2011) Structure , vol.19 , pp. 361-367
    • Lu, G.1    Hall, T.M.2
  • 42
    • 27244436299 scopus 로고    scopus 로고
    • Suppression of vascular endothelial growth factor expression at the transcriptional and post-transcriptional levels
    • Kwon HS, Shin HC, Kim JS. Suppression of vascular endothelial growth factor expression at the transcriptional and post-transcriptional levels. Nucleic Acids Res 2005, 33:e74.
    • (2005) Nucleic Acids Res , vol.33
    • Kwon, H.S.1    Shin, H.C.2    Kim, J.S.3
  • 44
    • 0344211452 scopus 로고    scopus 로고
    • Vector-based RNAi, a novel tool for isoform-specific knock-down of VEGF and anti-angiogenesis gene therapy of cancer
    • Zhang L, Yang N, Mohamed-Hadley A, Rubin SC, Coukos G. Vector-based RNAi, a novel tool for isoform-specific knock-down of VEGF and anti-angiogenesis gene therapy of cancer. Biochem Biophys Res Commun 2003, 303:1169-1178.
    • (2003) Biochem Biophys Res Commun , vol.303 , pp. 1169-1178
    • Zhang, L.1    Yang, N.2    Mohamed-Hadley, A.3    Rubin, S.C.4    Coukos, G.5


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.