메뉴 건너뛰기




Volumn 53, Issue 23, 2014, Pages 3727-3737

Binding affinity and cooperativity control U2B″/snRNA/U2A′ RNP formation

Author keywords

[No Author keywords available]

Indexed keywords

BINDING ENERGY; RNA;

EID: 84902595690     PISSN: 00062960     EISSN: 15204995     Source Type: Journal    
DOI: 10.1021/bi500438e     Document Type: Article
Times cited : (12)

References (38)
  • 2
    • 0030476302 scopus 로고    scopus 로고
    • Thermodynamic comparison of the salt dependence of natural RNA hairpins and RNA hairpins with non-nucleotide spacers
    • Williams, D. J. and Hall, K. B. (1996) Thermodynamic comparison of the salt dependence of natural RNA hairpins and RNA hairpins with non-nucleotide spacers Biochemistry 35, 14665-14670
    • (1996) Biochemistry , vol.35 , pp. 14665-14670
    • Williams, D.J.1    Hall, K.B.2
  • 3
    • 20144377893 scopus 로고    scopus 로고
    • Kinetic analysis of the role of the tyrosine 13, phenylalanine 56 and glutamine 54 network in the U1A/U1 hairpin II interaction
    • Law, M. J., Chambers, E. J., Katsamba, P. S., Haworth, I. S., and Laird-Offringa, I. A. (2005) Kinetic analysis of the role of the tyrosine 13, phenylalanine 56 and glutamine 54 network in the U1A/U1 hairpin II interaction Nucleic Acids Res. 33, 2917-2928
    • (2005) Nucleic Acids Res. , vol.33 , pp. 2917-2928
    • Law, M.J.1    Chambers, E.J.2    Katsamba, P.S.3    Haworth, I.S.4    Laird-Offringa, I.A.5
  • 4
    • 33847178767 scopus 로고    scopus 로고
    • A study of collective atomic fluctuations and cooperativity in the U1A-RNA complex based on molecular dynamics simulations
    • Kormos, B. L., Baranger, A. M., and Beveridge, D. L. (2007) A study of collective atomic fluctuations and cooperativity in the U1A-RNA complex based on molecular dynamics simulations J. Struct. Biol. 157, 500-513
    • (2007) J. Struct. Biol. , vol.157 , pp. 500-513
    • Kormos, B.L.1    Baranger, A.M.2    Beveridge, D.L.3
  • 5
    • 0026713783 scopus 로고
    • Interaction of N-terminal domain of U1A protein with an RNA stem/loop
    • Hall, K. B. and Stump, W. T. (1992) Interaction of N-terminal domain of U1A protein with an RNA stem/loop Nucleic Acids Res. 20, 4283-4290
    • (1992) Nucleic Acids Res. , vol.20 , pp. 4283-4290
    • Hall, K.B.1    Stump, W.T.2
  • 6
    • 0024851833 scopus 로고
    • Identification of the RNA binding segment of human U1 A protein and definition of its binding site on U1 snRNA
    • Scherly, D., Boelens, W., van Venrooij, W. J., Dathan, N. A., Hamm, J., and Mattaj, I. W. (1989) Identification of the RNA binding segment of human U1 A protein and definition of its binding site on U1 snRNA EMBO J. 8, 4163-4170
    • (1989) EMBO J. , vol.8 , pp. 4163-4170
    • Scherly, D.1    Boelens, W.2    Van Venrooij, W.J.3    Dathan, N.A.4    Hamm, J.5    Mattaj, I.W.6
  • 7
    • 0025139999 scopus 로고
    • Analysis of the in vitro binding of A and B″ snRNP proteins to U1 and U2 snRNAs using mutated A and B″ proteins
    • Boelens, W. C., Scherly, D., Mattaj, I. W., and van Venrooij, W. J. (1990) Analysis of the in vitro binding of A and B″ snRNP proteins to U1 and U2 snRNAs using mutated A and B″ proteins Mol. Biol. Rep. 14, 159
    • (1990) Mol. Biol. Rep. , vol.14 , pp. 159
    • Boelens, W.C.1    Scherly, D.2    Mattaj, I.W.3    Van Venrooij, W.J.4
  • 8
    • 0025127420 scopus 로고
    • Quantitative determination that one of two potential RNA-binding domains of the A protein component of the U1 small nuclear ribonucleoprotein complex binds with high affinity to stem-loop II of U1 RNA
    • Lutz-Freyermuth, C., Query, C. C., and Keene, J. D. (1990) Quantitative determination that one of two potential RNA-binding domains of the A protein component of the U1 small nuclear ribonucleoprotein complex binds with high affinity to stem-loop II of U1 RNA Proc. Natl. Acad. Sci. U.S.A. 87, 6393-6397
