-
1
-
-
0001877802
-
Splicing of precursors to mRNA by the spliceosome
-
Gesteland,R. and Atkins, J. (eds) Cold Spring Harbor Laboratory Press, Cold Spring Harbor
-
Moore, M.J., Query, C.C. and Sharp, P.A. (1993) Splicing of precursors to mRNA by the spliceosome. In: Gesteland,R. and Atkins, J. (eds), The RNA World. Cold Spring Harbor Laboratory Press, Cold Spring Harbor, pp. 303-357.
-
(1993)
The RNA World
, pp. 303-357
-
-
Moore, M.J.1
Query, C.C.2
Sharp, P.A.3
-
2
-
-
0042671357
-
Pre-mRNA splicing: Awash in a sea of proteins
-
Jurica, M.S. and Moore, M.J. (2003) Pre-mRNA splicing: awash in a sea of proteins. Mol. Cell, 12, 5-14.
-
(2003)
Mol. Cell
, vol.12
, pp. 5-14
-
-
Jurica, M.S.1
Moore, M.J.2
-
3
-
-
17844395704
-
Prp8 protein: At the heart of the spliceosome
-
Grainger, R.J. and Beggs, J.D. (2005) Prp8 protein: at the heart of the spliceosome. RNA, 11, 533-557.
-
(2005)
RNA
, vol.11
, pp. 533-557
-
-
Grainger, R.J.1
Beggs, J.D.2
-
4
-
-
33847053558
-
Structure of a multipartite protein-protein interaction domain in splicing factor prp8 and its link to retinitis pigmentosa
-
Pena, V., Liu, S., Bujnicki, J.M., Luhrmann,R. and Wahl, M.C. (2007) Structure of a multipartite protein-protein interaction domain in splicing factor prp8 and its link to retinitis pigmentosa. Mol. Cell, 25, 615-624.
-
(2007)
Mol. Cell
, vol.25
, pp. 615-624
-
-
Pena, V.1
Liu, S.2
Bujnicki, J.M.3
Luhrmann, R.4
Wahl, M.C.5
-
5
-
-
34249790589
-
Crystal structure of the C-terminal domain of splicing factor Prp8 carrying retinitis pigmentosa mutants
-
Zhang, L., Shen, J., Guarnieri, M.T., Heroux, A., Yang,K. and Zhao, R. (2007) Crystal structure of the C-terminal domain of splicing factor Prp8 carrying retinitis pigmentosa mutants. Protein Sci., 16, 1024-1031.
-
(2007)
Protein Sci.
, vol.16
, pp. 1024-1031
-
-
Zhang, L.1
Shen, J.2
Guarnieri, M.T.3
Heroux, A.4
Yang, K.5
Zhao, R.6
-
6
-
-
52949131890
-
Crystal structure of the beta-finger domain of Prp8 reveals analogy to ribosomal proteins
-
Yang, K., Zhang, L., Xu, T., Heroux,A. and Zhao, R. (2008) Crystal structure of the beta-finger domain of Prp8 reveals analogy to ribosomal proteins. Proc. Natl Acad. Sci. USA, 105, 13817-13822.
-
(2008)
Proc. Natl Acad. Sci. USA
, vol.105
, pp. 13817-13822
-
-
Yang, K.1
Zhang, L.2
Xu, T.3
Heroux, A.4
Zhao, R.5
-
7
-
-
55549143970
-
Structure and function of an RNase H domain at the heart of the spliceosome
-
Pena, V., Rozov, A., Fabrizio, P., Luhrmann,R. and Wahl, M.C. (2008) Structure and function of an RNase H domain at the heart of the spliceosome. EMBO J., 27, 2929-2940.
-
(2008)
EMBO J.
, vol.27
, pp. 2929-2940
-
-
Pena, V.1
Rozov, A.2
Fabrizio, P.3
Luhrmann, R.4
Wahl, M.C.5
-
8
-
-
55549121900
-
Structural elucidation of a PRP8 core domain from the heart of the spliceosome
-
Ritchie, D.B., Schellenberg, M.J., Gesner, E.M., Raithatha, S.A., Stuart, D.T. and Macmillan, A.M. (2008) Structural elucidation of a PRP8 core domain from the heart of the spliceosome. Nat. Struct. Mol. Biol., 15, 1199-1205.
