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Volumn 10, Issue 5, 2013, Pages 762-769

Structure of the archaeal Cascade subunit Csa5: Relating the small subunits of CRISPR effector complexes

Author keywords

Cascade; CRISPR; CRISPR interference; Csa5; Structure

Indexed keywords

BACTERIAL PROTEIN; PROTEIN CAS7; PROTEIN CSA5; PROTEIN CSE2; UNCLASSIFIED DRUG; ARCHAEAL PROTEIN; ARCHAEAL RNA; CRISPR ASSOCIATED PROTEIN;

EID: 84879011920     PISSN: 15476286     EISSN: 15558584     Source Type: Journal    
DOI: 10.4161/rna.23854     Document Type: Article
Times cited : (21)

References (42)
  • 1
    • 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
  • 2
    • 74249095519 scopus 로고    scopus 로고
    • CRISPR/Cas, the immune system of bacteria and archaea
    • PMID:20056882
    • Horvath P, Barrangou R. CRISPR/Cas, the immune system of bacteria and archaea. Science 2010; 327:167-70; PMID:20056882; http://dx.doi.org/10.1126/ science.1179555.
    • (2010) Science , vol.327 , pp. 167-170
    • Horvath, P.1    Barrangou, R.2
  • 3
    • 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
  • 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 FJM, 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.M.1    Díez-Villaseñor, C.2    Soria, E.3    Juez, G.4
  • 5
    • 16444385662 scopus 로고    scopus 로고
    • Intervening sequences of regularly spaced prokaryotic repeats derive from foreign genetic elements
    • PMID:15791728
    • Mojica FJM, 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.M.1    Díez-Villaseñor, C.2    García- Martínez, J.3    Soria, E.4
  • 6
    • 23844505202 scopus 로고    scopus 로고
    • Clustered regularly interspaced short palindrome repeats (CRISPRs) have spacers of extrachromosomal origin
    • PMID:16079334
    • Bolotin A, Quinquis B, Sorokin A, Ehrlich SD. Clustered regularly interspaced short palindrome repeats (CRISPRs) have spacers of extrachromosomal origin. Microbiology 2005; 151:2551-61; PMID:16079334; http://dx.doi.org/10. 1099/mic.0.28048-0.
    • (2005) Microbiology , vol.151 , pp. 2551-2561
    • Bolotin, A.1    Quinquis, B.2    Sorokin, A.3    Ehrlich, S.D.4
  • 7
    • 15844390228 scopus 로고    scopus 로고
    • CRISPR elements in Yersinia pestis acquire new repeats by preferential uptake of bacteriophage DNA, and provide additional tools for evolutionary studies
    • PMID:15758212
    • Pourcel C, Salvignol G, Vergnaud G. CRISPR elements in Yersinia pestis acquire new repeats by preferential uptake of bacteriophage DNA, and provide additional tools for evolutionary studies. Microbiology 2005; 151:653-63; PMID:15758212; http://dx.doi.org/10.1099/mic.0.27437-0.
    • (2005) Microbiology , vol.151 , pp. 653-663
    • Pourcel, C.1    Salvignol, G.2    Vergnaud, G.3
  • 8
    • 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
  • 9
    • 34248400310 scopus 로고    scopus 로고
    • A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes
    • PMID:16292354
    • Haft DH, Selengut J, Mongodin EF, Nelson KE. A guild of 45 CRISPR-associated (Cas) protein families and multiple CRISPR/Cas subtypes exist in prokaryotic genomes. PLoS Comput Biol 2005; 1:e60; PMID:16292354; http://dx.doi.org/10.1371/journal.pcbi.0010060.
    • (2005) PLoS Comput Biol , vol.1
    • Haft, D.H.1    Selengut, J.2    Mongodin, E.F.3    Nelson, K.E.4
  • 11
    • 78149261827 scopus 로고    scopus 로고
    • The CRISPR/Cas bacterial immune system cleaves bacteriophage and plasmid DNA
    • PMID:21048762
    • Garneau JE, Dupuis MÈ, Villion M, Romero DA, Barrangou R, Boyaval P, et al. The CRISPR/Cas bacterial immune system cleaves bacteriophage and plasmid DNA. Nature 2010; 468:67-71; PMID:21048762; http://dx.doi.org/10.1038/ nature09523.
    • (2010) Nature , vol.468 , pp. 67-71
