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Ian J. MacRae, Ph.D. - Publications

Affiliations: 
Integrative Structural and Computational Biology Scripps Research Institute, La Jolla, La Jolla, CA, United States 
Area:
Structural Biology
Website:
http://www.scripps.edu/research/faculty/macrae
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55 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2020 Ruijtenberg S, Sonneveld S, Cui TJ, Logister I, de Steenwinkel D, Xiao Y, MacRae IJ, Joo C, Tanenbaum ME. mRNA structural dynamics shape Argonaute-target interactions. Nature Structural & Molecular Biology. PMID 32661421 DOI: 10.1038/S41594-020-0461-1  0.383
2020 Pawlica P, Sheu-Gruttadauria J, MacRae IJ, Steitz JA. How Complementary Targets Expose the microRNA 3' End for Tailing and Trimming during Target-Directed microRNA Degradation. Cold Spring Harbor Symposia On Quantitative Biology. PMID 32019864 DOI: 10.1101/Sqb.2019.84.039321  0.317
2019 Xiao Y, MacRae I. Robust differential microRNA targeting driven by supplementary interactions in vitro. Rna (New York, N.Y.). PMID 31732536 DOI: 10.1261/Rna.072264.119  0.317
2019 Sheu-Gruttadauria J, Pawlica P, Klum SM, Wang S, Yario TA, Schirle Oakdale NT, Steitz JA, MacRae IJ. Structural Basis for Target-Directed MicroRNA Degradation. Molecular Cell. PMID 31353209 DOI: 10.1016/J.Molcel.2019.06.019  0.328
2019 Sheu-Gruttadauria J, Xiao Y, Gebert LF, MacRae IJ. Beyond the seed: structural basis for supplementary microRNA targeting by human Argonaute2. The Embo Journal. 38: e101153. PMID 31268608 DOI: 10.15252/Embj.2018101153  0.315
2019 Foss DV, Schirle NT, MacRae IJ, Pezacki JP. Structural insights into interactions between viral suppressor of RNA silencing protein p19 mutants and small RNAs. Febs Open Bio. PMID 31021526 DOI: 10.1002/2211-5463.12644  0.406
2018 Ziv O, Gabryelska MM, Lun ATL, Gebert LFR, Sheu-Gruttadauria J, Meredith LW, Liu ZY, Kwok CK, Qin CF, MacRae IJ, Goodfellow I, Marioni JC, Kudla G, Miska EA. COMRADES determines in vivo RNA structures and interactions. Nature Methods. PMID 30202058 DOI: 10.1038/S41592-018-0121-0  0.401
2018 Gebert LFR, MacRae IJ. Regulation of microRNA function in animals. Nature Reviews. Molecular Cell Biology. PMID 30108335 DOI: 10.1038/S41580-018-0045-7  0.323
2018 Sheu-Gruttadauria J, MacRae IJ. Phase Transitions in the Assembly and Function of Human miRISC. Cell. PMID 29576456 DOI: 10.1016/J.Cell.2018.02.051  0.407
2017 Klum SM, Chandradoss SD, Schirle NT, Joo C, MacRae IJ. Helix-7 in Argonaute2 shapes the microRNA seed region for rapid target recognition. The Embo Journal. PMID 28939659 DOI: 10.15252/Embj.201796474  0.388
2017 Sheu-Gruttadauria J, MacRae IJ. Structural Foundations of RNA Silencing by Argonaute. Journal of Molecular Biology. PMID 28757069 DOI: 10.1016/J.Jmb.2017.07.018  0.418
2016 Suter SR, Sheu-Gruttadauria J, Schirle NT, Valenzuela R, Ball-Jones AA, Onizuka K, MacRae IJ, Beal PA. Structure-Guided Control of siRNA Off-Target Effects. Journal of the American Chemical Society. PMID 27387838 DOI: 10.1021/Jacs.6B06137  0.423
2016 Schirle NT, Kinberger GA, Murray HF, Lima WF, Prakash TP, MacRae IJ. Structural analysis of human Argonaute-2 bound to a modified siRNA guide. Journal of the American Chemical Society. PMID 27380263 DOI: 10.1021/Jacs.6B04454  0.43
