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Marco Tonelli, Ph.D. - Publications

Affiliations: 
2003 University of California, San Francisco, San Francisco, CA 
Area:
Pharmaceutical Chemistry, Genetics
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70 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
2016 Gu X, Park SY, Tonelli M, Cornilescu G, Xia T, Zhong D, Schroeder SJ. NMR Structures and Dynamics in a Prohead RNA Bulge Loop that Specifically Binds Metal Ions. The Journal of Physical Chemistry Letters. PMID 27631837 DOI: 10.1021/acs.jpclett.6b01465  0.32
2016 Kim S, Natesan S, Cornilescu G, Carlson S, Tonelli M, McClurg UL, Binda O, Robson CN, Markley JL, Balaz S, Glass KC. Mechanism of Histone H3K4me3 Recognition by the Plant Homeodomain of Inhibitor of Growth 3. The Journal of Biological Chemistry. PMID 27281824 DOI: 10.1074/jbc.M115.690651  0.32
2016 Lee W, Cornilescu G, Dashti H, Eghbalnia HR, Tonelli M, Westler WM, Butcher SE, Henzler-Wildman KA, Markley JL. Integrative NMR for biomolecular research. Journal of Biomolecular Nmr. PMID 27023095 DOI: 10.1007/s10858-016-0029-x  0.32
2016 Dashti H, Tonelli M, Lee W, Westler WM, Cornilescu G, Ulrich EL, Markley JL. Probabilistic validation of protein NMR chemical shift assignments. Journal of Biomolecular Nmr. PMID 26724815 DOI: 10.1007/s10858-015-0007-8  0.32
2015 Singarapu KK, Otte MM, Tonelli M, Westler WM, Escalante-Semerena JC, Markley JL. Solution Structural Studies of GTP:Adenosylcobinamide-Phosphateguanylyl Transferase (CobY) from Methanocaldococcus jannaschii. Plos One. 10: e0141297. PMID 26513744 DOI: 10.1371/journal.pone.0141297  0.32
2015 Bothe JR, Tonelli M, Ali IK, Dai Z, Frederick RO, Westler WM, Markley JL. The Complex Energy Landscape of the Protein IscU. Biophysical Journal. 109: 1019-25. PMID 26331259 DOI: 10.1016/j.bpj.2015.07.045  0.32
2015 Zhang F, Adnani N, Vazquez-Rivera E, Braun DR, Tonelli M, Andes DR, Bugni TS. Application of 3D NMR for Structure Determination of Peptide Natural Products. The Journal of Organic Chemistry. 80: 8713-9. PMID 26273993 DOI: 10.1021/acs.joc.5b01486  0.32
2015 Selen ES, Bolandnazar Z, Tonelli M, Bütz DE, Haviland JA, Porter WP, Assadi-Porter FM. NMR Metabolomics Show Evidence for Mitochondrial Oxidative Stress in a Mouse Model of Polycystic Ovary Syndrome. Journal of Proteome Research. 14: 3284-91. PMID 26076986 DOI: 10.1021/acs.jproteome.5b00307  0.32
2015 Dashti H, Tonelli M, Markley JL. ADAPT-NMR 3.0: utilization of BEST-type triple-resonance NMR experiments to accelerate the process of data collection and assignment. Journal of Biomolecular Nmr. PMID 26021595 DOI: 10.1007/s10858-015-9950-7  0.32
2015 Dashti H, Lee W, Tonelli M, Cornilescu CC, Cornilescu G, Assadi-Porter FM, Westler WM, Eghbalnia HR, Markley JL. NMRFAM-SDF: a protein structure determination framework. Journal of Biomolecular Nmr. PMID 25900069 DOI: 10.1007/s10858-015-9933-8  0.32
2015 Korasick DA, Chatterjee S, Tonelli M, Dashti H, Lee SG, Westfall CS, Fulton DB, Andreotti AH, Amarasinghe GK, Strader LC, Jez JM. Defining a two-pronged structural model for PB1 (Phox/Bem1p) domain interaction in plant auxin responses. The Journal of Biological Chemistry. 290: 12868-78. PMID 25839233 DOI: 10.1074/jbc.M115.648253  0.32
