메뉴 건너뛰기




Volumn 10, Issue 11, 2013, Pages 1670-1678

Structure and RNA-binding properties of the type III-A CRISPR-associated protein Csm3

Author keywords

Adaptive immunity; Cas7; Ferredoxin domain; RAMP; RRM domain

Indexed keywords

BINDING PROTEIN; CAS7 PROTEIN; CELLULAR APOPTOSIS SUSCEPTIBILITY PROTEIN; CRRNA; CSM3 PROTEIN; NUCLEAR PROTEIN; RNA; UNCLASSIFIED DRUG;

EID: 84890367638     PISSN: 15476286     EISSN: 15558584     Source Type: Journal    
DOI: 10.4161/rna.26500     Document Type: Article
Times cited : (31)

References (45)
  • 1
    • 77951104433 scopus 로고    scopus 로고
    • Bacteriophage resistance mechanisms
    • PMID:20348932
    • Labrie SJ, Samson JE, Moineau S. Bacteriophage resistance mechanisms. Nat Rev Microbiol 2010; 8:317-27; PMID:20348932; http://dx.doi.org/10.1038/ nrmicro2315
    • (2010) Nat Rev Microbiol , vol.8 , pp. 317-327
    • Labrie, S.J.1    Samson, J.E.2    Moineau, S.3
  • 2
    • 84877304698 scopus 로고    scopus 로고
    • Comparative genomics of defense systems in archaea and bacteria
    • PMID:23470997
    • Makarova KS, Wolf YI, Koonin EV. Comparative genomics of defense systems in archaea and bacteria. Nucleic Acids Res 2013; 41:4360-77; PMID:23470997; http://dx.doi.org/10.1093/nar/gkt157
    • (2013) Nucleic Acids Res , vol.41 , pp. 4360-4377
    • Makarova, K.S.1    Wolf, Y.I.2    Koonin, E.V.3
  • 3
    • 16444385662 scopus 로고    scopus 로고
    • Intervening sequences of regularly spaced prokaryotic repeats derive from foreign genetic elements
    • PMID:15791728
    • Mojica FJ, Díez-Villaseñor C, García-Martínez J, Soria E. Intervening sequences of regularly spaced prokaryotic repeats derive from foreign genetic elements. J Mol Evol 2005; 60:174-82; PMID:15791728; http://dx.doi.org/10.1007/s00239-004-0046-3
    • (2005) J Mol Evol , vol.60 , pp. 174-182
    • Mojica, F.J.1    Díez-Villaseñor, C.2    García-Martínez, J.3    Soria, E.4
  • 4
    • 0034034401 scopus 로고    scopus 로고
    • Biological significance of a family of regularly spaced repeats in the genomes of Archaea, Bacteria and mitochondria
    • PMID:10760181
    • Mojica FJ, Díez-Villaseñor C, Soria E, Juez G. Biological significance of a family of regularly spaced repeats in the genomes of Archaea, Bacteria and mitochondria. Mol Microbiol 2000; 36:244-6; PMID:10760181; http://dx.doi.org/10.1046/j.1365-2958.2000.01838.x
    • (2000) Mol Microbiol , vol.36 , pp. 244-246
    • Mojica, F.J.1    Díez-Villaseñor, C.2    Soria, E.3    Juez, G.4
  • 6
    • 77249170201 scopus 로고    scopus 로고
    • CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea
    • PMID:20125085
    • Marraffini LA, Sontheimer EJ. CRISPR interference: RNA-directed adaptive immunity in bacteria and archaea. Nat Rev Genet 2010; 11:181-90; PMID:20125085; http://dx.doi.org/10.1038/nrg2749
    • (2010) Nat Rev Genet , vol.11 , pp. 181-190
    • Marraffini, L.A.1    Sontheimer, E.J.2
  • 7
    • 84857097177 scopus 로고    scopus 로고
    • RNA-guided genetic silencing systems in bacteria and archaea
    • PMID:22337052
    • Wiedenheft B, Sternberg SH, Doudna JA. RNA-guided genetic silencing systems in bacteria and archaea. Nature 2012; 482:331-8; PMID:22337052; http://dx.doi.org/10.1038/nature10886
    • (2012) Nature , vol.482 , pp. 331-338