-
(2008)
Nat. Struct. Mol. Biol.
, vol.15
, pp. 1199-1205
-
-
Ritchie, D.B.1
Schellenberg, M.J.2
Gesner, E.M.3
Raithatha, S.A.4
Stuart, D.T.5
Macmillan, A.M.6
-
9
-
-
0033900068
-
Suppressors of a cold-sensitive mutation in yeast U4 RNA define five domains in the splicing factor Prp8 that influence spliceosome activation
-
Kuhn, A.N. and Brow, D.A. (2000) Suppressors of a cold-sensitive mutation in yeast U4 RNA define five domains in the splicing factor Prp8 that influence spliceosome activation. Genetics, 155, 1667-1682.
-
(2000)
Genetics
, vol.155
, pp. 1667-1682
-
-
Kuhn, A.N.1
Brow, D.A.2
-
10
-
-
0037047049
-
Distinct domains of splicing factor Prp8 mediate different aspects of spliceosome activation
-
Kuhn, A.N., Reichl, E.M. and Brow, D.A. (2002) Distinct domains of splicing factor Prp8 mediate different aspects of spliceosome activation. Proc. Natl Acad. Sci. USA, 99, 9145-9149.
-
(2002)
Proc. Natl Acad. Sci. USA
, vol.99
, pp. 9145-9149
-
-
Kuhn, A.N.1
Reichl, E.M.2
Brow, D.A.3
-
11
-
-
0032755703
-
Characterization of U6 snRNA-protein interactions
-
Vidal, V.P., Verdone, L., Mayes, A.E. and Beggs, J.D. (1999) Characterization of U6 snRNA-protein interactions. RNA, 5, 1470-1481.
-
(1999)
RNA
, vol.5
, pp. 1470-1481
-
-
Vidal, V.P.1
Verdone, L.2
Mayes, A.E.3
Beggs, J.D.4
-
12
-
-
27944508215
-
CLIP: A method for identifying protein-RNA interaction sites in living cells
-
Ule, J., Jensen, K., Mele,A. and Darnell, R.B. (2005) CLIP: a method for identifying protein-RNA interaction sites in living cells. Methods, 37, 376-386.
-
(2005)
Methods
, vol.37
, pp. 376-386
-
-
Ule, J.1
Jensen, K.2
Mele, A.3
Darnell, R.B.4
-
13
-
-
67649854477
-
Identification of protein binding sites on U3 snoRNA and pre-rRNA by UV cross-linking and high-throughput analysis of cDNAs
-
Granneman, S., Kudla, G., Petfalski,E. and Tollervey, D. (2009) Identification of protein binding sites on U3 snoRNA and pre-rRNA by UV cross-linking and high-throughput analysis of cDNAs. Proc. Natl Acad. Sci. USA, 106, 9613-9618.
-
(2009)
Proc. Natl Acad. Sci. USA
, vol.106
, pp. 9613-9618
-
-
Granneman, S.1
Kudla, G.2
Petfalski, E.3
Tollervey, D.4
-
14
-
-
0024274359
-
Intra-RNA and RNA-protein cross-linking techniques in Escherichia coli ribosomes
-
Brimacombe, R., Stiege, W., Kyriatsoulis,A. and Maly, P. (1988) Intra-RNA and RNA-protein cross-linking techniques in Escherichia coli ribosomes. Methods Enzymol., 164, 287-309.
-
(1988)
Methods Enzymol.
, vol.164
, pp. 287-309
-
-
Brimacombe, R.1
Stiege, W.2
Kyriatsoulis, A.3
Maly, P.4
-
15
-
-
0021378821
-
Photochemical addition of amino acids and peptides to DNA
-
Shetlar, M.D., Christensen,J. and Hom, K. (1984) Photochemical addition of amino acids and peptides to DNA. Photochem. Photobiol., 39, 125-133.