2015 Mouzakis KD, Dethoff EA, Tonelli M, Al-Hashimi H, Butcher SE. Dynamic motions of the HIV-1 frameshift site RNA. Biophysical Journal. 108: 644-54. PMID 25650931 DOI: 10.1016/j.bpj.2014.12.006  0.32
2015 Lee W, Tonelli M, Markley JL. NMRFAM-SPARKY: enhanced software for biomolecular NMR spectroscopy. Bioinformatics (Oxford, England). 31: 1325-7. PMID 25505092 DOI: 10.1093/bioinformatics/btu830  0.32
2015 Tonelli M, Eller CH, Singarapu KK, Lee W, Bahrami A, Westler WM, Raines RT, Markley JL. Assignments of RNase A by ADAPT-NMR and enhancer. Biomolecular Nmr Assignments. 9: 81-8. PMID 24619609 DOI: 10.1007/s12104-014-9549-z  0.32
2014 Alderson TR, Kim JH, Cai K, Frederick RO, Tonelli M, Markley JL. The specialized Hsp70 (HscA) interdomain linker binds to its nucleotide-binding domain and stimulates ATP hydrolysis in both cis and trans configurations. Biochemistry. 53: 7148-59. PMID 25372495 DOI: 10.1021/bi5010552  0.32
2014 Huang Y, Nokhrin S, Hassanzadeh-Ghassabeh G, Yu CH, Yang H, Barry AN, Tonelli M, Markley JL, Muyldermans S, Dmitriev OY, Lutsenko S. Interactions between metal-binding domains modulate intracellular targeting of Cu(I)-ATPase ATP7B, as revealed by nanobody binding. The Journal of Biological Chemistry. 289: 32682-93. PMID 25253690 DOI: 10.1074/jbc.M114.580845  0.32
2014 Dai Z, Kim JH, Tonelli M, Ali IK, Markley JL. pH-induced conformational change of IscU at low pH correlates with protonation/deprotonation of two conserved histidine residues. Biochemistry. 53: 5290-7. PMID 25055301 DOI: 10.1021/bi500313t  0.32
2014 Lee W, Watters KE, Troupis AT, Reinen NM, Suchy FP, Moyer KL, Frederick RO, Tonelli M, Aceti DJ, Palmenberg AC, Markley JL. Solution structure of the 2A protease from a common cold agent, human rhinovirus C2, strain W12. Plos One. 9: e97198. PMID 24937088 DOI: 10.1371/journal.pone.0097198  0.32
2014 Singh S, Peltier-Pain P, Tonelli M, Thorson JS. A general NMR-based strategy for the in situ characterization of sugar-nucleotide-dependent biosynthetic pathways. Organic Letters. 16: 3220-3. PMID 24911465 DOI: 10.1021/ol501241a  0.32
2014 Brown CS, Lee MS, Leung DW, Wang T, Xu W, Luthra P, Anantpadma M, Shabman RS, Melito LM, MacMillan KS, Borek DM, Otwinowski Z, Ramanan P, Stubbs AJ, Peterson DS, ... ... Tonelli M, et al. In silico derived small molecules bind the filovirus VP35 protein and inhibit its polymerase cofactor activity. Journal of Molecular Biology. 426: 2045-58. PMID 24495995 DOI: 10.1016/j.jmb.2014.01.010  0.32
2014 Hyde JL, Gardner CL, Kimura T, White JP, Liu G, Trobaugh DW, Huang C, Tonelli M, Paessler S, Takeda K, Klimstra WB, Amarasinghe GK, Diamond MS. A viral RNA structural element alters host recognition of nonself RNA. Science (New York, N.Y.). 343: 783-7. PMID 24482115 DOI: 10.1126/science.1248465  0.32