    • (1990) Proc. Natl. Acad. Sci. U.S.A. , vol.87 , pp. 6393-6397
    • Lutz-Freyermuth, C.1    Query, C.C.2    Keene, J.D.3
  • 9
    • 0028965970 scopus 로고
    • An RBD that does not bind RNA: NMR secondary structure determination and biochemical properties of the C-terminal RNA binding domain from the human U1A protein
    • Lu, J. and Hall, K. B. (1995) An RBD that does not bind RNA: NMR secondary structure determination and biochemical properties of the C-terminal RNA binding domain from the human U1A protein J. Mol. Biol. 247, 739-752
    • (1995) J. Mol. Biol. , vol.247 , pp. 739-752
    • Lu, J.1    Hall, K.B.2
  • 11
    • 80052305240 scopus 로고    scopus 로고
    • Human U2B″ protein binding to snRNA stemloops
    • Williams, S. G. and Hall, K. B. (2011) Human U2B″ protein binding to snRNA stemloops Biophys. Chem. 159, 82-89
    • (2011) Biophys. Chem. , vol.159 , pp. 82-89
    • Williams, S.G.1    Hall, K.B.2
  • 12
    • 60349104299 scopus 로고    scopus 로고
    • The spliceosome: Design principles of a dynamic RNP machine
    • Wahl, M. C., Will, C. L., and Lührmann, R. (2009) The spliceosome: Design principles of a dynamic RNP machine Cell 136, 701-718
    • (2009) Cell , vol.136 , pp. 701-718
    • Wahl, M.C.1    Will, C.L.2    Lührmann, R.3
  • 13
    • 24044538903 scopus 로고    scopus 로고
    • IUPred: Web server for the prediction of intrinsically unstructured regions of proteins based on estimated energy content
    • Dosztányi, Z., Csizmok, V., Tompa, P., and Simon, I. (2005) IUPred: Web server for the prediction of intrinsically unstructured regions of proteins based on estimated energy content Bioinformatics 21, 3433-3434
    • (2005) Bioinformatics , vol.21 , pp. 3433-3434
    • Dosztányi, Z.1    Csizmok, V.2    Tompa, P.3    Simon, I.4
  • 14
    • 0032514483 scopus 로고    scopus 로고
    • Crystal structure of the spliceosomal U2B″-U2A′ protein complex bound to a fragment of U2 small nuclear RNA
    • Price, S. R., Evans, P. R., and Nagai, K. (1998) Crystal structure of the spliceosomal U2B″-U2A′ protein complex bound to a fragment of U2 small nuclear RNA Nature 394, 645-650
    • (1998) Nature , vol.394 , pp. 645-650
    • Price, S.R.1    Evans, P.R.2    Nagai, K.3
  • 16
    • 0025971909 scopus 로고
    • Leucine periodicity of U2 small nuclear ribonucleoprotein particle (snRNP) A′ protein is implicated in snRNP assembly via protein-protein interactions
    • Fresco, L. D., Harper, D. S., and Keene, J. D. (1991) Leucine periodicity of U2 small nuclear ribonucleoprotein particle (snRNP) A′ protein is implicated in snRNP assembly via protein-protein interactions Mol. Cell. Biol. 11, 1578-1589
    • (1991) Mol. Cell. Biol. , vol.11 , pp. 1578-1589
    • Fresco, L.D.1    Harper, D.S.2    Keene, J.D.3
  • 17
    • 0026086816 scopus 로고
    • Recognition of U1 and U2 small nuclear RNAs can be altered by a 5-amino-acid segment in the U2 small nuclear ribonucleoprotein particle (snRNP) B″ protein and through interactions with U2 snRNP-A′ protein
    • Bentley, R. C. and Keene, J. D. (1991) Recognition of U1 and U2 small nuclear RNAs can be altered by a 5-amino-acid segment in the U2 small nuclear ribonucleoprotein particle (snRNP) B″ protein and through interactions with U2 snRNP-A′ protein Mol. Cell. Biol. 11, 1829-1839
    • (1991) Mol. Cell. Biol. , vol.11 , pp. 1829-1839
    • Bentley, R.C.1    Keene, J.D.2
  • 18
    • 0031788566 scopus 로고    scopus 로고
    • Target discrimination by RNA-binding proteins: Role of the ancillary protein U2A′ and a critical leucine residue in differentiating the RNA-binding specificity of spliceosomal proteins U1A and U2B″
    • Rimmele, M. E. and Belasco, J. G. (1998) Target discrimination by RNA-binding proteins: Role of the ancillary protein U2A′ and a critical leucine residue in differentiating the RNA-binding specificity of spliceosomal proteins U1A and U2B″ RNA 4, 1386-1396