    • Wiedenheft, B.1    Sternberg, S.H.2    Doudna, J.A.3
  • 8
    • 58049191229 scopus 로고    scopus 로고
    • Cas6 is an endoribonuclease that generates guide RNAs for invader defense in prokaryotes
    • PMID:19141480
    • Carte J, Wang R, Li H, Terns RM, Terns MP. Cas6 is an endoribonuclease that generates guide RNAs for invader defense in prokaryotes. Genes Dev 2008; 22:3489-96; PMID:19141480; http://dx.doi.org/10.1101/gad.1742908
    • (2008) Genes Dev , vol.22 , pp. 3489-3496
    • Carte, J.1    Wang, R.2    Li, H.3    Terns, R.M.4    Terns, M.P.5
  • 9
    • 77956498326 scopus 로고    scopus 로고
    • Sequence- and structure-specific RNA processing by a CRISPR endonuclease
    • PMID:20829488
    • Haurwitz RE, Jinek M, Wiedenheft B, Zhou K, Doudna JA. Sequence- and structure-specific RNA processing by a CRISPR endonuclease. Science 2010; 329:1355-8; PMID:20829488; http://dx.doi.org/10.1126/science.1192272
    • (2010) Science , vol.329 , pp. 1355-1358
    • Haurwitz, R.E.1    Jinek, M.2    Wiedenheft, B.3    Zhou, K.4    Doudna, J.A.5
  • 10
    • 84868111481 scopus 로고    scopus 로고
    • Characterization of CRISPR RNA processing in Clostridium thermocellum and Methanococcus maripaludis
    • PMID:22879377
    • Richter H, Zoephel J, Schermuly J, Maticzka D, Backofen R, Randau L. Characterization of CRISPR RNA processing in Clostridium thermocellum and Methanococcus maripaludis. Nucleic Acids Res 2012; 40:9887-96; PMID:22879377; http://dx.doi.org/10.1093/nar/gks737
    • (2012) Nucleic Acids Res , vol.40 , pp. 9887-9896
    • Richter, H.1    Zoephel, J.2    Schermuly, J.3    Maticzka, D.4    Backofen, R.5    Randau, L.6
  • 11
    • 57849137502 scopus 로고    scopus 로고
    • CRISPR interference limits horizontal gene transfer in staphylococci by targeting DNA
    • PMID:19095942
    • Marraffini LA, Sontheimer EJ. CRISPR interference limits horizontal gene transfer in staphylococci by targeting DNA. Science 2008; 322:1843-5; PMID:19095942; http://dx.doi.org/10.1126/science.1165771
    • (2008) Science , vol.322 , pp. 1843-1845
    • Marraffini, L.A.1    Sontheimer, E.J.2
  • 12
    • 34547579396 scopus 로고    scopus 로고
    • CRISPRFinder: A web tool to identify clustered regularly interspaced short palindromic repeats
    • PMID:17537822
    • Grissa I, Vergnaud G, Pourcel C. CRISPRFinder: a web tool to identify clustered regularly interspaced short palindromic repeats. Nucleic Acids Res 2007; 35(Web Server issue):W52-7; PMID:17537822; http://dx.doi.org/10.1093/nar/ gkm360
    • (2007) Nucleic Acids Res , vol.35 , Issue.WEB SERVER ISSUE
    • Grissa, I.1    Vergnaud, G.2    Pourcel, C.3
  • 13
    • 0036267740 scopus 로고    scopus 로고
    • Identification of genes that are associated with DNA repeats in prokaryotes
    • PMID:11952905
    • Jansen R, Embden JD, Gaastra W, Schouls LM. Identification of genes that are associated with DNA repeats in prokaryotes. Mol Microbiol 2002; 43:1565-75; PMID:11952905; http://dx.doi.org/10.1046/j.1365-2958.2002.02839.x
    • (2002) Mol Microbiol , vol.43 , pp. 1565-1575
    • Jansen, R.1    Embden, J.D.2    Gaastra, W.3    Schouls, L.M.4
  • 14
    • 34248374277 scopus 로고    scopus 로고
    • A putative RNA-interference-based immune system in prokaryotes: Computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and hypothetical mechanisms of action