2013 Lee W, Hu K, Tonelli M, Bahrami A, Neuhardt E, Glass KC, Markley JL. Fast automated protein NMR data collection and assignment by ADAPT-NMR on Bruker spectrometers. Journal of Magnetic Resonance (San Diego, Calif. : 1997). 236: 83-8. PMID 24091140 DOI: 10.1016/j.jmr.2013.08.010  0.32
2013 Cai K, Frederick RO, Kim JH, Reinen NM, Tonelli M, Markley JL. Human mitochondrial chaperone (mtHSP70) and cysteine desulfurase (NFS1) bind preferentially to the disordered conformation, whereas co-chaperone (HSC20) binds to the structured conformation of the iron-sulfur cluster scaffold protein (ISCU). The Journal of Biological Chemistry. 288: 28755-70. PMID 23940031 DOI: 10.1074/jbc.M113.482042  0.32
2013 Hsueh KL, Tonelli M, Cai K, Westler WM, Markley JL. Electron transfer mechanism of the Rieske protein from Thermus thermophilus from solution nuclear magnetic resonance investigations. Biochemistry. 52: 2862-73. PMID 23480240 DOI: 10.1021/bi400296c  0.32
2013 Cornilescu CC, Cornilescu G, Rao H, Porter SF, Tonelli M, DeRider ML, Markley JL, Assadi-Porter FM. Temperature-dependent conformational change affecting Tyr11 and sweetness loops of brazzein. Proteins. 81: 919-25. PMID 23349025 DOI: 10.1002/prot.24259  0.32
2013 Markley JL, Kim JH, Dai Z, Bothe JR, Cai K, Frederick RO, Tonelli M. Metamorphic protein IscU alternates conformations in the course of its role as the scaffold protein for iron-sulfur cluster biosynthesis and delivery. Febs Letters. 587: 1172-9. PMID 23333622 DOI: 10.1016/j.febslet.2013.01.003  0.32
2013 Hebert AS, Dittenhafer-Reed KE, Yu W, Bailey DJ, Selen ES, Boersma MD, Carson JJ, Tonelli M, Balloon AJ, Higbee AJ, Westphall MS, Pagliarini DJ, Prolla TA, Assadi-Porter F, Roy S, et al. Calorie restriction and SIRT3 trigger global reprogramming of the mitochondrial protein acetylome. Molecular Cell. 49: 186-99. PMID 23201123 DOI: 10.1016/j.molcel.2012.10.024  0.32
2012 Dai Z, Tonelli M, Markley JL. Metamorphic protein IscU changes conformation by cis-trans isomerizations of two peptidyl-prolyl peptide bonds. Biochemistry. 51: 9595-602. PMID 23110687 DOI: 10.1021/bi301413y  0.32
2012 Kim JH, Tonelli M, Frederick RO, Chow DC, Markley JL. Specialized Hsp70 chaperone (HscA) binds preferentially to the disordered form, whereas J-protein (HscB) binds preferentially to the structured form of the iron-sulfur cluster scaffold protein (IscU). The Journal of Biological Chemistry. 287: 31406-13. PMID 22782893 DOI: 10.1074/jbc.M112.352617  0.32
2012 Zhu J, Rao H, Tonelli M, Westler WM, Singarapu KK, Markley JL, DeLuca HF, Assadi-Porter FM. Efficient stable isotope labeling and purification of vitamin D receptor from inclusion bodies. Protein Expression and Purification. 85: 25-31. PMID 22750673 DOI: 10.1016/j.pep.2012.06.012  0.32
2012 Kim JH, Tonelli M, Kim T, Markley JL. Three-dimensional structure and determinants of stability of the iron-sulfur cluster scaffold protein IscU from Escherichia coli. Biochemistry. 51: 5557-63. PMID 22734684 DOI: 10.1021/bi300579p  0.32
2012 Zhang M, Lam TT, Tonelli M, Marzluff WF, Thapar R. Interaction of the histone mRNA hairpin with stem-loop binding protein (SLBP) and regulation of the SLBP-RNA complex by phosphorylation and proline isomerization. Biochemistry. 51: 3215-31. PMID 22439849 DOI: 10.1021/bi2018255  0.32