    • (1998) RNA , vol.4 , pp. 1386-1396
    • Rimmele, M.E.1    Belasco, J.G.2
  • 19
    • 0028266440 scopus 로고
    • The Drosophila sex determination gene snf encodes a nuclear protein with sequence and functional similarity to the mammalian U1A snRNP protein
    • Flickinger, T. W. and Salz, H. K. (1994) The Drosophila sex determination gene snf encodes a nuclear protein with sequence and functional similarity to the mammalian U1A snRNP protein Genes Dev. 8, 914-925
    • (1994) Genes Dev. , vol.8 , pp. 914-925
    • Flickinger, T.W.1    Salz, H.K.2
  • 20
    • 0024443874 scopus 로고
    • Functional analysis of mutant Xenopus U2 snRNAs
    • Hamm, J., Dathan, N. A., and Mattaj, I. W. (1989) Functional analysis of mutant Xenopus U2 snRNAs Cell 59, 159-169
    • (1989) Cell , vol.59 , pp. 159-169
    • Hamm, J.1    Dathan, N.A.2    Mattaj, I.W.3
  • 21
    • 0024788786 scopus 로고
    • U2 snRNA sequences that bind U2-specific proteins are dispensable for the function of U2 snRNP in splicing
    • Pan, Z. Q. and Prives, C. (1989) U2 snRNA sequences that bind U2-specific proteins are dispensable for the function of U2 snRNP in splicing Genes Dev. 3, 1887-1898
    • (1989) Genes Dev. , vol.3 , pp. 1887-1898
    • Pan, Z.Q.1    Prives, C.2
  • 22
    • 0035883150 scopus 로고    scopus 로고
    • The Drosophila U2 snRNP protein U2A′ has an essential function that is SNF/U2B″ independent
    • Nagengast, A. A. and Salz, H. K. (2001) The Drosophila U2 snRNP protein U2A′ has an essential function that is SNF/U2B″ independent Nucleic Acids Res. 29, 3841-3847
    • (2001) Nucleic Acids Res. , vol.29 , pp. 3841-3847
    • Nagengast, A.A.1    Salz, H.K.2
  • 23
    • 0029847221 scopus 로고    scopus 로고
    • In vitro reconstitution of mammalian U1 snRNPs active in splicing: The U1-C protein enhances the formation of early (E) spliceosomal complexes
    • Will, C. L., Rümpler, S., Klein Gunnewiek, J., van Venrooij, W. J., and Lührmann, R. (1996) In vitro reconstitution of mammalian U1 snRNPs active in splicing: The U1-C protein enhances the formation of early (E) spliceosomal complexes Nucleic Acids Res. 24, 4614-4623
    • (1996) Nucleic Acids Res. , vol.24 , pp. 4614-4623
    • Will, C.L.1    Rümpler, S.2    Klein Gunnewiek, J.3    Van Venrooij, W.J.4    Lührmann, R.5
  • 24
    • 0027956671 scopus 로고
    • Interaction of RNA hairpins with the human U1A N-terminal RNA binding domain
    • Hall, K. B. (1994) Interaction of RNA hairpins with the human U1A N-terminal RNA binding domain Biochemistry 33, 10076-10088
    • (1994) Biochemistry , vol.33 , pp. 10076-10088
    • Hall, K.B.1
  • 25
    • 77953106274 scopus 로고    scopus 로고
    • Coevolution of Drosophila snf protein and its snRNA targets
    • Williams, S. G. and Hall, K. B. (2010) Coevolution of Drosophila snf protein and its snRNA targets Biochemistry 49, 4571-4582
    • (2010) Biochemistry , vol.49 , pp. 4571-4582
    • Williams, S.G.1    Hall, K.B.2
  • 26
    • 33745598322 scopus 로고    scopus 로고
    • The evergrowing world of small nuclear ribonucleoproteins
    • In, 3 rd ed. pp, Cold Spring Harbor Monograph Archive, Cold Spring Harbor Laboratory Press, Plainview, NY.
    • Tycowski, K. T., Kolev, N. G., Conrad, N. K., Fok, V., and Steitz, J. A. (2006) The evergrowing world of small nuclear ribonucleoproteins. In The RNA World, 3 rd ed., pp 327-368, Cold Spring Harbor Monograph Archive, Cold Spring Harbor Laboratory Press, Plainview, NY.
    • (2006) The RNA World , pp. 327-368
    • Tycowski, K.T.1    Kolev, N.G.2    Conrad, N.K.3    Fok, V.4    Steitz, J.A.5
  • 27
    • 0032311808 scopus 로고    scopus 로고
    • Prediction of binding energetics from structure using empirical parameterization
