-
1
-
-
77249170201
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
10
-
-
79956157571
-
Evolution and classification of the CRISPR-Cas systems
-
PMID:21552286
-
Makarova KS, Haft DH, Barrangou R, Brouns SJJ, Charpentier E, Horvath P, et al. Evolution and classification of the CRISPR-Cas systems. Nat Rev Microbiol 2011; 9:467-77; PMID:21552286; http://dx.doi.org/10.1038/nrmicro2577.
-
(2011)
Nat Rev Microbiol
, vol.9
, pp. 467-477
-
-
Makarova, K.S.1
Haft, D.H.2
Barrangou, R.3
Brouns, S.J.J.4
Charpentier, E.5
Horvath, P.6
-
11
-
-
78149261827
-
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
-
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
-
13
-
-
49649114086
-
Small CRISPR RNAs guide antiviral defense in prokaryotes
-
PMID:18703739
-
Brouns SJJ, Jore MM, Lundgren M, Westra ER, Slijkhuis RJH, Snijders APL, et al. Small CRISPR RNAs guide antiviral defense in prokaryotes. Science 2008; 321:960-4; PMID:18703739; http://dx.doi.org/10.1126/science.1159689.
-
(2008)
Science
, vol.321
, pp. 960-964
-
-
Brouns, S.J.J.1
Jore, M.M.2
Lundgren, M.3
Westra, E.R.4
Slijkhuis, R.J.H.5
Snijders, A.P.L.6
-
14
-
-
84856778250
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
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
-
-
76449098262
-
PHENIX: A comprehensive Python-based system for macromolecular structure solution
-
PMID:20124702
-
Adams PD, Afonine PV, Bunkóczi G, Chen VB, Davis IW, Echols N, et al. PHENIX: a comprehensive Python-based system for macromolecular structure solution. Acta Crystallogr D Biol Crystallogr 2010; 66:213-21; PMID:20124702; http://dx.doi.org/10.1107/S0907444909052925.
-
(2010)
Acta Crystallogr D Biol Crystallogr
, vol.66
, pp. 213-221
-
-
Adams, P.D.1
Afonine, P.V.2
Bunkóczi, G.3
Chen, V.B.4
Davis, I.W.5
Echols, N.6
-
33
-
-
0030817618
-
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
-
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
-
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
-
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
-
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
-
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
-
40
-
-
74549178560
-
MolProbity: Allatom structure validation for macromolecular crystallography
-
PMID:20057044
-
Chen VB, Arendall WB 3rd, Headd JJ, Keedy DA, Immormino RM, Kapral GJ, et al. MolProbity: allatom structure validation for macromolecular crystallography. Acta Crystallogr D Biol Crystallogr 2010; 66:12-21; PMID:20057044; http://dx.doi.org/10.1107/S0907444909042073.
-
(2010)
Acta Crystallogr D Biol Crystallogr
, vol.66
, pp. 12-21
-
-
Chen, V.B.1
Arendall III, W.B.2
Headd, J.J.3
Keedy, D.A.4
Immormino, R.M.5
Kapral, G.J.6
-
42
-
-
34248374277
-
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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