-
1
-
-
18444383371
-
Protein families and RNA recognition
-
Chen Y, &, Varani G, (2005) Protein families and RNA recognition. FEBS J 272, 2088-2097.
-
(2005)
FEBS J
, vol.272
, pp. 2088-2097
-
-
Chen, Y.1
Varani, G.2
-
2
-
-
34249316905
-
RNA-binding proteins: Modular design for efficient function
-
Lunde BM, Moore C, &, Varani G, (2007) RNA-binding proteins: modular design for efficient function. Nat Rev Mol Cell Biol 8, 479-490.
-
(2007)
Nat Rev Mol Cell Biol
, vol.8
, pp. 479-490
-
-
Lunde, B.M.1
Moore, C.2
Varani, G.3
-
3
-
-
0025773296
-
Zinc finger-DNA recognition: Crystal structure of a Zif268-DNA complex at 2.1 Å
-
Pavletich NP, &, Pabo CO, (1991) Zinc finger-DNA recognition: crystal structure of a Zif268-DNA complex at 2.1 Å. Science 252, 809-817.
-
(1991)
Science
, vol.252
, pp. 809-817
-
-
Pavletich, N.P.1
Pabo, C.O.2
-
4
-
-
77953633943
-
The discovery of zinc fingers and their applications in gene regulation and genome manipulation
-
Klug A, (2010) The discovery of zinc fingers and their applications in gene regulation and genome manipulation. Annu Rev Biochem 79, 213-231.
-
(2010)
Annu Rev Biochem
, vol.79
, pp. 213-231
-
-
Klug, A.1
-
5
-
-
0037711251
-
Drug discovery with engineered zinc-finger proteins
-
Jamieson AC, Miller JC, &, Pabo CO, (2003) Drug discovery with engineered zinc-finger proteins. Nat Rev Drug Discov 2, 361-368.
-
(2003)
Nat Rev Drug Discov
, vol.2
, pp. 361-368
-
-
Jamieson, A.C.1
Miller, J.C.2
Pabo, C.O.3
-
6
-
-
79952363146
-
The prospects for designer single-stranded RNA-binding proteins
-
Mackay JP, Font J, &, Segal DJ, (2011) The prospects for designer single-stranded RNA-binding proteins. Nat Struct Mol Biol 18, 256-261.
-
(2011)
Nat Struct Mol Biol
, vol.18
, pp. 256-261
-
-
Mackay, J.P.1
Font, J.2
Segal, D.J.3
-
7
-
-
0034695419
-
Crystallization and structure determination of a hepatitis delta virus ribozyme: Use of the RNA-binding protein U1A as a crystallization module
-
Ferré-D'Amaré AR, &, Doudna JA, (2000) Crystallization and structure determination of a hepatitis delta virus ribozyme: use of the RNA-binding protein U1A as a crystallization module. J Mol Biol 295, 541-556.
-
(2000)
J Mol Biol
, vol.295
, pp. 541-556
-
-
Ferré-D'Amaré, A.R.1
Doudna, J.A.2
-
8
-
-
77957111493
-
Use of the spliceosomal protein U1A to facilitate crystallization and structure determination of complex RNAs
-
Ferré-D'Amaré AR, (2010) Use of the spliceosomal protein U1A to facilitate crystallization and structure determination of complex RNAs. Methods 52, 159-167.
-
(2010)
Methods
, vol.52
, pp. 159-167
-
-
Ferré-D'Amaré, A.R.1
-
9
-
-
2942733310
-
Dynamics of single mRNPs in nucleic of living cells
-
Shav-Tal Y, Darzacq X, Shenoy SM, Fusco D, Janicki SM, Spector DL, &, Singer RH, (2004) Dynamics of single mRNPs in nucleic of living cells. Science 304, 1797-1800.
-
(2004)
Science
, vol.304
, pp. 1797-1800
-
-
Shav-Tal, Y.1
Darzacq, X.2
Shenoy, S.M.3
Fusco, D.4
Janicki, S.M.5
Spector, D.L.6
Singer, R.H.7
-
10
-
-
28944434119
-
Real-time kinetics of gene activity in individual bacteria
-
Golding I, Paulsson J, Zawilski SM, &, Cox EC, (2005) Real-time kinetics of gene activity in individual bacteria. Cell 123, 1025-1036.
-
(2005)
Cell
, vol.123
, pp. 1025-1036
-
-
Golding, I.1
Paulsson, J.2
Zawilski, S.M.3
Cox, E.C.4
-
11
-
-
33947262696
-
AU-rich-element-mediated upregulation of translation by FXR1 and Argonaute 2
-
Vasudevan S, &, Steitz JA, (2007) AU-rich-element-mediated upregulation of translation by FXR1 and Argonaute 2. Cell 128, 1105-1118.
-
(2007)
Cell
, vol.128
, pp. 1105-1118
-
-
Vasudevan, S.1
Steitz, J.A.2
-
12
-
-
38949107432
-
Tethering of proteins to RNAs by bacteriophage proteins
-
Keryer-Bibens C, Barreau C, &, Osborne HB, (2008) Tethering of proteins to RNAs by bacteriophage proteins. Biol Cell 100, 125-138.
-
(2008)
Biol Cell
, vol.100
, pp. 125-138
-
-
Keryer-Bibens, C.1
Barreau, C.2
Osborne, H.B.3
-
13
-
-
0033200316
-
Translation driven by an eIF4G core domain in vivo
-
De Gregorio E, Preiss T, &, Hentze MW, (1999) Translation driven by an eIF4G core domain in vivo. EMBO J 18, 4865-4874.
-
(1999)
EMBO J
, vol.18
, pp. 4865-4874
-
-
De Gregorio, E.1
Preiss, T.2
Hentze, M.W.3
-
14
-
-
33748784359
-
Engineering RNA sequence specificity of Pumilio repeats
-
Cheong C, &, Hall TMT, (2006) Engineering RNA sequence specificity of Pumilio repeats. Proc Natl Acad Sci USA 103, 13635-13639.
-
(2006)
Proc Natl Acad Sci USA
, vol.103
, pp. 13635-13639
-
-
Cheong, C.1
Hall, T.M.T.2
-
15
-
-
60349124749
-
Understanding and engineering RNA sequence specificity of PUF proteins
-
Lu G, Dolgner SJ, &, Hall TMT, (2009) Understanding and engineering RNA sequence specificity of PUF proteins. Curr Opin Struct Biol 19, 110-115.
-
(2009)
Curr Opin Struct Biol
, vol.19
, pp. 110-115
-
-
Lu, G.1
Dolgner, S.J.2
Hall, T.M.T.3
-
16
-
-
84885898647
-
Engineered proteins with PUF scaffold to manipulate RNA metabolism
-
doi: 10.1111/febs.12367
-
Wang Y, Wang Z, &, Hall TMT, (2013) Engineered proteins with PUF scaffold to manipulate RNA metabolism. FEBS J, doi: 10.1111/febs.12367.
-
(2013)
FEBS J
-
-
Wang, Y.1
Wang, Z.2
Hall, T.M.T.3
-
17
-
-
79960962252
-
Finding the missing code of RNA recognition by PUF proteins
-
Chen Y, &, Varani G, (2011) Finding the missing code of RNA recognition by PUF proteins. Chem Biol 18, 821-823.
