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For: Marcaida MJ, Prieto J, Redondo P, Nadra AD, Alibés A, Serrano L, Grizot S, Duchateau P, Pâques F, Blanco FJ, Montoya G. Crystal structure of I-DmoI in complex with its target DNA provides new insights into meganuclease engineering. Proc Natl Acad Sci U S A 2008;105:16888-93. [PMID: 18974222 DOI: 10.1073/pnas.0804795105] [Citation(s) in RCA: 34] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]  Open
Number Cited by Other Article(s)
1
Rasheed A, Barqawi AA, Mahmood A, Nawaz M, Shah AN, Bay DH, Alahdal MA, Hassan MU, Qari SH. CRISPR/Cas9 is a powerful tool for precise genome editing of legume crops: a review. Mol Biol Rep 2022;49:5595-5609. [PMID: 35585381 DOI: 10.1007/s11033-022-07529-4] [Citation(s) in RCA: 9] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/18/2022] [Revised: 04/15/2022] [Accepted: 04/26/2022] [Indexed: 10/18/2022]
2
Suzuki S, Ohta KI, Nakajima Y, Shigeto H, Abe H, Kawai A, Miura R, Kazuki Y, Oshimura M, Miki T. Meganuclease-Based Artificial Transcription Factors. ACS Synth Biol 2020;9:2679-2691. [PMID: 32907319 DOI: 10.1021/acssynbio.0c00083] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
3
Segreto GE, Alba J, Salvio R, D’Abramo M. DNA cleavage by endonuclease I-DmoI: a QM/MM study and comparison with experimental data provide indications on the environmental effects. Theor Chem Acc 2020. [DOI: 10.1007/s00214-020-2585-0] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
4
Trimidal SG, Benjamin R, Bae JE, Han MV, Kong E, Singer A, Williams TS, Yang B, Schiller MR. Can Designer Indels Be Tailored by Gene Editing?: Can Indels Be Customized? Bioessays 2019;41:e1900126. [PMID: 31693213 PMCID: PMC7202862 DOI: 10.1002/bies.201900126] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2019] [Revised: 10/01/2019] [Indexed: 12/23/2022]
5
Alba J, Marcaida MJ, Prieto J, Montoya G, Molina R, D'Abramo M. Structure and dynamics of mesophilic variants from the homing endonuclease I-DmoI. J Comput Aided Mol Des 2017;31:1063-1072. [PMID: 29177929 DOI: 10.1007/s10822-017-0087-5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2017] [Accepted: 11/18/2017] [Indexed: 11/24/2022]
6
Grottesi A, Cecconi S, Molina R, D'abramo M. Effect of DNA on the conformational dynamics of the endonucleases I-DmoI as provided by molecular dynamics simulations. Biopolymers 2016;105:898-904. [DOI: 10.1002/bip.22933] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2016] [Revised: 07/28/2016] [Accepted: 08/08/2016] [Indexed: 11/05/2022]
7
Prieto J, Redondo P, Merino N, Villate M, Montoya G, Blanco FJ, Molina R. Structure of the I-SceI nuclease complexed with its dsDNA target and three catalytic metal ions. Acta Crystallogr F Struct Biol Commun 2016;72:473-9. [PMID: 27303901 PMCID: PMC4909248 DOI: 10.1107/s2053230x16007512] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2016] [Accepted: 05/04/2016] [Indexed: 01/22/2023]  Open
8
Molina R, Besker N, Marcaida MJ, Montoya G, Prieto J, D’Abramo M. Key Players in I-DmoI Endonuclease Catalysis Revealed from Structure and Dynamics. ACS Chem Biol 2016;11:1401-7. [PMID: 26909878 DOI: 10.1021/acschembio.5b00730] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
9
Shen BW, Lambert A, Walker BC, Stoddard BL, Kaiser BK. The Structural Basis of Asymmetry in DNA Binding and Cleavage as Exhibited by the I-SmaMI LAGLIDADG Meganuclease. J Mol Biol 2016;428:206-220. [PMID: 26705195 PMCID: PMC4749321 DOI: 10.1016/j.jmb.2015.12.005] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/09/2015] [Revised: 11/13/2015] [Accepted: 12/07/2015] [Indexed: 01/07/2023]
10