-
(1984)
Photochem. Photobiol.
, vol.39
, pp. 125-133
-
-
Shetlar, M.D.1
Christensen, J.2
Hom, K.3
-
16
-
-
0030030194
-
Mutagenesis of the yeast gene PRP8 reveals domains governing the specificity and fidelity of 30 splice site selection
-
Umen, J.G. and Guthrie, C. (1996) Mutagenesis of the yeast gene PRP8 reveals domains governing the specificity and fidelity of 30 splice site selection. Genetics, 143, 723-739.
-
(1996)
Genetics
, vol.143
, pp. 723-739
-
-
Umen, J.G.1
Guthrie, C.2
-
17
-
-
0142215475
-
Global analysis of protein expression in yeast
-
Ghaemmaghami, S., Huh, W.K., Bower, K., Howson, R.W., Belle, A., Dephoure, N., O'Shea, E.K. and Weissman, J.S. (2003) Global analysis of protein expression in yeast. Nature, 425, 737-741.
-
(2003)
Nature
, vol.425
, pp. 737-741
-
-
Ghaemmaghami, S.1
Huh, W.K.2
Bower, K.3
Howson, R.W.4
Belle, A.5
Dephoure, N.6
O'Shea, E.K.7
Weissman, J.S.8
-
18
-
-
0031820288
-
Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae
-
Longtine, M.S., McKenzie,A. 3rd, Demarini, D.J., Shah, N.G., Wach, A., Brachat, A., Philippsen,P. and Pringle, J.R. (1998) Additional modules for versatile and economical PCR-based gene deletion and modification in Saccharomyces cerevisiae. Yeast, 14, 953-961.
-
(1998)
Yeast
, vol.14
, pp. 953-961
-
-
Longtine, M.S.1
McKenzie III, A.2
Demarini, D.J.3
Shah, N.G.4
Wach, A.5
Brachat, A.6
Philippsen, P.7
Pringle, J.R.8
-
19
-
-
0036270548
-
Searching yeast intron data at ares lab web site
-
Grate,L. and Ares,M. Jr (2002) Searching yeast intron data at ares lab web site. Methods Enzymol., 350, 380-392.
-
(2002)
Methods Enzymol.
, vol.350
, pp. 380-392
-
-
Grate, L.1
Ares Jr., M.2
-
20
-
-
9144256665
-
Saccharomyces genome database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms
-
Christie, K.R., Weng, S., Balakrishnan, R., Costanzo, M.C., Dolinski, K., Dwight, S.S., Engel, S.R., Feierbach, B., Fisk, D.G., Hirschman, J.E. et al. (2004) Saccharomyces genome database (SGD) provides tools to identify and analyze sequences from Saccharomyces cerevisiae and related sequences from other organisms. Nucleic Acids Res., 32, D311-D314.
-
(2004)
Nucleic Acids Res.
, vol.32
-
-
Christie, K.R.1
Weng, S.2
Balakrishnan, R.3
Costanzo, M.C.4
Dolinski, K.5
Dwight, S.S.6
Engel, S.R.7
Feierbach, B.8
Fisk, D.G.9
Hirschman, J.E.10
-
21
-
-
34247255773
-
Transcript specificity in yeast pre-mRNA splicing revealed by mutations in core spliceosomal components
-
Pleiss, J.A., Whitworth, G.B., Bergkessel,M. and Guthrie, C. (2007) Transcript specificity in yeast pre-mRNA splicing revealed by mutations in core spliceosomal components. PLoS Biol., 5, e90.
-
(2007)
PLoS Biol.
, vol.5
-
-
Pleiss, J.A.1
Whitworth, G.B.2
Bergkessel, M.3
Guthrie, C.4
-
22
-
-
0035161567
-
Biochemical and genetic analyses of the U5, U6, and U4/U6 x U5 small nuclear ribonucleoproteins from Saccharomyces cerevisiae
-
Stevens, S.W., Barta, I., Ge, H.Y., Moore, R.E., Young, M.K., Lee, T.D. and Abelson, J. (2001) Biochemical and genetic analyses of the U5, U6, and U4/U6 x U5 small nuclear ribonucleoproteins from Saccharomyces cerevisiae. RNA, 7, 1543-1553.