-
(2011)
Chem Biol
, vol.18
, pp. 821-823
-
-
Chen, Y.1
Varani, G.2
-
18
-
-
79960671724
-
Specific and modular binding code for cytosine recognition in pumilio/FBF (PUF) RNA-binding domains
-
Dong S, Wang Y, Cassidy-Amstutz C, Lu G, Bigler R, Jezyk MR, Li C, Hall TMT, &, Wang Z, (2011) Specific and modular binding code for cytosine recognition in pumilio/FBF (PUF) RNA-binding domains. J Biol Chem 286, 26732-26742.
-
(2011)
J Biol Chem
, vol.286
, pp. 26732-26742
-
-
Dong, S.1
Wang, Y.2
Cassidy-Amstutz, C.3
Lu, G.4
Bigler, R.5
Jezyk, M.R.6
Li, C.7
Hall, T.M.T.8
Wang, Z.9
-
19
-
-
79959377357
-
A universal code for RNA recognition by PUF proteins
-
Filipovska A, Razif MFM, Nygård KKA, &, Rackham O, (2011) A universal code for RNA recognition by PUF proteins. Nat Chem Biol 7, 425-427.
-
(2011)
Nat Chem Biol
, vol.7
, pp. 425-427
-
-
Filipovska, A.1
Razif, M.F.M.2
Nygård, K.K.A.3
Rackham, O.4
-
20
-
-
34250210525
-
Imaging dynamics of endogenous mitochondrial RNA in single living cells
-
Ozawa T, Natori Y, Sato M, &, Umezawa Y, (2007) Imaging dynamics of endogenous mitochondrial RNA in single living cells. Nat Methods 4, 413-419.
-
(2007)
Nat Methods
, vol.4
, pp. 413-419
-
-
Ozawa, T.1
Natori, Y.2
Sato, M.3
Umezawa, Y.4
-
21
-
-
59149083312
-
Live-cell imaging of viral RNA genomes using a Pumilio-based reporter
-
Tilsner J, Linnik O, Christensen NM, Bell K, Roberts IM, Lacomme C, &, Oparka KJ, (2009) Live-cell imaging of viral RNA genomes using a Pumilio-based reporter. Plant J 57, 758-770.
-
(2009)
Plant J
, vol.57
, pp. 758-770
-
-
Tilsner, J.1
Linnik, O.2
Christensen, N.M.3
Bell, K.4
Roberts, I.M.5
Lacomme, C.6
Oparka, K.J.7
-
22
-
-
84869419167
-
Engineering RNA endonucleases with customized sequence specificities
-
Choudhury R, Tsai YS, Dominguez D, Wang Y, &, Wang Z, (2012) Engineering RNA endonucleases with customized sequence specificities. Nat Commun 3, 1147-1155.
-
(2012)
Nat Commun
, vol.3
, pp. 1147-1155
-
-
Choudhury, R.1
Tsai, Y.S.2
Dominguez, D.3
Wang, Y.4
Wang, Z.5
-
23
-
-
80053159210
-
Targeted translational regulation using the PUF protein family scaffold
-
Cooke A, Prigge A, Opperman L, &, Wickens M, (2011) Targeted translational regulation using the PUF protein family scaffold. Proc Natl Acad Sci USA 108, 15870-15875.
-
(2011)
Proc Natl Acad Sci USA
, vol.108
, pp. 15870-15875
-
-
Cooke, A.1
Prigge, A.2
Opperman, L.3
Wickens, M.4
-
24
-
-
0033549817
-
Tertiary motifs in RNA structure and folding
-
Batey RT, Rambo RP, &, Doudna JA, (1999) Tertiary motifs in RNA structure and folding. Angew Chem Int Ed Engl 38, 2326-2343.
-
(1999)
Angew Chem Int Ed Engl
, vol.38
, pp. 2326-2343
-
-
Batey, R.T.1
Rambo, R.P.2
Doudna, J.A.3
-
25
-
-
18544377013
-
The RNA recognition motif: A plastic RNA-binding platform to regulate post-transcriptional gene expression
-
Maris C, Dominguez C, &, Allain FH-T, (2005) The RNA recognition motif: a plastic RNA-binding platform to regulate post-transcriptional gene expression. FEBS J 272, 2118-2131.
-
(2005)
FEBS J
, vol.272
, pp. 2118-2131
-
-
Maris, C.1
Dominguez, C.2
Allain, F.-T.3
-
26
-
-
44949179228
-
RNA recognition motifs: Boring? Not quite
-
Cléry A, Blatter M, &, Allain FH-T, (2008) RNA recognition motifs: boring? Not quite. Curr Opin Struct Biol 18, 290-298.
-
(2008)
Curr Opin Struct Biol
, vol.18
, pp. 290-298
-
-
Cléry, A.1
Blatter, M.2
Allain, F.-T.3
-
27
-
-
84867595792
-
Structural insight into RNA recognition motifs: Versatile molecular Lego building blocks for biological systems
-
Muto Y, &, Yokoyama S, (2012) Structural insight into RNA recognition motifs: versatile molecular Lego building blocks for biological systems. Wiley Interdiscip Rev RNA 3, 229-246.
-
(2012)
Wiley Interdiscip Rev RNA
, vol.3
, pp. 229-246
-
-
Muto, Y.1
Yokoyama, S.2
-
28
-
-
33745616104
-
The role of RNA structure in the interaction of U1A protein with U1 hairpin II RNA
-
Law MJ, Rice AJ, Lin P, &, Laird-Offringa IA, (2006) The role of RNA structure in the interaction of U1A protein with U1 hairpin II RNA. RNA 12, 1168-1178.
-
(2006)
RNA
, vol.12
, pp. 1168-1178
-
-
Law, M.J.1
Rice, A.J.2
Lin, P.3
Laird-Offringa, I.A.4
-
29
-
-
30444446153
-
Molecular basis of RNA recognition by the human alternative splicing factor Fox-1
-
Auweter SD, Fasan R, Reymond L, Underwood JG, Black DL, Pitsch S, &, Allain FH-T, (2006) Molecular basis of RNA recognition by the human alternative splicing factor Fox-1. EMBO J 25, 163-173.
-
(2006)
EMBO J
, vol.25
, pp. 163-173
-
-
Auweter, S.D.1
Fasan, R.2
Reymond, L.3
Underwood, J.G.4
Black, D.L.5
Pitsch, S.6
Allain, F.-T.7
-
30
-
-
0028004607
-
Crystal structure at 1.92 Å resolution of the RNA-binding domain of the U1A spliceosomal protein complexed with an RNA hairpin
-
Oubridge C, Ito N, Evans PR, Teo CH, &, Nagai K, (1994) Crystal structure at 1.92 Å resolution of the RNA-binding domain of the U1A spliceosomal protein complexed with an RNA hairpin. Nature 372, 432-438.
-
(1994)
Nature
, vol.372
, pp. 432-438
-
-
Oubridge, C.1
Ito, N.2
Evans, P.R.3
Teo, C.H.4
Nagai, K.5
-
31
-
-
77956498326
-
Sequence- and structure-specific RNA processing by a CRISPR endonuclease
-
Haurwitz RE, Jinek M, Wiedenheft B, Zhou K, &, Doudna JA, (2010) Sequence- and structure-specific RNA processing by a CRISPR endonuclease. Science 329, 1355-1358.
-
(2010)
Science
, vol.329
, pp. 1355-1358
-
-
Haurwitz, R.E.1
Jinek, M.2
Wiedenheft, B.3
Zhou, K.4
Doudna, J.A.5
-
32
-
-
84874930818
-
Recognition and cleavage of a nonstructured CRISPR RNA by its processing endoribonuclease Cas6
-
Shao Y, &, Li H, (2013) Recognition and cleavage of a nonstructured CRISPR RNA by its processing endoribonuclease Cas6. Structure 13, 385-393.