Teotia S, Singh D, Tang X, Tang G. Essential RNA-Based Technologies and Their Applications in Plant Functional Genomics. Trends Biotechnol 2016;34:106-123. [PMID: 26774589 DOI: 10.1016/j.tibtech.2015.12.001] [Citation(s) in RCA: 38] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2015] [Revised: 11/19/2015] [Accepted: 12/07/2015] [Indexed: 12/20/2022]
11
Molina R, Redondo P, López-Méndez B, Villate M, Merino N, Blanco FJ, Valton J, Grizot S, Duchateau P, Prieto J, Montoya G. Crystal Structure of the Homing Endonuclease I-CvuI Provides a New Template for Genome Modification. J Biol Chem 2015;290:28727-36. [PMID: 26363068 DOI: 10.1074/jbc.m115.678342] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2015] [Indexed: 01/24/2023]  Open
12
Molina R, Marcaida MJ, Redondo P, Marenchino M, Duchateau P, D'Abramo M, Montoya G, Prieto J. Engineering a Nickase on the Homing Endonuclease I-DmoI Scaffold. J Biol Chem 2015;290:18534-44. [PMID: 26045557 DOI: 10.1074/jbc.m115.658666] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2015] [Indexed: 12/27/2022]  Open
13
Yang Z, Steentoft C, Hauge C, Hansen L, Thomsen AL, Niola F, Vester-Christensen MB, Frödin M, Clausen H, Wandall HH, Bennett EP. Fast and sensitive detection of indels induced by precise gene targeting. Nucleic Acids Res 2015;43:e59. [PMID: 25753669 PMCID: PMC4482057 DOI: 10.1093/nar/gkv126] [Citation(s) in RCA: 130] [Impact Index Per Article: 13.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2014] [Revised: 02/02/2015] [Accepted: 02/07/2015] [Indexed: 12/16/2022]  Open
14
Molina R, Stella S, Redondo P, Gomez H, Marcaida MJ, Orozco M, Prieto J, Montoya G. Visualizing phosphodiester-bond hydrolysis by an endonuclease. Nat Struct Mol Biol 2014;22:65-72. [PMID: 25486305 DOI: 10.1038/nsmb.2932] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/19/2014] [Accepted: 11/12/2014] [Indexed: 01/12/2023]
15
Thyme SB, Song Y, Brunette TJ, Szeto MD, Kusak L, Bradley P, Baker D. Massively parallel determination and modeling of endonuclease substrate specificity. Nucleic Acids Res 2014;42:13839-52. [PMID: 25389263 PMCID: PMC4267613 DOI: 10.1093/nar/gku1096] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/26/2022]  Open
16
Villate M, Merino N, Blanco FJ. Production of meganucleases by cell-free protein synthesis for functional and structural studies. Protein Expr Purif 2012;85:246-9. [PMID: 22917812 DOI: 10.1016/j.pep.2012.07.013] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2012] [Revised: 07/16/2012] [Accepted: 07/24/2012] [Indexed: 11/30/2022]
17
Molina R, Redondo P, Stella S, Marenchino M, D’Abramo M, Gervasio FL, Charles Epinat J, Valton J, Grizot S, Duchateau P, Prieto J, Montoya G. Non-specific protein-DNA interactions control I-CreI target binding and cleavage. Nucleic Acids Res 2012;40:6936-45. [PMID: 22495931 PMCID: PMC3413129 DOI: 10.1093/nar/gks320] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]  Open
18
Prieto J, Molina R, Montoya G. Molecular scissors forin situcellular repair. Crit Rev Biochem Mol Biol 2012;47:207-21. [PMID: 22283548 DOI: 10.3109/10409238.2011.652358] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/20/2023]
19
Towards artificial metallonucleases for gene therapy: recent advances and new perspectives. Future Med Chem 2011;3:1935-66. [DOI: 10.4155/fmc.11.139] [Citation(s) in RCA: 18] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]  Open
20
Kettlun C, Galvan DL, George AL, Kaja A, Wilson MH. Manipulating piggyBac transposon chromosomal integration site selection in human cells. Mol Ther 2011;19:1636-44. [PMID: 21730970 PMCID: PMC3182353 DOI: 10.1038/mt.2011.129] [Citation(s) in RCA: 57] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2010] [Accepted: 05/31/2011] [Indexed: 02/07/2023]  Open
21
Grizot S, Duclert A, Thomas S, Duchateau P, Pâques F. Context dependence between subdomains in the DNA binding interface of the I-CreI homing endonuclease. Nucleic Acids Res 2011;39:6124-36. [PMID: 21482539 PMCID: PMC3152339 DOI: 10.1093/nar/gkr186] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]  Open