2015 Schirle NT, Sheu-Gruttadauria J, Chandradoss SD, Joo C, MacRae IJ. Water-mediated recognition of t1-adenosine anchors Argonaute2 to microRNA targets. Elife. 4. PMID 26359634 DOI: 10.7554/Elife.07646  0.382
2015 Chandradoss SD, Schirle NT, Szczepaniak M, MacRae IJ, Joo C. A Dynamic Search Process Underlies MicroRNA Targeting. Cell. 162: 96-107. PMID 26140593 DOI: 10.1016/J.Cell.2015.06.032  0.383
2014 Schirle NT, Sheu-Gruttadauria J, MacRae IJ. Structural basis for microRNA targeting. Science (New York, N.Y.). 346: 608-13. PMID 25359968 DOI: 10.1126/Science.1258040  0.403
2014 Schirle NT, Sheu-Gruttadauria J, MacRae IJ. Gene regulation. Structural basis for microRNA targeting. Science. 346: 608-613. DOI: 10.2210/Pdb4W5N/Pdb  0.314
2014 MacRae I. Structural basis for post-transcriptional gene silencing by human Argonaute-2 Acta Crystallographica Section a Foundations and Advances. 70: C1395-C1395. DOI: 10.1107/S2053273314086045  0.344
2014 Chandradoss SD, MacRae I, Joo C. Weak Interactions between Risc and mRNA Promote Optimal Targeting in RNA Interference Biophysical Journal. 106: 496a. DOI: 10.1016/J.Bpj.2013.11.2776  0.382
2013 Xiong XP, Kurthkoti K, Chang KY, Lichinchi G, De N, Schneemann A, MacRae IJ, Rana TM, Perrimon N, Zhou R. Core small nuclear ribonucleoprotein particle splicing factor SmD1 modulates RNA interference in Drosophila. Proceedings of the National Academy of Sciences of the United States of America. 110: 16520-5. PMID 24067655 DOI: 10.1073/Pnas.1315803110  0.383
2013 De N, Young L, Lau PW, Meisner NC, Morrissey DV, MacRae IJ. Highly complementary target RNAs promote release of guide RNAs from human Argonaute2. Molecular Cell. 50: 344-55. PMID 23664376 DOI: 10.1016/J.Molcel.2013.04.001  0.404
2013 Horman SR, Janas MM, Litterst C, Wang B, MacRae IJ, Sever MJ, Morrissey DV, Graves P, Luo B, Umesalma S, Qi HH, Miraglia LJ, Novina CD, Orth AP. Akt-mediated phosphorylation of argonaute 2 downregulates cleavage and upregulates translational repression of MicroRNA targets. Molecular Cell. 50: 356-67. PMID 23603119 DOI: 10.1016/J.Molcel.2013.03.015  0.354
2012 Lau PW, Potter CS, Carragher B, MacRae IJ. DOLORS: versatile strategy for internal labeling and domain localization in electron microscopy. Structure (London, England : 1993). 20: 1995-2002. PMID 23217681 DOI: 10.1016/J.Str.2012.10.019  0.329
2012 Bale S, Julien JP, Bornholdt ZA, Kimberlin CR, Halfmann P, Zandonatti MA, Kunert J, Kroon GJ, Kawaoka Y, MacRae IJ, Wilson IA, Saphire EO. Marburg virus VP35 can both fully coat the backbone and cap the ends of dsRNA for interferon antagonism. Plos Pathogens. 8: e1002916. PMID 23028316 DOI: 10.1371/Journal.Ppat.1002916  0.363
2012 Schirle NT, MacRae IJ. The crystal structure of human Argonaute2. Science (New York, N.Y.). 336: 1037-40. PMID 22539551 DOI: 10.1126/Science.1221551  0.463
2012 Pratt AJ, Rambo RP, Lau PW, MacRae IJ. Preparation and characterization of the extracellular domain of human Sid-1. Plos One. 7: e33607. PMID 22509261 DOI: 10.1371/Journal.Pone.0033607  0.664
2012 Lau PW, Guiley KZ, De N, Potter CS, Carragher B, MacRae IJ. The molecular architecture of human Dicer. Nature Structural & Molecular Biology. 19: 436-40. PMID 22426548 DOI: 10.1038/Nsmb.2268  0.505