-
(2013)
Structure
, vol.13
, pp. 385-393
-
-
Shao, Y.1
Li, H.2
-
33
-
-
33750222859
-
Sequence-specific binding of single-stranded RNA: Is there a code for recognition?
-
Auweter SD, Oberstrass FC, &, Allain FH-T, (2006) Sequence-specific binding of single-stranded RNA: is there a code for recognition? Nucleic Acids Res 34, 4943-4959.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 4943-4959
-
-
Auweter, S.D.1
Oberstrass, F.C.2
Allain, F.-T.3
-
34
-
-
0030755124
-
Structural basis of the RNA-binding specificity of human U1A protein
-
Allain FH-T, Howe PWA, Neuhaus D, &, Varani G, (1997) Structural basis of the RNA-binding specificity of human U1A protein. EMBO J 16, 5764-5772.
-
(1997)
EMBO J
, vol.16
, pp. 5764-5772
-
-
Allain, F.-T.1
Howe, P.W.A.2
Neuhaus, D.3
Varani, G.4
-
35
-
-
0041428117
-
The folding and design of repeat proteins: Reaching a consensus
-
Main ERG, Jackson SE, &, Regan L, (2003) The folding and design of repeat proteins: reaching a consensus. Curr Opin Struct Biol 13, 482-489.
-
(2003)
Curr Opin Struct Biol
, vol.13
, pp. 482-489
-
-
Main, E.R.G.1
Jackson, S.E.2
Regan, L.3
-
36
-
-
49549084586
-
Ligand binding by repeat proteins: Natural and designed
-
Grove TZ, Cortajarena AL, &, Regan L, (2008) Ligand binding by repeat proteins: natural and designed. Curr Opin Struct Biol 18, 507-515.
-
(2008)
Curr Opin Struct Biol
, vol.18
, pp. 507-515
-
-
Grove, T.Z.1
Cortajarena, A.L.2
Regan, L.3
-
37
-
-
84857198283
-
Modular recognition of nucleic acids by PUF, TALE and PPR proteins
-
Filipovska A, &, Rackham O, (2012) Modular recognition of nucleic acids by PUF, TALE and PPR proteins. Mol BioSyst 8, 699-708.
-
(2012)
Mol BioSyst
, vol.8
, pp. 699-708
-
-
Filipovska, A.1
Rackham, O.2
-
38
-
-
72149090954
-
A simple cipher governs DNA recognition by TAL effectors
-
Moscou MJ, &, Bogdanove AJ, (2009) A simple cipher governs DNA recognition by TAL effectors. Science 326, 1501.
-
(2009)
Science
, vol.326
, pp. 1501
-
-
Moscou, M.J.1
Bogdanove, A.J.2
-
39
-
-
72149110399
-
Breaking the code of DNA binding specificity of TAL-type III effectors
-
Boch J, Scholze H, Schornack S, Landgraf A, Hahn S, Kay S, Lahaye T, Nickstadt A, &, Bonas U, (2009) Breaking the code of DNA binding specificity of TAL-type III effectors. Science 326, 1509-1512.
-
(2009)
Science
, vol.326
, pp. 1509-1512
-
-
Boch, J.1
Scholze, H.2
Schornack, S.3
Landgraf, A.4
Hahn, S.5
Kay, S.6
Lahaye, T.7
Nickstadt, A.8
Bonas, U.9
-
40
-
-
0035032449
-
The mechanism of RNA binding to TRAP: Initiation and cooperative interactions
-
Elliott MB, Gottlieb PA, &, Gollnick P, (2001) The mechanism of RNA binding to TRAP: initiation and cooperative interactions. RNA 7, 85-93.
-
(2001)
RNA
, vol.7
, pp. 85-93
-
-
Elliott, M.B.1
Gottlieb, P.A.2
Gollnick, P.3
-
41
-
-
84871519181
-
TALENs: A widely applicable technology for targeted genome editing
-
Joung JK, &, Sander JD, (2013) TALENs: a widely applicable technology for targeted genome editing. Nat Rev Mol Cell Biol 14, 49-55.
-
(2013)
Nat Rev Mol Cell Biol
, vol.14
, pp. 49-55
-
-
Joung, J.K.1
Sander, J.D.2
-
42
-
-
0037162703
-
Modular recognition of RNA by a human Pumilio-homology domain
-
Wang X, McLachlan J, Zamore PD, &, Hall TMT, (2002) Modular recognition of RNA by a human Pumilio-homology domain. Cell 110, 501-512.
-
(2002)
Cell
, vol.110
, pp. 501-512
-
-
Wang, X.1
McLachlan, J.2
Zamore, P.D.3
Hall, T.M.T.4
-
43
-
-
70350719211
-
Engineering splicing factors with designed specificities
-
Wang Y, Cheong G, Hall TMT, &, Wang Z, (2009) Engineering splicing factors with designed specificities. Nat Methods 6, 825-830.
-
(2009)
Nat Methods
, vol.6
, pp. 825-830
-
-
Wang, Y.1
Cheong, G.2
Hall, T.M.T.3
Wang, Z.4
-
44
-
-
77955789541
-
Toward a general approach for RNA-templated hierarchical assembly of split-proteins
-
Furman JL, Badran AH, Ajulo O, Porter JR, Stains CI, Segal DJ, &, Ghosh I, (2010) Toward a general approach for RNA-templated hierarchical assembly of split-proteins. J Am Chem Soc 132, 11692-11701.
-
(2010)
J Am Chem Soc
, vol.132
, pp. 11692-11701
-
-
Furman, J.L.1
Badran, A.H.2
Ajulo, O.3
Porter, J.R.4
Stains, C.I.5
Segal, D.J.6
Ghosh, I.7
-
45
-
-
73949159967
-
Structural basis for specific recognition of multiple mRNA targets by a PUF regulatory protein
-
Wang Y, Opperman L, Wickens M, &, Hall TMT, (2009) Structural basis for specific recognition of multiple mRNA targets by a PUF regulatory protein. Proc Natl Acad Sci USA 106, 20186-20191.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 20186-20191
-
-
Wang, Y.1
Opperman, L.2
Wickens, M.3
Hall, T.M.T.4
-
46
-
-
41649092045
-
Basis of altered RNA-binding specificity by PUF proteins revealed by crystal structures of yeast PuF4p
-
Miller MT, Higgin JJ, &, Hall TMT, (2008) Basis of altered RNA-binding specificity by PUF proteins revealed by crystal structures of yeast PuF4p. Nat Struct Mol Biol 15, 397-402.
-
(2008)
Nat Struct Mol Biol
, vol.15
, pp. 397-402
-
-
Miller, M.T.1
Higgin, J.J.2
Hall, T.M.T.3
-
47
-
-
41449107841
-
Structures of human Pumilio with noncognate RNAs reveal molecular mechanisms for binding promiscuity
-
Gupta YK, Nair DT, Wharton RP, &, Aggarwal AK, (2008) Structures of human Pumilio with noncognate RNAs reveal molecular mechanisms for binding promiscuity. Structure 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
-
48
-
-
79952460244
-
Alternate modes of cognate RNA recognition by human pumilio proteins
-
Lu G, &, Hall TMT, (2011) Alternate modes of cognate RNA recognition by human pumilio proteins. Structure 19, 361-367.