-
(2001)
RNA
, vol.7
, pp. 1543-1553
-
-
Stevens, S.W.1
Barta, I.2
Ge, H.Y.3
Moore, R.E.4
Young, M.K.5
Lee, T.D.6
Abelson, J.7
-
23
-
-
70449625597
-
The evolutionarily conserved core design of the catalytic activation step of the yeast spliceosome
-
Fabrizio, P., Dannenberg, J., Dube, P., Kastner, B., Stark, H., Urlaub,H. and Luhrmann, R. (2009) The evolutionarily conserved core design of the catalytic activation step of the yeast spliceosome. Mol. Cell, 36, 593-608.
-
(2009)
Mol. Cell
, vol.36
, pp. 593-608
-
-
Fabrizio, P.1
Dannenberg, J.2
Dube, P.3
Kastner, B.4
Stark, H.5
Urlaub, H.6
Luhrmann, R.7
-
24
-
-
36248983726
-
A dynamic bulge in the U6 RNA internal stem-loop functions in spliceosome assembly and activation
-
McManus, C.J., Schwartz, M.L., Butcher, S.E. and Brow, D.A. (2007) A dynamic bulge in the U6 RNA internal stem-loop functions in spliceosome assembly and activation. RNA, 13, 2252-2265.
-
(2007)
RNA
, vol.13
, pp. 2252-2265
-
-
McManus, C.J.1
Schwartz, M.L.2
Butcher, S.E.3
Brow, D.A.4
-
25
-
-
29244464778
-
Tube-gel digestion: A novel proteomic approach for high throughput analysis of membrane proteins
-
Lu,X. and Zhu, H. (2005) Tube-gel digestion: a novel proteomic approach for high throughput analysis of membrane proteins. Mol. Cell. Proteomics, 4, 1948-1958.
-
(2005)
Mol. Cell. Proteomics
, vol.4
, pp. 1948-1958
-
-
Lu, X.1
Zhu, H.2
-
26
-
-
84867444588
-
Rat mammary extracellular matrix composition and response to ibuprofen treatment during postpartum involution by differential GeLC-MS/MS analysis
-
O'Brien, J.H., Vanderlinden, L.A., Schedin, P.J. and Hansen, K.C. (2012) Rat mammary extracellular matrix composition and response to ibuprofen treatment during postpartum involution by differential GeLC-MS/MS analysis. J. Proteome Res., 11, 4894-4905.
-
(2012)
J. Proteome Res.
, vol.11
, pp. 4894-4905
-
-
O'Brien, J.H.1
Vanderlinden, L.A.2
Schedin, P.J.3
Hansen, K.C.4
-
27
-
-
0028293919
-
Architecture of the U5 small nuclear RNA
-
Frank, D.N., Roiha,H. and Guthrie, C. (1994) Architecture of the U5 small nuclear RNA. Mol. Cell Biol., 14, 2180-2190.
-
(1994)
Mol. Cell Biol.
, vol.14
, pp. 2180-2190
-
-
Frank, D.N.1
Roiha, H.2
Guthrie, C.3
-
28
-
-
0031719371
-
Protein-RNA interactions in the U5 snRNP of Saccharomyces cerevisiae
-
Dix, I., Russell, C.S., O'Keefe, R.T., Newman, A.J. and Beggs, J.D. (1998) Protein-RNA interactions in the U5 snRNP of Saccharomyces cerevisiae. RNA, 4, 1675-1686.
-
(1998)
RNA
, vol.4
, pp. 1675-1686
-
-
Dix, I.1
Russell, C.S.2
O'Keefe, R.T.3
Newman, A.J.4
Beggs, J.D.5
-
29
-
-
79960230895
-
Mapping in vivo protein-RNA interactions at single-nucleotide resolution from HITS-CLIP data
-
Zhang,C. and Darnell, R.B. (2011) Mapping in vivo protein-RNA interactions at single-nucleotide resolution from HITS-CLIP data. Nat. Biotechnol., 29, 607-614.