2012 Guiley KZ, Pratt AJ, MacRae IJ. Single-pot enzymatic synthesis of Dicer-substrate siRNAs. Nucleic Acids Research. 40: e40. PMID 22189103 DOI: 10.1093/Nar/Gkr1174  0.424
2012 Schirle NT, MacRae IJ. Structure and Mechanism of Argonaute Proteins The Enzymes. 32: 83-100. DOI: 10.1016/B978-0-12-404741-9.00004-0  0.421
2011 De N, Macrae IJ. Purification and assembly of human Argonaute, Dicer, and TRBP complexes. Methods in Molecular Biology (Clifton, N.J.). 725: 107-19. PMID 21528450 DOI: 10.1007/978-1-61779-046-1_8  0.357
2011 Hastie KM, Kimberlin CR, Zandonatti MA, MacRae IJ, Saphire EO. Structure of the Lassa virus nucleoprotein reveals a dsRNA-specific 3' to 5' exonuclease activity essential for immune suppression. Proceedings of the National Academy of Sciences of the United States of America. 108: 2396-401. PMID 21262835 DOI: 10.1073/Pnas.1016404108  0.311
2010 Kimberlin CR, Bornholdt ZA, Li S, Woods VL, MacRae IJ, Saphire EO. Ebolavirus VP35 uses a bimodal strategy to bind dsRNA for innate immune suppression. Proceedings of the National Academy of Sciences of the United States of America. 107: 314-9. PMID 20018665 DOI: 10.1073/Pnas.0910547107  0.365
2009 Lau PW, Potter CS, Carragher B, MacRae IJ. Structure of the human Dicer-TRBP complex by electron microscopy. Structure (London, England : 1993). 17: 1326-32. PMID 19836333 DOI: 10.1016/J.Str.2009.08.013  0.438
2009 Pratt AJ, MacRae IJ. The RNA-induced silencing complex: a versatile gene-silencing machine. The Journal of Biological Chemistry. 284: 17897-901. PMID 19342379 DOI: 10.1074/Jbc.R900012200  0.367
2009 Lau PW, MacRae IJ. The molecular machines that mediate microRNA maturation. Journal of Cellular and Molecular Medicine. 13: 54-60. PMID 19175700 DOI: 10.1111/J.1582-4934.2008.00520.X  0.321
2008 Ma E, MacRae IJ, Kirsch JF, Doudna JA. Autoinhibition of human dicer by its internal helicase domain. Journal of Molecular Biology. 380: 237-43. PMID 18508075 DOI: 10.1016/J.Jmb.2008.05.005  0.617
2008 MacRae IJ, Ma E, Zhou M, Robinson CV, Doudna JA. In vitro reconstitution of the human RISC-loading complex. Proceedings of the National Academy of Sciences of the United States of America. 105: 512-7. PMID 18178619 DOI: 10.1073/Pnas.0710869105  0.507
2007 MacRae IJ, Zhou K, Doudna JA. Structural determinants of RNA recognition and cleavage by Dicer. Nature Structural & Molecular Biology. 14: 934-40. PMID 17873886 DOI: 10.1038/Nsmb1293  0.617
2007 MacRae IJ, Doudna JA. An unusual case of pseudo-merohedral twinning in orthorhombic crystals of Dicer. Acta Crystallographica. Section D, Biological Crystallography. 63: 993-9. PMID 17704568 DOI: 10.1107/S0907444907036128  0.478
2007 MacRae IJ, Doudna JA. Ribonuclease revisited: structural insights into ribonuclease III family enzymes. Current Opinion in Structural Biology. 17: 138-45. PMID 17194582 DOI: 10.1016/J.Sbi.2006.12.002  0.612
2006 Macrae IJ, Li F, Zhou K, Cande WZ, Doudna JA. Structure of Dicer and mechanistic implications for RNAi. Cold Spring Harbor Symposia On Quantitative Biology. 71: 73-80. PMID 17381283 DOI: 10.1101/Sqb.2006.71.042  0.608