-
(2011)
Structure
, vol.19
, pp. 361-367
-
-
Lu, G.1
Hall, T.M.T.2
-
49
-
-
79957886185
-
The evolution of RNA editing and pentatricopeptide repeat genes
-
Fujii S, &, Small I, (2011) The evolution of RNA editing and pentatricopeptide repeat genes. New Phytol 191, 37-47.
-
(2011)
New Phytol
, vol.191
, pp. 37-47
-
-
Fujii, S.1
Small, I.2
-
50
-
-
56549095978
-
Pentatricopeptide repeat proteins: A socket set for organelle gene expression
-
Schmitz-Linneweber C, &, Small I, (2008) Pentatricopeptide repeat proteins: a socket set for organelle gene expression. Trends Plant Sci 13, 663-670.
-
(2008)
Trends Plant Sci
, vol.13
, pp. 663-670
-
-
Schmitz-Linneweber, C.1
Small, I.2
-
51
-
-
84866145891
-
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, (2012) A combinatorial amino acid code for RNA recognition by pentatricopeptide repeat proteins. PLoS Genet 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
-
52
-
-
0035253621
-
KH domains: One motif, two folds
-
Grishin NV, (2001) KH domains: one motif, two folds. Nucleic Acids Res 29, 638-643.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 638-643
-
-
Grishin, N.V.1
-
53
-
-
0034603208
-
Sequence-specific RNA binding by a Nova KH domain: Implications for paraneoplastic disease and the fragile X syndrome
-
Lewis HA, Musunuru K, Jensen KB, Edo C, Chen H, Darnell RB, &, Burley SK, (2000) Sequence-specific RNA binding by a Nova KH domain: implications for paraneoplastic disease and the fragile X syndrome. Cell 100, 323-332.
-
(2000)
Cell
, vol.100
, pp. 323-332
-
-
Lewis, H.A.1
Musunuru, K.2
Jensen, K.B.3
Edo, C.4
Chen, H.5
Darnell, R.B.6
Burley, S.K.7
-
54
-
-
0035798243
-
Structural basis for recognition of the intron branch site RNA by splicing factor 1
-
Liu Z, Luyten I, Bottomley MJ, Messias AC, Houngninou-Molango S, Sprangers R, Zanier K, Kramer A, &, Sattler M, (2001) Structural basis for recognition of the intron branch site RNA by splicing factor 1. Science 294, 1098-1102.
-
(2001)
Science
, vol.294
, pp. 1098-1102
-
-
Liu, Z.1
Luyten, I.2
Bottomley, M.J.3
Messias, A.C.4
Houngninou-Molango, S.5
Sprangers, R.6
Zanier, K.7
Kramer, A.8
Sattler, M.9
-
55
-
-
27144547978
-
Structure of a Mycobacterium tuberculosis NusA-RNA complex
-
Beuth B, Pennell S, Arnvig KB, Martin SR, &, Taylor IA, (2005) Structure of a Mycobacterium tuberculosis NusA-RNA complex. EMBO J 24, 3576-3587.
-
(2005)
EMBO J
, vol.24
, pp. 3576-3587
-
-
Beuth, B.1
Pennell, S.2
Arnvig, K.B.3
Martin, S.R.4
Taylor, I.A.5
-
56
-
-
31044451215
-
Distinct contributions of KH domains to substrate binding affinity of Drosophila P-element somatic inhibitor protein
-
Chmiel NH, Rio DC, &, Doudna JA, (2006) Distinct contributions of KH domains to substrate binding affinity of Drosophila P-element somatic inhibitor protein. RNA 12, 283-291.
-
(2006)
RNA
, vol.12
, pp. 283-291
-
-
Chmiel, N.H.1
Rio, D.C.2
Doudna, J.A.3
-
58
-
-
0242581682
-
Crystal structure of a zinc-finger-RNA complex reveals two modes of molecular recognition
-
Lu D, Searles MA, &, Klug A, (2003) Crystal structure of a zinc-finger-RNA complex reveals two modes of molecular recognition. Nature 426, 96-100.
-
(2003)
Nature
, vol.426
, pp. 96-100
-
-
Lu, D.1
Searles, M.A.2
Klug, A.3
-
59
-
-
0030892127
-
Phage display of RNA binding zinc fingers from transcription factor IIIA
-
Friesen WJ, &, Darby MK, (1997) Phage display of RNA binding zinc fingers from transcription factor IIIA. J Biol Chem 272, 10994-10997.
-
(1997)
J Biol Chem
, vol.272
, pp. 10994-10997
-
-
Friesen, W.J.1
Darby, M.K.2
-
60
-
-
69249221371
-
TIS11 family proteins and their roles in posttranscriptional gene regulation
-
Baou M, Jewell A, &, Murphy JJ, (2009) TIS11 family proteins and their roles in posttranscriptional gene regulation. J Biomed Biotechnol 2009, 1-11.
-
(2009)
J Biomed Biotechnol
, vol.2009
, pp. 1-11
-
-
Baou, M.1
Jewell, A.2
Murphy, J.J.3
-
61
-
-
0036863118
-
Tristetraprolin and other CCCH tandem zinc-finger proteins in the regulation of mRNA turnover
-
Blackshear PJ, (2002) Tristetraprolin and other CCCH tandem zinc-finger proteins in the regulation of mRNA turnover. Biochem Soc Trans 30, 945-952.
-
(2002)
Biochem Soc Trans
, vol.30
, pp. 945-952
-
-
Blackshear, P.J.1
-
62
-
-
0038504080
-
Characteristics of the interaction of a synthetic human tristetraprolin tandem zinc finger peptide with AU-rich element-containing RNA substrates
-
Blackshear PJ, Lai WS, Kennington EA, Brewer G, Wilson GM, Guan X, &, Zhou P, (2003) Characteristics of the interaction of a synthetic human tristetraprolin tandem zinc finger peptide with AU-rich element-containing RNA substrates. J Biol Chem 278, 19947-19955.
-
(2003)
J Biol Chem
, vol.278
, pp. 19947-19955
-
-
Blackshear, P.J.1
Lai, W.S.2
Kennington, E.A.3
Brewer, G.4
Wilson, G.M.5
Guan, X.6
Zhou, P.7
-
63
-
-
1442311533
-
Recognition of the mRNA AU-rich element by the zinc finger domain of TIS11d
-
Hudson BP, Martinez-Yamout MA, Dyson HJ, &, Wright PE, (2004) Recognition of the mRNA AU-rich element by the zinc finger domain of TIS11d. Nat Struct Mol Biol 11, 257-264.
-
(2004)
Nat Struct Mol Biol
, vol.11
, pp. 257-264
-
-
Hudson, B.P.1
Martinez-Yamout, M.A.2
Dyson, H.J.3
Wright, P.E.4
-
64
-
-
34247856078
-
Molecular basis of RNA recognition by the embryonic polarity determinant MEX-5
-
Pagano JM, Farley BM, McCoig LM, &, Ryder SP, (2007) Molecular basis of RNA recognition by the embryonic polarity determinant MEX-5. J Biol Chem 282, 8883-8894.
-
(2007)
J Biol Chem
, vol.282
, pp. 8883-8894
-
-
Pagano, J.M.1
Farley, B.M.2
McCoig, L.M.3
Ryder, S.P.4
-
65
-
-
2242469712
-
Structure of the HIV-1 nucleocapsid protein bound to the SL3 ψ-RNA recognition element
-
De Guzman RN, Wu ZR, Stalling CC, Pappalardo L, Borer PN, &, Summers MF, (1998) Structure of the HIV-1 nucleocapsid protein bound to the SL3 ψ-RNA recognition element. Science 279, 384-388.