    • Garneau, J.E.1    Dupuis, M.È.2    Villion, M.3    Romero, D.A.4    Barrangou, R.5    Boyaval, P.6
  • 12
    • 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
  • 14
    • 84856778250 scopus 로고    scopus 로고
    • Structure and mechanism of the CMR complex for CRISPR-mediated antiviral immunity
    • PMID:22227115
    • Zhang J, Rouillon C, Kerou M, Reeks J, Brugger K, Graham S, et al. Structure and mechanism of the CMR complex for CRISPR-mediated antiviral immunity. Mol Cell 2012; 45:303-13; PMID:22227115; http://dx.doi.org/10.1016/j. molcel.2011.12.013.
    • (2012) Mol Cell , vol.45 , pp. 303-313
    • Zhang, J.1    Rouillon, C.2    Kerou, M.3    Reeks, J.4    Brugger, K.5    Graham, S.6
  • 15
    • 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, et al. 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
  • 16
    • 80053169737 scopus 로고    scopus 로고
    • Structures of the RNA-guided surveillance complex from a bacterial immune system
    • PMID:21938068
    • Wiedenheft B, Lander GC, Zhou KH, Jore MM, Brouns SJJ, van der Oost J, et al. Structures of the RNA-guided surveillance complex from a bacterial immune system. Nature 2011; 477:486-9; PMID:21938068; http://dx.doi.org/10.1038/ nature10402.
    • (2011) Nature , vol.477 , pp. 486-489
    • Wiedenheft, B.1    Lander, G.C.2    Zhou, K.H.3    Jore, M.M.4    Brouns, S.J.J.5    Van Der Oost, J.6
  • 17
    • 84865704094 scopus 로고    scopus 로고
    • Cas5d protein processes pre-crRNA 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, et al. Cas5d protein processes pre-crRNA 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
  • 18
    • 79960029056 scopus 로고    scopus 로고
    • RNA-guided complex from a bacterial immune system enhances target recognition through seed sequence interactions
    • PMID:21536913
    • Wiedenheft B, van Duijn E, Bultema JB, Waghmare SP, Zhou KH, Barendregt A, et al. RNA-guided complex from a bacterial immune system enhances target recognition through seed sequence interactions. Proc Natl Acad Sci USA 2011; 108:10092-7; PMID:21536913; http://dx.doi.org/10.1073/pnas.1102716108.
    • (2011) Proc Natl Acad Sci USA , vol.108 , pp. 10092-10097
    • Wiedenheft, B.1    Van Duijn, E.2    Bultema, J.B.3    Waghmare, S.P.4    Zhou, K.H.5    Barendregt, A.6
  • 19
    • 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 HT, Naismith JH, 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.T.5    Naismith, J.H.6
  • 20
    • 84861357119 scopus 로고    scopus 로고
    • Characterization of the CRISPR/Cas subtype I-A system of the hyperthermophilic crenarchaeon Thermoproteus tenax
    • PMID:22408157
    • Plagens A, Tjaden B, Hagemann A, Randau L, Hensel R. Characterization of the CRISPR/Cas subtype I-A system of the hyperthermophilic crenarchaeon Thermoproteus tenax. J Bacteriol 2012; 194:2491-500; PMID:22408157; http://dx.doi.org/10.1128/JB.00206-12.
    • (2012) J Bacteriol , vol.194 , pp. 2491-2500
    • Plagens, A.1    Tjaden, B.2    Hagemann, A.3    Randau, L.4    Hensel, R.5
  • 21
    • 0034945083 scopus 로고    scopus 로고
    • The complete genome of the crenarchaeon Sulfolobus solfataricus P2
    • PMID:11427726
    • She Q, Singh RK, Confalonieri F, Zivanovic Y, Allard G, Awayez MJ, et al. The complete genome of the crenarchaeon Sulfolobus solfataricus P2. Proc Natl Acad Sci USA 2001; 98:7835-40; PMID:11427726; http://dx.doi.org/10.1073/pnas. 141222098.
    • (2001) Proc Natl Acad Sci USA , vol.98 , pp. 7835-7840
    • She, Q.1    Singh, R.K.2    Confalonieri, F.3    Zivanovic, Y.4    Allard, G.5    Awayez, M.J.6
  • 22
    • 34548232365 scopus 로고    scopus 로고
    • Inference of macromolecular assemblies from crystalline state
    • PMID:17681537