-
(2011)
Nat. Biotechnol.
, vol.29
, pp. 607-614
-
-
Zhang, C.1
Darnell, R.B.2
-
30
-
-
79959946169
-
Cross-linking, ligation, and sequencing of hybrids reveals RNA-RNA interactions in yeast
-
Kudla, G., Granneman, S., Hahn, D., Beggs, J.D. and Tollervey, D. (2011) Cross-linking, ligation, and sequencing of hybrids reveals RNA-RNA interactions in yeast. Proc. Natl Acad. Sci. USA, 108, 10010-10015.
-
(2011)
Proc. Natl Acad. Sci. USA
, vol.108
, pp. 10010-10015
-
-
Kudla, G.1
Granneman, S.2
Hahn, D.3
Beggs, J.D.4
Tollervey, D.5
-
31
-
-
0025681699
-
Multiple roles for U6 snRNA in the splicing pathway
-
Madhani, H.D., Bordonne,R. and Guthrie, C. (1990) Multiple roles for U6 snRNA in the splicing pathway. Genes Dev., 4, 2264-2277.
-
(1990)
Genes Dev.
, vol.4
, pp. 2264-2277
-
-
Madhani, H.D.1
Bordonne, R.2
Guthrie, C.3
-
32
-
-
0026410580
-
More than half of yeast U1 snRNA is dispensable for growth
-
Siliciano, P.G., Kivens, W.J. and Guthrie, C. (1991) More than half of yeast U1 snRNA is dispensable for growth. Nucleic Acids Res., 19, 6367-6372.
-
(1991)
Nucleic Acids Res.
, vol.19
, pp. 6367-6372
-
-
Siliciano, P.G.1
Kivens, W.J.2
Guthrie, C.3
-
33
-
-
0024280931
-
Two conserved domains of yeast U2 snRNA are separated by 945 nonessential nucleotides
-
Shuster, E.O. and Guthrie, C. (1988) Two conserved domains of yeast U2 snRNA are separated by 945 nonessential nucleotides. Cell, 55, 41-48.
-
(1988)
Cell
, vol.55
, pp. 41-48
-
-
Shuster, E.O.1
Guthrie, C.2
-
34
-
-
0030039512
-
Invariant U2 RNA sequences bordering the branchpoint recognition region are essential for interaction with yeast SF3a and SF3b subunits
-
Yan,D. and Ares,M. Jr (1996) Invariant U2 RNA sequences bordering the branchpoint recognition region are essential for interaction with yeast SF3a and SF3b subunits. Mol. Cell Biol., 16, 818-828.
-
(1996)
Mol. Cell Biol.
, vol.16
, pp. 818-828
-
-
Yan, D.1
Ares Jr., M.2
-
35
-
-
0027454568
-
A rapid assay for quantitative detection of specific RNAs
-
Li,Z. and Brow, D.A. (1993) A rapid assay for quantitative detection of specific RNAs. Nucleic Acids Res., 21, 4645-4646.
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 4645-4646
-
-
Li, Z.1
Brow, D.A.2
-
36
-
-
0034731349
-
A general approach for identification of RNA-protein cross-linking sites within native human spliceosomal small nuclear ribonucleoproteins (snRNPs). Analysis of RNA-protein contacts in native U1 and U4/U6.U5 snRNPs
-
Urlaub, H., Hartmuth, K., Kostka, S., Grelle,G. and Luhrmann, R. (2000) A general approach for identification of RNA-protein cross-linking sites within native human spliceosomal small nuclear ribonucleoproteins (snRNPs). Analysis of RNA-protein contacts in native U1 and U4/U6.U5 snRNPs. J. Biol. Chem., 275, 41458-41468.