    • PMID:16545108
    • Makarova KS, Grishin NV, Shabalina SA, Wolf YI, Koonin EV. A putative RNA-interference-based immune system in prokaryotes: computational analysis of the predicted enzymatic machinery, functional analogies with eukaryotic RNAi, and hypothetical mechanisms of action. Biol Direct 2006; 1:7; PMID:16545108; http://dx.doi.org/10.1186/1745-6150-1-7
    • (2006) Biol Direct , vol.1 , pp. 7
    • Makarova, K.S.1    Grishin, N.V.2    Shabalina, S.A.3    Wolf, Y.I.4    Koonin, E.V.5
  • 16
    • 80755187812 scopus 로고    scopus 로고
    • CRISPR-Cas systems in bacteria and archaea: Versatile small RNAs for adaptive defense and regulation
    • PMID:22060043
    • Bhaya D, Davison M, Barrangou R. CRISPR-Cas systems in bacteria and archaea: versatile small RNAs for adaptive defense and regulation. Annu Rev Genet 2011; 45:273-97; PMID:22060043; http://dx.doi.org/10.1146/annurev-genet- 110410-132430
    • (2011) Annu Rev Genet , vol.45 , pp. 273-297
    • Bhaya, D.1    Davison, M.2    Barrangou, R.3
  • 17
    • 70449753811 scopus 로고    scopus 로고
    • RNA-guided RNA cleavage by a CRISPR RNA-Cas protein complex
    • PMID:19945378
    • Hale CR, Zhao P, Olson S, Duff MO, Graveley BR, Wells L, Terns RM, Terns MP. RNA-guided RNA cleavage by a CRISPR RNA-Cas protein complex. Cell 2009; 139:945-56; PMID:19945378; http://dx.doi.org/10.1016/j.cell.2009.07.040
    • (2009) Cell , vol.139 , pp. 945-956
    • Hale, C.R.1    Zhao, P.2    Olson, S.3    Duff, M.O.4    Graveley, B.R.5    Wells, L.6    Terns, R.M.7    Terns, M.P.8
  • 19
    • 84865704094 scopus 로고    scopus 로고
    • Cas5d protein processes precrRNA and assembles into a cascade-like interference complex in subtype I-C/Dvulg CRISPR-Cas system
    • PMID:22841292
    • Nam KH, Haitjema C, Liu X, Ding F, Wang H, DeLisa MP, Ke A. Cas5d protein processes precrRNA and assembles into a cascade-like interference complex in subtype I-C/Dvulg CRISPR-Cas system. Structure 2012; 20:1574-84; PMID:22841292; http://dx.doi.org/10.1016/j.str.2012.06.016
    • (2012) Structure , vol.20 , pp. 1574-1584
    • Nam, K.H.1    Haitjema, C.2    Liu, X.3    Ding, F.4    Wang, H.5    DeLisa, M.P.6    Ke, A.7
  • 20
    • 80052400382 scopus 로고    scopus 로고
    • Structural and biochemical analysis of nuclease domain of clustered regularly interspaced short palindromic repeat (CRISPR)-associated protein 3 (Cas3)
    • PMID:21775431
    • Mulepati S, Bailey S. Structural and biochemical analysis of nuclease domain of clustered regularly interspaced short palindromic repeat (CRISPR)-associated protein 3 (Cas3). J Biol Chem 2011; 286:31896-903; PMID:21775431; http://dx.doi.org/10.1074/jbc.M111.270017
    • (2011) J Biol Chem , vol.286 , pp. 31896-31903
    • Mulepati, S.1    Bailey, S.2
  • 21
    • 79551694059 scopus 로고    scopus 로고
    • Interaction of the Cas6 riboendonuclease with CRISPR RNAs: Recognition and cleavage
    • PMID:21300293
    • Wang R, Preamplume G, Terns MP, Terns RM, Li H. Interaction of the Cas6 riboendonuclease with CRISPR RNAs: recognition and cleavage. Structure 2011; 19:257-64; PMID:21300293; http://dx.doi.org/10.1016/j.str.2010.11.014
    • (2011) Structure , vol.19 , pp. 257-264
    • Wang, R.1    Preamplume, G.2    Terns, M.P.3    Terns, R.M.4    Li, H.5