    • Krissinel E, Henrick K. Inference of macromolecular assemblies from crystalline state. J Mol Biol 2007; 372:774-97; PMID:17681537; http://dx.doi.org/10.1016/j.jmb.2007.05.022.
    • (2007) J Mol Biol , vol.372 , pp. 774-797
    • Krissinel, E.1    Henrick, K.2
  • 23
    • 13444307044 scopus 로고    scopus 로고
    • Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions
    • PMID:15572779
    • Krissinel E, Henrick K. Secondary-structure matching (SSM), a new tool for fast protein structure alignment in three dimensions. Acta Crystallogr D Biol Crystallogr 2004; 60:2256-68; PMID:15572779; http://dx.doi.org/10.1107/ S0907444904026460.
    • (2004) Acta Crystallogr D Biol Crystallogr , vol.60 , pp. 2256-2268
    • Krissinel, E.1    Henrick, K.2
  • 24
    • 77954288774 scopus 로고    scopus 로고
    • Dali server: Conservation mapping in 3D
    • PMID:20457744
    • Holm L, Rosenström P. Dali server: conservation mapping in 3D. Nucleic Acids Res 2010; 38(Web Server issue):W545-9; PMID:20457744; http://dx.doi.org/10.1093/nar/gkq366.
    • (2010) Nucleic Acids Res , vol.38 , Issue.WEB SERVER ISSUE
    • Holm, L.1    Rosenström, P.2
  • 25
    • 58149306337 scopus 로고    scopus 로고
    • X-ray crystal structure of a CRISPR-associated protein, Cse2, from Thermus thermaphilus HB8
    • Agari Y, Yokoyama S, Kuramitsu S, Shinkai A. X-ray crystal structure of a CRISPR-associated protein, Cse2, from Thermus thermaphilus HB8. Proteins-Structure Function and Bioinformatics 2008; 73:1063-7; http://dx.doi.org/10.1002/prot.22224.
    • (2008) Proteins-Structure Function and Bioinformatics , vol.73 , pp. 1063-1067
    • Agari, Y.1    Yokoyama, S.2    Kuramitsu, S.3    Shinkai, A.4
  • 26
    • 84868538489 scopus 로고    scopus 로고
    • Nucleic acid binding surface and dimer interface revealed by CRISPR-associated CasB protein structures
    • PMID:23079036
    • Nam KH, Huang Q, Ke A. Nucleic acid binding surface and dimer interface revealed by CRISPR-associated CasB protein structures. FEBS Lett 2012; 586:3956-61; PMID:23079036; http://dx.doi.org/10.1016/j.febslet.2012.09.041.
    • (2012) FEBS Lett , vol.586 , pp. 3956-3961
    • Nam, K.H.1    Huang, Q.2    Ke, A.3
  • 27
    • 84868125172 scopus 로고    scopus 로고
    • Cascade-mediated binding and bending of negatively supercoiled DNA
    • PMID:22954644
    • Westra ER, Nilges B, van Erp PBG, van der Oost J, Dame RT, Brouns SJJ. Cascade-mediated binding and bending of negatively supercoiled DNA. RNA Biol 2012; 9:1134-8; PMID:22954644; http://dx.doi.org/10.4161/rna.21410.
    • (2012) RNA Biol , vol.9 , pp. 1134-1138
    • Westra, E.R.1    Nilges, B.2    Van Erp, P.B.G.3    Van Der Oost, J.4    Dame, R.T.5    Brouns, S.J.J.6
  • 28
    • 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
  • 29
    • 77956754865 scopus 로고    scopus 로고
    • The Scottish Structural Proteomics Facility: Targets, methods and outputs
    • PMID:20419351
    • Oke M, Carter LG, Johnson KA, Liu H, McMahon SA, Yan X, et al. The Scottish Structural Proteomics Facility: targets, methods and outputs. J Struct Funct Genomics 2010; 11:167-80; PMID:20419351; http://dx.doi.org/10.1007/s10969- 010-9090-y.
    • (2010) J Struct Funct Genomics , vol.11 , pp. 167-180
    • Oke, M.1    Carter, L.G.2    Johnson, K.A.3    Liu, H.4    McMahon, S.A.5    Yan, X.6
  • 30
    • 58949085244 scopus 로고    scopus 로고
    • An efficient one-step site-directed deletion, insertion, single and multiple-site plasmid mutagenesis protocol
    • PMID:19055817
    • Liu HT, Naismith JH. An efficient one-step site-directed deletion, insertion, single and multiple-site plasmid mutagenesis protocol. BMC Biotechnol 2008; 8:91; PMID:19055817; http://dx.doi.org/10.1186/1472-6750-8-91.
    • (2008) BMC Biotechnol , vol.8 , pp. 91
    • Liu, H.T.1    Naismith, J.H.2