22
Blanco FJ, Montoya G. Transient DNA / RNA-protein interactions. FEBS J 2011;278:1643-50. [DOI: 10.1111/j.1742-4658.2011.08095.x] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
23
Silva G, Poirot L, Galetto R, Smith J, Montoya G, Duchateau P, Pâques F. Meganucleases and other tools for targeted genome engineering: perspectives and challenges for gene therapy. Curr Gene Ther 2011;11:11-27. [PMID: 21182466 PMCID: PMC3267165 DOI: 10.2174/156652311794520111] [Citation(s) in RCA: 251] [Impact Index Per Article: 17.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/20/2010] [Revised: 12/10/2010] [Accepted: 12/10/2010] [Indexed: 12/17/2022]
24
Nadra AD, Serrano L, Alibés A. DNA-Binding Specificity Prediction with FoldX. Methods Enzymol 2011;498:3-18. [DOI: 10.1016/b978-0-12-385120-8.00001-2] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023]
25
Arnould S, Delenda C, Grizot S, Desseaux C, Pâques F, Silva GH, Smith J. The I-CreI meganuclease and its engineered derivatives: applications from cell modification to gene therapy. Protein Eng Des Sel 2010;24:27-31. [PMID: 21047873 DOI: 10.1093/protein/gzq083] [Citation(s) in RCA: 65] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2023]  Open
26
Alibés A, Nadra AD, De Masi F, Bulyk ML, Serrano L, Stricher F. Using protein design algorithms to understand the molecular basis of disease caused by protein-DNA interactions: the Pax6 example. Nucleic Acids Res 2010;38:7422-31. [PMID: 20685816 PMCID: PMC2995082 DOI: 10.1093/nar/gkq683] [Citation(s) in RCA: 48] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/14/2022]  Open
27
Grizot S, Epinat JC, Thomas S, Duclert A, Rolland S, Pâques F, Duchateau P. Generation of redesigned homing endonucleases comprising DNA-binding domains derived from two different scaffolds. Nucleic Acids Res 2010;38:2006-18. [PMID: 20026587 PMCID: PMC2847234 DOI: 10.1093/nar/gkp1171] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/15/2009] [Revised: 11/27/2009] [Accepted: 11/27/2009] [Indexed: 11/14/2022]  Open
28
Marcaida MJ, Muñoz IG, Blanco FJ, Prieto J, Montoya G. Homing endonucleases: from basics to therapeutic applications. Cell Mol Life Sci 2010;67:727-48. [PMID: 19915993 PMCID: PMC11115532 DOI: 10.1007/s00018-009-0188-y] [Citation(s) in RCA: 59] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2009] [Revised: 10/16/2009] [Accepted: 10/19/2009] [Indexed: 10/20/2022]
29
Structure-based DNA-binding prediction and design. Methods Mol Biol 2010;649:77-88. [PMID: 20680828 DOI: 10.1007/978-1-60761-753-2_4] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
30
Galetto R, Duchateau P, Pâques F. Targeted approaches for gene therapy and the emergence of engineered meganucleases. Expert Opin Biol Ther 2009;9:1289-303. [PMID: 19689185 DOI: 10.1517/14712590903213669] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
31
Grizot S, Smith J, Daboussi F, Prieto J, Redondo P, Merino N, Villate M, Thomas S, Lemaire L, Montoya G, Blanco FJ, Pâques F, Duchateau P. Efficient targeting of a SCID gene by an engineered single-chain homing endonuclease. Nucleic Acids Res 2009;37:5405-19. [PMID: 19584299 PMCID: PMC2760784 DOI: 10.1093/nar/gkp548] [Citation(s) in RCA: 123] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]  Open
32
Havranek JJ, Baker D. Motif-directed flexible backbone design of functional interactions. Protein Sci 2009;18:1293-305. [PMID: 19472357 PMCID: PMC2774439 DOI: 10.1002/pro.142] [Citation(s) in RCA: 24] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2008] [Revised: 03/27/2009] [Accepted: 03/30/2009] [Indexed: 12/30/2022]
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