  • 22
    • 84879584456 scopus 로고    scopus 로고
    • CRISPR interference: A structural perspective
    • PMID:23805973
    • Reeks J, Naismith JH, White MF. CRISPR interference: a structural perspective. Biochem J 2013; 453:155-66; PMID:23805973; http://dx.doi.org/10. 1042/BJ20130316
    • (2013) Biochem J , vol.453 , pp. 155-166
    • Reeks, J.1    Naismith, J.H.2    White, M.F.3
  • 24
    • 66349134987 scopus 로고    scopus 로고
    • Structural basis for DNase activity of a conserved protein implicated in CRISPR-mediated genome defense
    • PMID:19523907
    • Wiedenheft B, Zhou K, Jinek M, Coyle SM, Ma W, Doudna JA. Structural basis for DNase activity of a conserved protein implicated in CRISPR-mediated genome defense. Structure 2009; 17:904-12; PMID:19523907; http://dx.doi.org/10. 1016/j.str.2009.03.019
    • (2009) Structure , vol.17 , pp. 904-912
    • Wiedenheft, B.1    Zhou, K.2    Jinek, M.3    Coyle, S.M.4    Ma, W.5    Doudna, J.A.6
  • 25
    • 84862822911 scopus 로고    scopus 로고
    • Crystal structure of Cmr2 suggests a nucleotide cyclase-related enzyme in type III CRISPR-Cas systems
    • PMID:22449983
    • Zhu X, Ye K. Crystal structure of Cmr2 suggests a nucleotide cyclase-related enzyme in type III CRISPR-Cas systems. FEBS Lett 2012; 586:939-45; PMID:22449983; http://dx.doi.org/10.1016/j.febslet.2012.02.036
    • (2012) FEBS Lett , vol.586 , pp. 939-945
    • Zhu, X.1    Ye, K.2
  • 26
    • 84885178919 scopus 로고    scopus 로고
    • Crystal Structure of the Cmr2-Cmr3 Subcomplex in the CRISPR-Cas RNA Silencing Effector Complex
    • (Forthcoming); PMID:23583914
    • Osawa T, Inanaga H, Numata T. Crystal Structure of the Cmr2-Cmr3 Subcomplex in the CRISPR-Cas RNA Silencing Effector Complex. J Mol Biol 2013; (Forthcoming); PMID:23583914; http://dx.doi.org/10.1016/j.jmb.2013.03.042
    • (2013) J Mol Biol
    • Osawa, T.1    Inanaga, H.2    Numata, T.3
  • 27
    • 84863230373 scopus 로고    scopus 로고
    • Structure of the Cmr2 subunit of the CRISPR-Cas RNA silencing complex
    • PMID:22405013
    • Cocozaki AI, Ramia NF, Shao Y, Hale CR, Terns RM, Terns MP, Li H. Structure of the Cmr2 subunit of the CRISPR-Cas RNA silencing complex. Structure 2012; 20:545-53; PMID:22405013; http://dx.doi.org/10.1016/j.str.2012.01.018
    • (2012) Structure , vol.20 , pp. 545-553
    • Cocozaki, A.I.1    Ramia, N.F.2    Shao, Y.3    Hale, C.R.4    Terns, R.M.5    Terns, M.P.6    Li, H.7
  • 29
    • 79958754524 scopus 로고    scopus 로고
    • Structural and functional characterization of an archaeal clustered regularly interspaced short palindromic repeat (CRISPR)-associated complex for antiviral defense (CASCADE)
    • PMID:21507944
    • Lintner NG, Kerou M, Brumfield SK, Graham S, Liu H, Naismith JH, Sdano M, Peng N, She Q, Copié V, et al. Structural and functional characterization of an archaeal clustered regularly interspaced short palindromic repeat (CRISPR)-associated complex for antiviral defense (CASCADE). J Biol Chem 2011; 286:21643-56; PMID:21507944; http://dx.doi.org/10.1074/jbc. M111.238485
    • (2011) J Biol Chem , vol.286 , pp. 21643-21656
    • Lintner, N.G.1    Kerou, M.2    Brumfield, S.K.3    Graham, S.4    Liu, H.5    Naismith, J.H.6    Sdano, M.7    Peng, N.8    She, Q.9    Copié, V.10
  • 30