  • 31
    • 75649151032 scopus 로고    scopus 로고
    • xia2: An expert system for macromolecular crystallography data reduction
    • Winter G. xia2: an expert system for macromolecular crystallography data reduction. J Appl Cryst 2010; 43:186-90; http://dx.doi.org/10.1107/ S0021889809045701.
    • (2010) J Appl Cryst , vol.43 , pp. 186-190
    • Winter, G.1
  • 32
  • 33
    • 0030817618 scopus 로고    scopus 로고
    • Combining constraints for electron-density modification
    • DOI 10.1016/S0076-6879(97)77006-X
    • Zhang KYJ, Cowtan K, Main P. Combining constraints for electron-density modification. Macromolecular Crystallography. Pt B 1997; 277:53-64. (Pubitemid 27390916)
    • (1997) Methods in Enzymology , vol.277 , pp. 53-64
    • Zhang, K.Y.J.1    Cowtan, K.2    Main, P.3
  • 34
    • 33748337934 scopus 로고    scopus 로고
    • The Buccaneer software for automated model building. 1. Tracing protein chains
    • PMID:16929101
    • Cowtan K. The Buccaneer software for automated model building. 1. Tracing protein chains. Acta Crystallogr D Biol Crystallogr 2006; 62:1002-11; PMID:16929101; http://dx.doi.org/10.1107/S0907444906022116.
    • (2006) Acta Crystallogr D Biol Crystallogr , vol.62 , pp. 1002-1011
    • Cowtan, K.1
  • 35
    • 0028103275 scopus 로고
    • The CCP4 suite: Programs for protein crystallography
    • Collaborative Computational Project, Number 4. PMID:15299374
    • Bailey S; Collaborative Computational Project, Number 4. The CCP4 suite: programs for protein crystallography. Acta Crystallogr D Biol Crystallogr 1994; 50:760-3; PMID:15299374; http://dx.doi.org/10.1107/S0907444994003112.
    • (1994) Acta Crystallogr D Biol Crystallogr , vol.50 , pp. 760-763
    • Bailey, S.1
  • 37
    • 0030924992 scopus 로고    scopus 로고
    • Refinement of macromolecular structures by the maximum-likelihood method
    • PMID:15299926
    • Murshudov GN, Vagin AA, Dodson EJ. Refinement of macromolecular structures by the maximum-likelihood method. Acta Crystallogr D Biol Crystallogr 1997; 53:240-55; PMID:15299926; http://dx.doi.org/10.1107/S0907444996012255.
    • (1997) Acta Crystallogr D Biol Crystallogr , vol.53 , pp. 240-255
    • Murshudov, G.N.1    Vagin, A.A.2    Dodson, E.J.3
  • 38
    • 33646260450 scopus 로고    scopus 로고
    • Optimal description of a protein structure in terms of multiple groups undergoing TLS motion
    • PMID:16552146
    • Painter J, Merritt EA. Optimal description of a protein structure in terms of multiple groups undergoing TLS motion. Acta Crystallogr D Biol Crystallogr 2006; 62:439-50; PMID:16552146; http://dx.doi.org/10.1107/ S0907444906005270.
    • (2006) Acta Crystallogr D Biol Crystallogr , vol.62 , pp. 439-450
    • Painter, J.1    Merritt, E.A.2
  • 39
    • 33645158291 scopus 로고    scopus 로고
    • TLSMD web server for the generation of multi-group TLS models
    • Painter J, Merritt EA. TLSMD web server for the generation of multi-group TLS models. J Appl Cryst 2006; 39:109-11; http://dx.doi.org/10.1107/ S0021889805038987.
    • (2006) J Appl Cryst , vol.39 , pp. 109-111
    • Painter, J.1    Merritt, E.A.2
  • 41
    • 79953765276 scopus 로고    scopus 로고
    • Presenting your structures: The CCP4mg molecular-graphics software
    • PMID:21460457
    • McNicholas S, Potterton E, Wilson KS, Noble MEM. Presenting your structures: the CCP4mg molecular-graphics software. Acta Crystallogr D Biol Crystallogr 2011; 67:386-94; PMID:21460457; http://dx.doi.org/10.1107/ S0907444911007281.
    • (2011) Acta Crystallogr D Biol Crystallogr , vol.67 , pp. 386-394
    • McNicholas, S.1    Potterton, E.2    Wilson, K.S.3    Noble, M.E.M.4
  • 42
    • 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


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