-
(1998)
Science
, vol.279
, pp. 384-388
-
-
De Guzman, R.N.1
Wu, Z.R.2
Stalling, C.C.3
Pappalardo, L.4
Borer, P.N.5
Summers, M.F.6
-
66
-
-
4944256277
-
Structural basis for packaging the dimeric genome of Moloney murine leukaemia virus
-
D'Souza V, &, Summers MF, (2004) Structural basis for packaging the dimeric genome of Moloney murine leukaemia virus. Nature 431, 586-590.
-
(2004)
Nature
, vol.431
, pp. 586-590
-
-
D'Souza, V.1
Summers, M.F.2
-
67
-
-
14844340022
-
Composition and sequence-dependent binding of RNA to the nucleocapsid protein of Moloney murine leukemia virus
-
Dey A, York D, Smalls-Mantey A, &, Summers MF, (2005) Composition and sequence-dependent binding of RNA to the nucleocapsid protein of Moloney murine leukemia virus. Biochemistry 44, 3735-3744.
-
(2005)
Biochemistry
, vol.44
, pp. 3735-3744
-
-
Dey, A.1
York, D.2
Smalls-Mantey, A.3
Summers, M.F.4
-
68
-
-
84855421472
-
Structural basis of pre-let-7 miRNA recognition by the zinc knuckles of pluripotency factor Lin28
-
Loughlin FE, Gebert LFR, Towbin H, Brunschweiger A, Hall J, &, Allain FH-T, (2012) Structural basis of pre-let-7 miRNA recognition by the zinc knuckles of pluripotency factor Lin28. Nat Struct Mol Biol 19, 84-90.
-
(2012)
Nat Struct Mol Biol
, vol.19
, pp. 84-90
-
-
Loughlin, F.E.1
Gebert, L.F.R.2
Towbin, H.3
Brunschweiger, A.4
Hall, J.5
Allain, F.-T.6
-
69
-
-
81855228621
-
Molecule basis for interaction of let-7 microRNAs with Lin28
-
Nam Y, Chen C, Gregory RI, Chou JJ, &, Sliz P, (2011) Molecule basis for interaction of let-7 microRNAs with Lin28. Cell 147, 1080-1091.
-
(2011)
Cell
, vol.147
, pp. 1080-1091
-
-
Nam, Y.1
Chen, C.2
Gregory, R.I.3
Chou, J.J.4
Sliz, P.5
-
70
-
-
77954625857
-
Design of single-stranded nucleic acid binding peptides based on nucleocapsid CCHC-box zinc-binding domains
-
Guerrerio AL, &, Berg JM, (2010) Design of single-stranded nucleic acid binding peptides based on nucleocapsid CCHC-box zinc-binding domains. J Am Chem Soc 132, 9638-9643.
-
(2010)
J Am Chem Soc
, vol.132
, pp. 9638-9643
-
-
Guerrerio, A.L.1
Berg, J.M.2
-
71
-
-
0038604103
-
The structure of the zinc finger domain from human splicing factor ZNF265 fold
-
Plambeck CA, Kwan AH, Adams DJ, Westman BJ, van der Weyden L, Medcalf RL, Morris BJ, &, Mackay JP, (2003) The structure of the zinc finger domain from human splicing factor ZNF265 fold. J Biol Chem 278, 22805-22811.
-
(2003)
J Biol Chem
, vol.278
, pp. 22805-22811
-
-
Plambeck, C.A.1
Kwan, A.H.2
Adams, D.J.3
Westman, B.J.4
Van Der Weyden, L.5
Medcalf, R.L.6
Morris, B.J.7
Mackay, J.P.8
-
72
-
-
0038036801
-
Structure and ubiquitin interactions of the conserved zinc finger domain of Npl4
-
Wang B, Alam SL, Meyer HH, Payne M, Stemmler TL, Davis DR, &, Sundquist WI, (2003) Structure and ubiquitin interactions of the conserved zinc finger domain of Npl4. J Biol Chem 278, 20225-20234.
-
(2003)
J Biol Chem
, vol.278
, pp. 20225-20234
-
-
Wang, B.1
Alam, S.L.2
Meyer, H.H.3
Payne, M.4
Stemmler, T.L.5
Davis, D.R.6
Sundquist, W.I.7
-
73
-
-
2342522100
-
Ubiquitin interactions of NZF zinc fingers
-
Alam SL, Sun J, Payne M, Welch BD, Blake BK, Davis DR, Meyer HH, Emr SD, &, Sundquist WI, (2004) Ubiquitin interactions of NZF zinc fingers. EMBO J 23, 1411-1421.
-
(2004)
EMBO J
, vol.23
, pp. 1411-1421
-
-
Alam, S.L.1
Sun, J.2
Payne, M.3
Welch, B.D.4
Blake, B.K.5
Davis, D.R.6
Meyer, H.H.7
Emr, S.D.8
Sundquist, W.I.9
-
74
-
-
34447124442
-
Molecular characterization of the ran-binding zinc finger domain of NUP 153
-
Higa MM, Alam SL, Sundquist WI, &, Ullman KS, (2007) Molecular characterization of the ran-binding zinc finger domain of NUP 153. J Biol Chem 282, 17090-17100.
-
(2007)
J Biol Chem
, vol.282
, pp. 17090-17100
-
-
Higa, M.M.1
Alam, S.L.2
Sundquist, W.I.3
Ullman, K.S.4
-
75
-
-
65249133459
-
The zinc fingers of the SR-like protein ZRANB2 are single-stranded RNA-binding domains that recognize 5′ splice site-like sequences
-
Loughlin FE, Mansfield RE, Vaz PM, McGrath AP, Setiyaputra S, Gamsjaeger R, Chen ES, Morris BJ, Guss JM, &, Mackay JP, (2009) The zinc fingers of the SR-like protein ZRANB2 are single-stranded RNA-binding domains that recognize 5′ splice site-like sequences. Proc Natl Acad Sci USA 106, 5581-5586.
-
(2009)
Proc Natl Acad Sci USA
, vol.106
, pp. 5581-5586
-
-
Loughlin, F.E.1
Mansfield, R.E.2
Vaz, P.M.3
McGrath, A.P.4
Setiyaputra, S.5
Gamsjaeger, R.6
Chen, E.S.7
Morris, B.J.8
Guss, J.M.9
Mackay, J.P.10
-
76
-
-
79952317624
-
Characterization of a family of RanBP2-type zinc fingers that can recognize single-stranded RNA
-
Nguyen CD, Mansfield RE, Leung W, Vaz PM, Loughlin FE, Grant RP, &, Mackay JP, (2011) Characterization of a family of RanBP2-type zinc fingers that can recognize single-stranded RNA. J Mol Biol 407, 273-283.
-
(2011)
J Mol Biol
, vol.407
, pp. 273-283
-
-
Nguyen, C.D.1
Mansfield, R.E.2
Leung, W.3
Vaz, P.M.4
Loughlin, F.E.5
Grant, R.P.6
Mackay, J.P.7
-
77
-
-
0003803285
-
-
University Science Books, Sausalito, CA
-
Bloomfield VA, Crothers DM, &, Tinoco JI, (2000) Nucleic Acids: Structures, Properties and Functions. University Science Books, Sausalito, CA.