2006 Macrae IJ, Zhou K, Li F, Repic A, Brooks AN, Cande WZ, Adams PD, Doudna JA. Structural basis for double-stranded RNA processing by Dicer. Science (New York, N.Y.). 311: 195-8. PMID 16410517 DOI: 10.1126/Science.1121638  0.613
2005 Macrae IJ, Doudna JA. Ro's role in RNA reconnaissance. Cell. 121: 495-6. PMID 15907458 DOI: 10.1016/J.Cell.2005.05.004  0.56
2005 Doudna JA, MacRae IJ, Zhou K. Structural basis for RNA-regulated gene expression Acta Crystallographica Section a Foundations of Crystallography. 61: c59-c59. DOI: 10.1107/S0108767305097485  0.484
2004 Hanna E, Ng KF, MacRae IJ, Bley CJ, Fisher AJ, Segel IH. Kinetic and stability properties of Penicillium chrysogenum ATP sulfurylase missing the C-terminal regulatory domain. The Journal of Biological Chemistry. 279: 4415-24. PMID 14613928 DOI: 10.1074/Jbc.M311317200  0.57
2002 MacRae IJ, Segel IH, Fisher AJ. Allosteric inhibition via R-state destabilization in ATP sulfurylase from Penicillium chrysogenum. Nature Structural Biology. 9: 945-9. PMID 12426581 DOI: 10.1038/Nsb868  0.582
2002 Hanna E, MacRae IJ, Medina DC, Fisher AJ, Segel IH. ATP sulfurylase from the hyperthermophilic chemolithotroph Aquifex aeolicus. Archives of Biochemistry and Biophysics. 406: 275-88. PMID 12361716 DOI: 10.1016/S0003-9861(02)00428-9  0.565
2002 Fisher AJ, MacRae IJ, Lansdon EB, Beynon JD, Segel IH. Evolving an enzyme into different metabolic roles: structures of fungal and bacterial ATP sulfurylase Acta Crystallographica Section a Foundations of Crystallography. 58: c99-c99. DOI: 10.1107/S0108767302089006  0.674
2001 Beynon JD, MacRae IJ, Huston SL, Nelson DC, Segel IH, Fisher AJ. Crystal structure of ATP sulfurylase from the bacterial symbiont of the hydrothermal vent tubeworm Riftia pachyptila. Biochemistry. 40: 14509-17. PMID 11724564 DOI: 10.1021/Bi015643L  0.751
2001 Medina DC, Hanna E, MacRae IJ, Fisher AJ, Segel IH. Temperature effects on the allosteric transition of ATP sulfurylase from Penicillium chrysogenum. Archives of Biochemistry and Biophysics. 393: 51-60. PMID 11516160 DOI: 10.1006/Abbi.2001.2490  0.509
2001 MacRae IJ, Segel IH, Fisher AJ. Crystal structure of ATP sulfurylase from Penicillium chrysogenum: insights into the allosteric regulation of sulfate assimilation. Biochemistry. 40: 6795-804. PMID 11389593 DOI: 10.1021/Bi010367W  0.603
2000 MacRae IJ, Hanna E, Ho JD, Fisher AJ, Segel IH. Induction of positive cooperativity by amino acid replacements within the C-terminal domain of Penicillium chrysogenum ATP sulfurylase. The Journal of Biological Chemistry. 275: 36303-10. PMID 10956658 DOI: 10.1042/Bst028A320  0.578
2000 MacRae IJ, Segel IH, Fisher AJ. Crystal structure of adenosine 5'-phosphosulfate kinase from Penicillium chrysogenum. Biochemistry. 39: 1613-21. PMID 10677210 DOI: 10.1021/Bi9924157  0.574
1998 MacRae IJ, Rose AB, Segel IH. Adenosine 5'-phosphosulfate kinase from Penicillium chrysogenum. site-directed mutagenesis at putative phosphoryl-accepting and ATP P-loop residues. The Journal of Biological Chemistry. 273: 28583-9. PMID 9786849 DOI: 10.1074/Jbc.273.44.28583  0.403
1997 MacRae I, Segel IH. ATP sulfurylase from filamentous fungi: which sulfonucleotide is the true allosteric effector? Archives of Biochemistry and Biophysics. 337: 17-26. PMID 8990263 DOI: 10.1006/Abbi.1996.9751  0.365
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