    • 84869232519 scopus 로고    scopus 로고
    • Native tandem and ion mobility mass spectrometry highlight structural and modular similarities in clustered-regularly-interspaced shot-palindromic- repeats (CRISPR)-associated protein complexes from Escherichia coli and Pseudomonas aeruginosa
    • PMID:22918228
    • van Duijn E, Barbu IM, Barendregt A, Jore MM, Wiedenheft B, Lundgren M, Westra ER, Brouns SJ, Doudna JA, van der Oost J, et al. Native tandem and ion mobility mass spectrometry highlight structural and modular similarities in clustered-regularly-interspaced shot-palindromic-repeats (CRISPR)-associated protein complexes from Escherichia coli and Pseudomonas aeruginosa. Mol Cell Proteomics 2012; 11:1430-41; PMID:22918228; http://dx.doi.org/10.1074/mcp.M112. 020263
    • (2012) Mol Cell Proteomics , vol.11 , pp. 1430-1441
    • Van Duijn, E.1    Barbu, I.M.2    Barendregt, A.3    Jore, M.M.4    Wiedenheft, B.5    Lundgren, M.6    Westra, E.R.7    Brouns, S.J.8    Doudna, J.A.9    Van Der Oost, J.10
  • 31
    • 84865704094 scopus 로고    scopus 로고
    • Cas5d protein processes precrRNA and assembles into a cascade-like interference complex in subtype I-C/Dvulg CRISPR-Cas system
    • PMID:22841292
    • Nam KH, Haitjema C, Liu X, Ding F, Wang H, DeLisa MP, Ke A. Cas5d protein processes precrRNA and assembles into a cascade-like interference complex in subtype I-C/Dvulg CRISPR-Cas system. Structure 2012; 20:1574-84; PMID:22841292; http://dx.doi.org/10.1016/j.str.2012.06.016
    • (2012) Structure , vol.20 , pp. 1574-1584
    • Nam, K.H.1    Haitjema, C.2    Liu, X.3    Ding, F.4    Wang, H.5    DeLisa, M.P.6    Ke, A.7
  • 33
    • 84878168552 scopus 로고    scopus 로고
    • CRISPR-Cas: Evolution of an RNA-based adaptive immunity system in prokaryotes
    • PMID:23439366
    • Koonin EV, Makarova KS. CRISPR-Cas: evolution of an RNA-based adaptive immunity system in prokaryotes. RNA Biol 2013; 10:679-86; PMID:23439366; http://dx.doi.org/10.4161/rna.24022
    • (2013) RNA Biol , vol.10 , pp. 679-686
    • Koonin, E.V.1    Makarova, K.S.2
  • 34
    • 84884765703 scopus 로고    scopus 로고
    • A ruler protein in a complex for antiviral defense determines the length of small interfering CRISPR RNAs
    • Forthcoming
    • Hatoum-Aslan A, Samai P, Maniv I, Jiang W, Marraffini LA. A ruler protein in a complex for antiviral defense determines the length of small interfering CRISPR RNAs. J Biol Chem 2013; (Forthcoming)
    • (2013) J Biol Chem
    • Hatoum-Aslan, A.1    Samai, P.2    Maniv, I.3    Jiang, W.4    Marraffini, L.A.5
  • 35
    • 18544377013 scopus 로고    scopus 로고
    • The RNA recognition motif, a plastic RNA-binding platform to regulate post-transcriptional gene expression
    • PMID:15853797
    • Maris C, Dominguez C, Allain FH. The RNA recognition motif, a plastic RNA-binding platform to regulate post-transcriptional gene expression. FEBS J 2005; 272:2118-31; PMID:15853797; http://dx.doi.org/10.1111/j.1742-4658.2005. 04653.x
    • (2005) FEBS J , vol.272 , pp. 2118-2131
    • Maris, C.1    Dominguez, C.2    Allain, F.H.3
  • 36
    • 0037766047 scopus 로고    scopus 로고
    • A novel mode of RBD-protein recognition in the Y14-Mago complex
    • PMID:12730685