-
(2000)
Nucleic Acids: Structures, Properties and Functions
-
-
Bloomfield, V.A.1
Crothers, D.M.2
Tinoco, J.I.3
-
78
-
-
0037711199
-
The dsRNA binding protein family: Critical role, diverse cellular functions
-
Saunders LR, &, Barber GN, (2003) The dsRNA binding protein family: critical role, diverse cellular functions. FASEB J 17, 961-983.
-
(2003)
FASEB J
, vol.17
, pp. 961-983
-
-
Saunders, L.R.1
Barber, G.N.2
-
79
-
-
10044246238
-
The double-stranded RNA-binding motif: Interference and much more
-
Tian B, Bevilacqua PC, Diegelman-Parente A, &, Mathews MB, (2004) The double-stranded RNA-binding motif: interference and much more. Nat Rev Mol Cell Biol 5, 1013-1023.
-
(2004)
Nat Rev Mol Cell Biol
, vol.5
, pp. 1013-1023
-
-
Tian, B.1
Bevilacqua, P.C.2
Diegelman-Parente, A.3
Mathews, M.B.4
-
80
-
-
84878270899
-
RNA recognition by double-stranded RNA binding domains: A matter of shape and sequence
-
Masliah G, Barraud P, &, Allain FH-T, (2013) RNA recognition by double-stranded RNA binding domains: a matter of shape and sequence. Cell Mol Life Sci 70, 1875-1895.
-
(2013)
Cell Mol Life Sci
, vol.70
, pp. 1875-1895
-
-
Masliah, G.1
Barraud, P.2
Allain, F.-T.3
-
81
-
-
18444380595
-
The double-stranded RNA-binding motif, a versatile macromolecular docking platform
-
Chang KY, &, Ramos A, (2005) The double-stranded RNA-binding motif, a versatile macromolecular docking platform. FEBS J 272, 2109-2117.
-
(2005)
FEBS J
, vol.272
, pp. 2109-2117
-
-
Chang, K.Y.1
Ramos, A.2
-
82
-
-
0032535613
-
Molecular basis of double-stranded RNA-protein interactions: Structure of a dsRNA-binding domain complexed with dsRNA
-
Ryter JM, &, Schultz SC, (1998) Molecular basis of double-stranded RNA-protein interactions: structure of a dsRNA-binding domain complexed with dsRNA. EMBO J 17, 7505-7513.
-
(1998)
EMBO J
, vol.17
, pp. 7505-7513
-
-
Ryter, J.M.1
Schultz, S.C.2
-
83
-
-
1542581581
-
Noncatalytic assembly of ribonuclease III with double-stranded RNA
-
Blaszczyk J, Gan J, Tropea JE, Court DL, Waugh DS, &, Ji X, (2004) Noncatalytic assembly of ribonuclease III with double-stranded RNA. Structure 12, 457-466.
-
(2004)
Structure
, vol.12
, pp. 457-466
-
-
Blaszczyk, J.1
Gan, J.2
Tropea, J.E.3
Court, D.L.4
Waugh, D.S.5
Ji, X.6
-
84
-
-
3042704491
-
Structural basis for recognition of the AGNN tetraloop RNA fold by the double-stranded RNA-binding domain of Rnt1p RNase III
-
Wu H, Henras A, Chanfreau G, &, Feigon J, (2004) Structural basis for recognition of the AGNN tetraloop RNA fold by the double-stranded RNA-binding domain of Rnt1p RNase III. Proc Natl Acad Sci USA 101, 8307-8312.
-
(2004)
Proc Natl Acad Sci USA
, vol.101
, pp. 8307-8312
-
-
Wu, H.1
Henras, A.2
Chanfreau, G.3
Feigon, J.4
-
85
-
-
79960173334
-
Structure of a yeast RNase III dsRBD complex with a noncanonical RNA substrate provides new insights into binding specificity of dsRBDs
-
Wang Z, Hartman E, Roy K, Chanfreau G, &, Feigon J, (2011) Structure of a yeast RNase III dsRBD complex with a noncanonical RNA substrate provides new insights into binding specificity of dsRBDs. Structure 19, 999-1010.
-
(2011)
Structure
, vol.19
, pp. 999-1010
-
-
Wang, Z.1
Hartman, E.2
Roy, K.3
Chanfreau, G.4
Feigon, J.5
-
86
-
-
77957822421
-
The solution structure of the ADAR2 dsRBM-RNA complex reveals a sequence-specific readout of the minor groove
-
Stefl R, Oberstrass FC, Hood JL, Jourdan M, Zimmermann M, Skrisovska L, Maris C, Peng L, Hofr C, Emeson RB, et al,. (2010) The solution structure of the ADAR2 dsRBM-RNA complex reveals a sequence-specific readout of the minor groove. Cell 143, 225-237.
-
(2010)
Cell
, vol.143
, pp. 225-237
-
-
Stefl, R.1
Oberstrass, F.C.2
Hood, J.L.3
Jourdan, M.4
Zimmermann, M.5
Skrisovska, L.6
Maris, C.7
Peng, L.8
Hofr, C.9
Emeson, R.B.10
-
87
-
-
0342723737
-
RNA recognition by a Staufen double-stranded RNA-binding domain
-
Ramos A, Grunert S, Adams J, Micklem DR, Proctor MR, Freund S, Bycroft M, St Johnston D, &, Varani G, (2000) RNA recognition by a Staufen double-stranded RNA-binding domain. EMBO J 19, 997-1009.
-
(2000)
EMBO J
, vol.19
, pp. 997-1009
-
-
Ramos, A.1
Grunert, S.2
Adams, J.3
Micklem, D.R.4
Proctor, M.R.5
Freund, S.6
Bycroft, M.7
St Johnston, D.8
Varani, G.9
-
88
-
-
3342907152
-
A new α-helical extension promotes RNA binding by the dsRBD of Rnt1p RNase III
-
Leulliot N, Quevillon-Cheruel S, Graille M, Van Tilbeurgh H, Leeper TC, Godin KS, Edwards TE, Sigurdsson ST, Rozenkrants N, Nagel RJ, et al,. (2004) A new α-helical extension promotes RNA binding by the dsRBD of Rnt1p RNase III. EMBO J 23, 2468-2477.
-
(2004)
EMBO J
, vol.23
, pp. 2468-2477
-
-
Leulliot, N.1
Quevillon-Cheruel, S.2
Graille, M.3
Van Tilbeurgh, H.4
Leeper, T.C.5
Godin, K.S.6
Edwards, T.E.7
Sigurdsson, S.T.8
Rozenkrants, N.9
Nagel, R.J.10
-
89
-
-
31044448524
-
Structural insight into the mechanism of double-stranded RNA processing by ribonuclease III
-
Gan J, Tropea JE, Austin BP, Court DL, Waugh DS, &, Ji X, (2006) Structural insight into the mechanism of double-stranded RNA processing by ribonuclease III. Cell 124, 355-366.
-
(2006)
Cell
, vol.124
, pp. 355-366
-
-
Gan, J.1
Tropea, J.E.2
Austin, B.P.3
Court, D.L.4
Waugh, D.S.5
Ji, X.6
-
90
-
-
84886789513
-
Double stranded RNA and end-recognition domains
-
(Roberts GCK, ed), 503-510. Springer, Berlin
-
Barnwal RP, &, Varani G, (2013) Double stranded RNA and end-recognition domains. In Encyclopedia of Biophysics (Roberts GCK, ed), pp. 503-510. Springer, Berlin.