-
(2000)
J. Biol. Chem.
, vol.275
, pp. 41458-41468
-
-
Urlaub, H.1
Hartmuth, K.2
Kostka, S.3
Grelle, G.4
Luhrmann, R.5
-
37
-
-
0031741144
-
The human U5-220kD protein (hPrp8) forms a stable RNA-free complex with several U5-specific proteins, including an RNA unwindase, a homologue of ribosomal elongation factor EF-2, and a novel WD-40 protein
-
Achsel, T., Ahrens, K., Brahms, H., Teigelkamp,S. and Luhrmann, R. (1998) The human U5-220kD protein (hPrp8) forms a stable RNA-free complex with several U5-specific proteins, including an RNA unwindase, a homologue of ribosomal elongation factor EF-2, and a novel WD-40 protein. Mol. Cell Biol., 18, 6756-6766.
-
(1998)
Mol. Cell Biol.
, vol.18
, pp. 6756-6766
-
-
Achsel, T.1
Ahrens, K.2
Brahms, H.3
Teigelkamp, S.4
Luhrmann, R.5
-
38
-
-
84868592766
-
Brr2p-mediated conformational rearrangements in the spliceosome during activation and substrate repositioning
-
Hahn, D., Kudla, G., Tollervey,D. and Beggs, J.D. (2012) Brr2p-mediated conformational rearrangements in the spliceosome during activation and substrate repositioning. Genes Dev., 26, 2408-2421.
-
(2012)
Genes Dev.
, vol.26
, pp. 2408-2421
-
-
Hahn, D.1
Kudla, G.2
Tollervey, D.3
Beggs, J.D.4
-
39
-
-
85011940677
-
Role of the snRNAs in spliceosomal active site
-
Valadkhan, S. (2010) Role of the snRNAs in spliceosomal active site. RNA Biol., 7, 345-353.
-
(2010)
RNA Biol.
, vol.7
, pp. 345-353
-
-
Valadkhan, S.1
-
40
-
-
27744541450
-
SnRNAs as the catalysts of pre-mRNA splicing
-
Valadkhan, S. (2005) snRNAs as the catalysts of pre-mRNA splicing. Curr. Opin. Chem. Biol., 9, 603-608.
-
(2005)
Curr. Opin. Chem. Biol.
, vol.9
, pp. 603-608
-
-
Valadkhan, S.1
-
41
-
-
0033792637
-
The question remains: Is the spliceosome a ribozyme? Nat
-
Collins, C.A. and Guthrie, C. (2000) The question remains: is the spliceosome a ribozyme? Nat. Struct. Biol., 7, 850-854.
-
(2000)
Struct. Biol.
, vol.7
, pp. 850-854
-
-
Collins, C.A.1
Guthrie, C.2
-
42
-
-
0033179776
-
Allele-specific genetic interactions between Prp8 and RNA active site residues suggest a function for Prp8 at the catalytic core of the spliceosome
-
Collins, C.A. and Guthrie, C. (1999) Allele-specific genetic interactions between Prp8 and RNA active site residues suggest a function for Prp8 at the catalytic core of the spliceosome. Genes Dev., 13, 1970-1982.
-
(1999)
Genes Dev.
, vol.13
, pp. 1970-1982
-
-
Collins, C.A.1
Guthrie, C.2
-
43
-
-
63649099704
-
Crystal structure of human spliceosomal U1 snRNP at 5.5 a resolution
-
Pomeranz Krummel, D.A., Oubridge, C., Leung, A.K., Li,J. and Nagai, K. (2009) Crystal structure of human spliceosomal U1 snRNP at 5.5 a resolution. Nature, 458, 475-480.
-
(2009)
Nature
, vol.458
, pp. 475-480
-
-
Pomeranz Krummel, D.A.1
Oubridge, C.2
Leung, A.K.3
Li, J.4
Nagai, K.5
-
44
-
-
0029958501
-
A spontaneous duplication in U6 spliceosomal RNA uncouples the early and late functions of the ACAGA element in vivo
-
Li,Z. and Brow, D.A. (1996) A spontaneous duplication in U6 spliceosomal RNA uncouples the early and late functions of the ACAGA element in vivo. RNA, 2, 879-894.
-
(1996)
RNA
, vol.2
, pp. 879-894
-
-
Li, Z.1
Brow, D.A.2
|