    • Baker, B. M. and Murphy, K. P. (1998) Prediction of binding energetics from structure using empirical parameterization Methods Enzymol. 295, 294-315
    • (1998) Methods Enzymol. , vol.295 , pp. 294-315
    • Baker, B.M.1    Murphy, K.P.2
  • 28
    • 33845937672 scopus 로고    scopus 로고
    • Studying multisite binary and ternary protein interactions by global analysis of isothermal titration calorimetry data in SEDPHAT: Application to adaptor protein complexes in cell signaling
    • Houtman, J. C. D., Brown, P. H., Bowden, B., Yamaguchi, H., Appella, E., Samelson, L. E., and Schuck, P. (2007) Studying multisite binary and ternary protein interactions by global analysis of isothermal titration calorimetry data in SEDPHAT: Application to adaptor protein complexes in cell signaling Protein Sci. 16, 30-42
    • (2007) Protein Sci. , vol.16 , pp. 30-42
    • Houtman, J.C.D.1    Brown, P.H.2    Bowden, B.3    Yamaguchi, H.4    Appella, E.5    Samelson, L.E.6    Schuck, P.7
  • 30
    • 0029911683 scopus 로고    scopus 로고
    • RNA hairpins with non-nucleotide spacers bind efficiently to the human U1A protein
    • Williams, D. J. and Hall, K. B. (1996) RNA hairpins with non-nucleotide spacers bind efficiently to the human U1A protein J. Mol. Biol. 257, 265-275
    • (1996) J. Mol. Biol. , vol.257 , pp. 265-275
    • Williams, D.J.1    Hall, K.B.2
  • 31
    • 84902144722 scopus 로고    scopus 로고
    • Linkage and allostery in snRNP protein:RNA complexes
    • Williams, S. G. and Hall, K. B. (2014) Linkage and allostery in snRNP protein:RNA complexes Biochemistry 53, 3529-3539
    • (2014) Biochemistry , vol.53 , pp. 3529-3539
    • Williams, S.G.1    Hall, K.B.2
  • 32
    • 84885189866 scopus 로고    scopus 로고
    • Resurrection of an Urbilaterian U1A/U2B″/SNF protein
    • Williams, S. G., Harms, M. J., and Hall, K. B. (2013) Resurrection of an Urbilaterian U1A/U2B″/SNF protein J. Mol. Biol. 425, 3846-3862
    • (2013) J. Mol. Biol. , vol.425 , pp. 3846-3862
    • Williams, S.G.1    Harms, M.J.2    Hall, K.B.3
  • 33
    • 84902582259 scopus 로고    scopus 로고
    • Climbing the vertebrate branch of U1A/U2B″ protein evolution
    • Delaney, K. J., Williams, S. G., Lawler, M., and Hall, K. B. (2014) Climbing the vertebrate branch of U1A/U2B″ protein evolution RNA 10.1261/rna.044255.114
    • (2014) RNA
    • Delaney, K.J.1    Williams, S.G.2    Lawler, M.3    Hall, K.B.4
  • 34
    • 0029994421 scopus 로고    scopus 로고
    • Identification and characterization of a yeast gene encoding the U2 small nuclear ribonucleoprotein particle B″ protein
    • Tang, J., Abovich, N., and Rosbash, M. (1996) Identification and characterization of a yeast gene encoding the U2 small nuclear ribonucleoprotein particle B″ protein Mol. Cell. Biol. 16, 2787-2795
    • (1996) Mol. Cell. Biol. , vol.16 , pp. 2787-2795
    • Tang, J.1    Abovich, N.2    Rosbash, M.3
  • 35
    • 0032476603 scopus 로고    scopus 로고
    • The yeast U2A′/U2B complex is required for pre-spliceosome formation
    • Caspary, F. and Séraphin, B. (1998) The yeast U2A′/U2B complex is required for pre-spliceosome formation EMBO J. 17, 6348-6358
    • (1998) EMBO J. , vol.17 , pp. 6348-6358
    • Caspary, F.1    Séraphin, B.2
  • 36
    • 0024788534 scopus 로고
    • In vitro reconstitution of functional yeast U2 snRNPs
    • McPheeters, D. S., Fabrizio, P., and Abelson, J. (1989) In vitro reconstitution of functional yeast U2 snRNPs Genes Dev. 3, 2124-2136
    • (1989) Genes Dev. , vol.3 , pp. 2124-2136
    • McPheeters, D.S.1    Fabrizio, P.2    Abelson, J.3
  • 37
    • 0025268577 scopus 로고
    • Human U2 snRNA can function in pre-mRNA splicing in yeast
    • Shuster, E. O. and Guthrie, C. (1990) Human U2 snRNA can function in pre-mRNA splicing in yeast Nature 345, 270-273
    • (1990) Nature , vol.345 , pp. 270-273
    • Shuster, E.O.1    Guthrie, C.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.