-
(2013)
Encyclopedia of Biophysics
-
-
Barnwal, R.P.1
Varani, G.2
-
91
-
-
84861318033
-
The molecular architecture of human Dicer
-
Lau PW, Guiley KZ, De N, Potter CS, Carragher B, &, MacRac IJ, (2012) The molecular architecture of human Dicer. Nat Struct Mol Biol 19, 436-440.
-
(2012)
Nat Struct Mol Biol
, vol.19
, pp. 436-440
-
-
Lau, P.W.1
Guiley, K.Z.2
De, N.3
Potter, C.S.4
Carragher, B.5
Macrac, I.J.6
-
92
-
-
2442679207
-
Structural basis for overhang-specific small interfering RNA recognition by the PAZ domain
-
Ma JB, Ye K, &, Patel DJ, (2004) Structural basis for overhang-specific small interfering RNA recognition by the PAZ domain. Nature 429, 318-322.
-
(2004)
Nature
, vol.429
, pp. 318-322
-
-
Ma, J.B.1
Ye, K.2
Patel, D.J.3
-
93
-
-
38349100453
-
Synthetic antibodies for specific recognition and crystallization of structured RNA
-
Ye JD, Tereshko V, Frederiksen JK, Koide A, Fellouse FA, Sidhu SS, Koide S, Kossiakoff AA, &, Piccirilli JA, (2008) Synthetic antibodies for specific recognition and crystallization of structured RNA. Proc Natl Acad Sci USA 105, 82-87.
-
(2008)
Proc Natl Acad Sci USA
, vol.105
, pp. 82-87
-
-
Ye, J.D.1
Tereshko, V.2
Frederiksen, J.K.3
Koide, A.4
Fellouse, F.A.5
Sidhu, S.S.6
Koide, S.7
Kossiakoff, A.A.8
Piccirilli, J.A.9
-
94
-
-
0032497521
-
Crystal structure of a hepatitis delta virus ribozyme
-
Ferré-D'Amaré AR, Zhou K, &, Doudna JA, (1998) Crystal structure of a hepatitis delta virus ribozyme. Nature 395, 567-574.
-
(1998)
Nature
, vol.395
, pp. 567-574
-
-
Ferré-D'Amaré, A.R.1
Zhou, K.2
Doudna, J.A.3
-
95
-
-
0031788059
-
Crystal structures of a series of RNA aptamers complexed to the same protein target
-
Rowsell S, Stonehouse NJ, Convery MA, Adams CJ, Ellington AD, Hirao I, Peabody DS, Stockley PG, &, Phillips SEV, (1998) Crystal structures of a series of RNA aptamers complexed to the same protein target. Nat Struct Biol 5, 970-975.
-
(1998)
Nat Struct Biol
, vol.5
, pp. 970-975
-
-
Rowsell, S.1
Stonehouse, N.J.2
Convery, M.A.3
Adams, C.J.4
Ellington, A.D.5
Hirao, I.6
Peabody, D.S.7
Stockley, P.G.8
Phillips, S.E.V.9
-
96
-
-
78650986853
-
A portable RNA sequence whose recognition by a synthetic antibody facilitates structural determination
-
Koldobskaya Y, Duguid EM, Shechner DM, Suslov NB, Ye J, Sidhu SS, Bartel DP, Koide S, Kossiakoff AA, &, Piccirilli JA, (2011) A portable RNA sequence whose recognition by a synthetic antibody facilitates structural determination. Nat Struct Mol Biol 18, 100-106.
-
(2011)
Nat Struct Mol Biol
, vol.18
, pp. 100-106
-
-
Koldobskaya, Y.1
Duguid, E.M.2
Shechner, D.M.3
Suslov, N.B.4
Ye, J.5
Sidhu, S.S.6
Bartel, D.P.7
Koide, S.8
Kossiakoff, A.A.9
Piccirilli, J.A.10
-
97
-
-
0034823943
-
Statistical analysis of atomic contacts at RNA-protein interfaces
-
Treger M, &, Westhof E, (2001) Statistical analysis of atomic contacts at RNA-protein interfaces. J Mol Recognit 14, 199-214.
-
(2001)
J Mol Recognit
, vol.14
, pp. 199-214
-
-
Treger, M.1
Westhof, E.2
-
98
-
-
0035865891
-
Protein-RNA interactions: A structural analysis
-
Jones S, Daley DT, Luscombe NM, Berman HM, &, Thornton JM, (2001) Protein-RNA interactions: a structural analysis. Nucleic Acids Res 29, 943-954.
-
(2001)
Nucleic Acids Res
, vol.29
, pp. 943-954
-
-
Jones, S.1
Daley, D.T.2
Luscombe, N.M.3
Berman, H.M.4
Thornton, J.M.5
-
99
-
-
0035800599
-
Structure-based analysis of protein-RNA interactions using the program ENTANGLE
-
Allers J, &, Shamoo Y, (2001) Structure-based analysis of protein-RNA interactions using the program ENTANGLE. J Mol Biol 311, 75-86.
-
(2001)
J Mol Biol
, vol.311
, pp. 75-86
-
-
Allers, J.1
Shamoo, Y.2
-
100
-
-
4944226552
-
A new hydrogen-bonding potential for the design of protein-RNA interactions predicts specific contacts and discriminates decoys
-
Chen Y, Kortemme T, Robertson T, Baker D, &, Varani G, (2004) A new hydrogen-bonding potential for the design of protein-RNA interactions predicts specific contacts and discriminates decoys. Nucleic Acids Res 32, 5147-5162.
-
(2004)
Nucleic Acids Res
, vol.32
, pp. 5147-5162
-
-
Chen, Y.1
Kortemme, T.2
Robertson, T.3
Baker, D.4
Varani, G.5
-
101
-
-
50649095790
-
Macromolecular modeling with Rosetta
-
Das R, &, Baker D, (2008) Macromolecular modeling with Rosetta. Annu Rev Biochem 77, 363-382.
-
(2008)
Annu Rev Biochem
, vol.77
, pp. 363-382
-
-
Das, R.1
Baker, D.2
-
102
-
-
36749008025
-
A knowledge-based potential function predicts the specificity and relative binding energy of RNA-binding proteins
-
Zheng S, Robertson TA, &, Varani G, (2007) A knowledge-based potential function predicts the specificity and relative binding energy of RNA-binding proteins. FEBS J 274, 6378-6391.
-
(2007)
FEBS J
, vol.274
, pp. 6378-6391
-
-
Zheng, S.1
Robertson, T.A.2
Varani, G.3
-
103
-
-
84857407306
-
RNA modeling, naturally
-
Westhof E, (2012) RNA modeling, naturally. Proc Natl Acad Sci USA 109, 2691-2692.
-
(2012)
Proc Natl Acad Sci USA
, vol.109
, pp. 2691-2692
-
-
Westhof, E.1
-
104
-
-
77951643739
-
Atomic accuracy in predicting and designing noncanonical RNA structure
-
Das R, Karanicolas J, &, Baker D, (2010) Atomic accuracy in predicting and designing noncanonical RNA structure. Nat Methods 7, 291-294.
-
(2010)
Nat Methods
, vol.7
, pp. 291-294
-
-
Das, R.1
Karanicolas, J.2
Baker, D.3
-
105
-
-
80052080451
-
Recent advances in computational protein design
-
Pantazes RJ, Grisewood MJ, &, Maranas CD, (2011) Recent advances in computational protein design. Curr Opin Struct Biol 21, 467-472.