    • Fribourg S, Gatfield D, Izaurralde E, Conti E. A novel mode of RBD-protein recognition in the Y14-Mago complex. Nat Struct Biol 2003; 10:433-9; PMID:12730685; http://dx.doi.org/10.1038/nsb926
    • (2003) Nat Struct Biol , vol.10 , pp. 433-439
    • Fribourg, S.1    Gatfield, D.2    Izaurralde, E.3    Conti, E.4
  • 37
    • 1842473091 scopus 로고    scopus 로고
    • The structural basis for the interaction between nonsense-mediated mRNA decay factors UPF2 and UPF3
    • PMID:15004547
    • Kadlec J, Izaurralde E, Cusack S. The structural basis for the interaction between nonsense-mediated mRNA decay factors UPF2 and UPF3. Nat Struct Mol Biol 2004; 11:330-7; PMID:15004547; http://dx.doi.org/10.1038/nsmb741
    • (2004) Nat Struct Mol Biol , vol.11 , pp. 330-337
    • Kadlec, J.1    Izaurralde, E.2    Cusack, S.3
  • 38
    • 13244281317 scopus 로고    scopus 로고
    • Coot: Model-building tools for molecular graphics
    • PMID:15572765
    • Emsley P, Cowtan K. Coot: model-building tools for molecular graphics. Acta Crystallogr D Biol Crystallogr 2004; 60:2126-32; PMID:15572765; http://dx.doi.org/10.1107/S0907444904019158
    • (2004) Acta Crystallogr D Biol Crystallogr , vol.60 , pp. 2126-2132
    • Emsley, P.1    Cowtan, K.2
  • 39
    • 79960554003 scopus 로고    scopus 로고
    • Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems
    • PMID:21756346
    • Makarova KS, Aravind L, Wolf YI, Koonin EV. Unification of Cas protein families and a simple scenario for the origin and evolution of CRISPR-Cas systems. Biol Direct 2011; 6:38; PMID:21756346; http://dx.doi.org/10.1186/1745- 6150-6-38
    • (2011) Biol Direct , vol.6 , pp. 38
    • Makarova, K.S.1    Aravind, L.2    Wolf, Y.I.3    Koonin, E.V.4
  • 40
    • 84880213700 scopus 로고    scopus 로고
    • RNA-Seq analyses reveal the order of tRNA processing events and the maturation of C/D box and CRISPR RNAs in the hyperthermophile Methanopyrus kandleri
    • PMID:23620296
    • Su AA, Tripp V, Randau L. RNA-Seq analyses reveal the order of tRNA processing events and the maturation of C/D box and CRISPR RNAs in the hyperthermophile Methanopyrus kandleri. Nucleic Acids Res 2013; 41:6250-8; PMID:23620296; http://dx.doi.org/10.1093/nar/gkt317
    • (2013) Nucleic Acids Res , vol.41 , pp. 6250-6258
    • Su, A.A.1    Tripp, V.2    Randau, L.3
  • 41
    • 84855475577 scopus 로고    scopus 로고
    • Mature clustered, regularly interspaced, short palindromic repeats RNA (crRNA) length is measured by a ruler mechanism anchored at the precursor processing site
    • PMID:22160698
    • Hatoum-Aslan A, Maniv I, Marraffini LA. Mature clustered, regularly interspaced, short palindromic repeats RNA (crRNA) length is measured by a ruler mechanism anchored at the precursor processing site. Proc Natl Acad Sci U S A 2011; 108:21218-22; PMID:22160698; http://dx.doi.org/10.1073/pnas.1112832108
    • (2011) Proc Natl Acad Sci U S A , vol.108 , pp. 21218-21222
    • Hatoum-Aslan, A.1    Maniv, I.2    Marraffini, L.A.3
  • 43
    • 76449099287 scopus 로고    scopus 로고
    • XDS
    • PMID:20124692
    • Kabsch W. XDS. Acta Crystallogr D Biol Crystallogr 2010; 66:125-32; PMID:20124692; http://dx.doi.org/10.1107/S0907444909047337
    • (2010) Acta Crystallogr D Biol Crystallogr , vol.66 , pp. 125-132
    • Kabsch, W.1


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.