-
(2011)
Curr Opin Struct Biol
, vol.21
, pp. 467-472
-
-
Pantazes, R.J.1
Grisewood, M.J.2
Maranas, C.D.3
-
106
-
-
34548861782
-
Protein-protein docking with backbone flexibility
-
Wang C, Bradley P, &, Baker D, (2007) Protein-protein docking with backbone flexibility. J Mol Biol 373, 503-519.
-
(2007)
J Mol Biol
, vol.373
, pp. 503-519
-
-
Wang, C.1
Bradley, P.2
Baker, D.3
-
107
-
-
70349775833
-
Backbone flexibility in computational protein design
-
Mandell DJ, &, Kortemme T, (2009) Backbone flexibility in computational protein design. Curr Opin Biotechnol 20, 420-428.
-
(2009)
Curr Opin Biotechnol
, vol.20
, pp. 420-428
-
-
Mandell, D.J.1
Kortemme, T.2
-
108
-
-
77956532389
-
Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs
-
Ashworth J, Taylor GK, Havranek JJ, Quadri SA, Stoddard BL, &, Baker D, (2010) Computational reprogramming of homing endonuclease specificity at multiple adjacent base pairs. Nucleic Acids Res 38, 5601-5608.
-
(2010)
Nucleic Acids Res
, vol.38
, pp. 5601-5608
-
-
Ashworth, J.1
Taylor, G.K.2
Havranek, J.J.3
Quadri, S.A.4
Stoddard, B.L.5
Baker, D.6
-
109
-
-
33745278855
-
Computational redesign of endonuclease DNA binding and cleavage specificity
-
Ashworth J, Havranek JJ, Duarte CM, Sussman D, Monnat RJJ, Stoddard BL, &, Baker D, (2006) Computational redesign of endonuclease DNA binding and cleavage specificity. Nature 441, 656-659.
-
(2006)
Nature
, vol.441
, pp. 656-659
-
-
Ashworth, J.1
Havranek, J.J.2
Duarte, C.M.3
Sussman, D.4
Monnat, R.J.J.5
Stoddard, B.L.6
Baker, D.7
-
110
-
-
0029615981
-
Analysis of RNA-binding proteins by in vitro genetic selection: Identification of an amino acid residue important for locking U1A onto its RNA target
-
Laird-Offringa IA, &, Belasco JG, (1995) Analysis of RNA-binding proteins by in vitro genetic selection: identification of an amino acid residue important for locking U1A onto its RNA target. Proc Natl Acad Sci USA 92, 11859-11863.
-
(1995)
Proc Natl Acad Sci USA
, vol.92
, pp. 11859-11863
-
-
Laird-Offringa, I.A.1
Belasco, J.G.2
-
111
-
-
0035818507
-
T7 phage display: A novel genetic selection system for cloning RNA-binding proteins from cDNA libraries
-
Danner S, &, Belasco JG, (2001) T7 phage display: a novel genetic selection system for cloning RNA-binding proteins from cDNA libraries. Proc Natl Acad Sci USA 98, 12954-12959.
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 12954-12959
-
-
Danner, S.1
Belasco, J.G.2
-
112
-
-
0031820966
-
Specific RNA binding proteins constructed from zinc fingers
-
Friesen WJ, &, Darby MK, (1998) Specific RNA binding proteins constructed from zinc fingers. Nat Struct Biol 5, 543-546.
-
(1998)
Nat Struct Biol
, vol.5
, pp. 543-546
-
-
Friesen, W.J.1
Darby, M.K.2
-
113
-
-
0029776689
-
A three-hybrid system to detect RNA-protein interactions in vivo
-
Sengupta DJ, Zhang B, Kraemer B, Pochart P, Fields S, &, Wickens M, (1996) A three-hybrid system to detect RNA-protein interactions in vivo. Proc Natl Acad Sci USA 93, 8496-8501.
-
(1996)
Proc Natl Acad Sci USA
, vol.93
, pp. 8496-8501
-
-
Sengupta, D.J.1
Zhang, B.2
Kraemer, B.3
Pochart, P.4
Fields, S.5
Wickens, M.6
-
114
-
-
0033731918
-
Using the yeast three-hybrid system to detect and analyze RNA-protein interactions
-
Kraemer B, Zhang B, SenGupta D, Fields S, &, Wickens M, (2000) Using the yeast three-hybrid system to detect and analyze RNA-protein interactions. Methods Enzymol 328, 297-321.
-
(2000)
Methods Enzymol
, vol.328
, pp. 297-321
-
-
Kraemer, B.1
Zhang, B.2
Sengupta, D.3
Fields, S.4
Wickens, M.5
-
115
-
-
0036354598
-
Analyzing mRNA-protein complexes using a yeast three-hybrid system
-
Bernstein DS, Buter N, Stumpf C, &, Wickens M, (2002) Analyzing mRNA-protein complexes using a yeast three-hybrid system. Methods 26, 123-141.
-
(2002)
Methods
, vol.26
, pp. 123-141
-
-
Bernstein, D.S.1
Buter, N.2
Stumpf, C.3
Wickens, M.4
-
116
-
-
56049091246
-
Cell-free selection of RNA-binding proteins using in vitro compartmentalization
-
Chen Y, Mandic J, &, Varani G, (2008) Cell-free selection of RNA-binding proteins using in vitro compartmentalization. Nucleic Acids Res 36, e128.
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Chen, Y.1
Mandic, J.2
Varani, G.3
-
117
-
-
33747130345
-
Miniaturizing the laboratory in emulsion droplets
-
Griffiths AD, &, Tawfik DS, (2006) Miniaturizing the laboratory in emulsion droplets. Trends Biotechnol 24, 395-402.
-
(2006)
Trends Biotechnol
, vol.24
, pp. 395-402
-
-
Griffiths, A.D.1
Tawfik, D.S.2
-
118
-
-
0031854986
-
Man-made cell-like compartments for molecular evolution
-
Tawfik DS, &, Griffiths AD, (1998) Man-made cell-like compartments for molecular evolution. Nat Biotechnol 16, 652-656.
-
(1998)
Nat Biotechnol
, vol.16
, pp. 652-656
-
-
Tawfik, D.S.1
Griffiths, A.D.2
-
119
-
-
27644566231
-
Cell-free selection of zinc finger DNA-binding proteins using in vitro compartmentalization
-
Sepp A, &, Choo Y, (2005) Cell-free selection of zinc finger DNA-binding proteins using in vitro compartmentalization. J Mol Biol 354, 212-219.
-
(2005)
J Mol Biol
, vol.354
, pp. 212-219
-
-
Sepp, A.1
Choo, Y.2
-
120
-
-
0030817279
-
RNA-peptide fusions for the in vitro selection of peptides and proteins
-
Roberts RW, &, Szostak JW, (1997) RNA-peptide fusions for the in vitro selection of peptides and proteins. Proc Natl Acad Sci USA 94, 12297-12302.
-
(1997)
Proc Natl Acad Sci USA
, vol.94
, pp. 12297-12302
-
-
Roberts, R.W.1
Szostak, J.W.2
-
121
-
-
3142685154
-
In vitro protein evolution by ribosome display and mRNA display
-
Lipovsek D, &, Pluckthun A, (2004) In vitro protein evolution by ribosome display and mRNA display. J Immunol Methods 290, 51-67.
-
(2004)
J Immunol Methods
, vol.290
, pp. 51-67
-
-
Lipovsek, D.1
Pluckthun, A.2
|