2012 Bahrami A, Tonelli M, Sahu SC, Singarapu KK, Eghbalnia HR, Markley JL. Robust, integrated computational control of NMR experiments to achieve optimal assignment by ADAPT-NMR. Plos One. 7: e33173. PMID 22427982 DOI: 10.1371/journal.pone.0033173  0.32
2012 Haviland JA, Tonelli M, Haughey DT, Porter WP, Assadi-Porter FM. Novel diagnostics of metabolic dysfunction detected in breath and plasma by selective isotope-assisted labeling. Metabolism: Clinical and Experimental. 61: 1162-70. PMID 22304834 DOI: 10.1016/j.metabol.2011.12.010  0.32
2012 Kim JH, Tonelli M, Markley JL. Disordered form of the scaffold protein IscU is the substrate for iron-sulfur cluster assembly on cysteine desulfurase. Proceedings of the National Academy of Sciences of the United States of America. 109: 454-9. PMID 22203963 DOI: 10.1073/pnas.1114372109  0.32
2011 Torbeev VY, Raghuraman H, Hamelberg D, Tonelli M, Westler WM, Perozo E, Kent SB. Protein conformational dynamics in the mechanism of HIV-1 protease catalysis. Proceedings of the National Academy of Sciences of the United States of America. 108: 20982-7. PMID 22158985 DOI: 10.1073/pnas.1111202108  0.32
2011 Singarapu KK, Zhu J, Tonelli M, Rao H, Assadi-Porter FM, Westler WM, DeLuca HF, Markley JL. Ligand-specific structural changes in the vitamin D receptor in solution. Biochemistry. 50: 11025-33. PMID 22112050 DOI: 10.1021/bi201637p  0.32
2011 Singarapu KK, Tonelli M, Chow DC, Frederick RO, Westler WM, Markley JL. Structural characterization of Hsp12, the heat shock protein from Saccharomyces cerevisiae, in aqueous solution where it is intrinsically disordered and in detergent micelles where it is locally α-helical. The Journal of Biological Chemistry. 286: 43447-53. PMID 21998307 DOI: 10.1074/jbc.M111.306464  0.32
2011 Tonelli M, Singarapu KK, Makino S, Sahu SC, Matsubara Y, Endo Y, Kainosho M, Markley JL. Hydrogen exchange during cell-free incorporation of deuterated amino acids and an approach to its inhibition. Journal of Biomolecular Nmr. 51: 467-76. PMID 21984356 DOI: 10.1007/s10858-011-9575-4  0.32
2011 Dittli SM, Rao H, Tonelli M, Quijada J, Markley JL, Max M, Assadi-Porter F, Maillet E. Structural role of the terminal disulfide bond in the sweetness of brazzein. Chemical Senses. 36: 821-30. PMID 21765060 DOI: 10.1093/chemse/bjr057  0.32
2011 Marcheschi RJ, Tonelli M, Kumar A, Butcher SE. Structure of the HIV-1 frameshift site RNA bound to a small molecule inhibitor of viral replication. Acs Chemical Biology. 6: 857-64. PMID 21648432 DOI: 10.1021/cb200082d  0.32
2010 Masterson LR, Cheng C, Yu T, Tonelli M, Kornev A, Taylor SS, Veglia G. Dynamics connect substrate recognition to catalysis in protein kinase A. Nature Chemical Biology. 6: 821-8. PMID 20890288 DOI: 10.1038/nchembio.452  0.32
2010 Lewis IA, Karsten RH, Norton ME, Tonelli M, Westler WM, Markley JL. NMR method for measuring carbon-13 isotopic enrichment of metabolites in complex solutions. Analytical Chemistry. 82: 4558-63. PMID 20459129 DOI: 10.1021/ac100565b  0.32
2010 Singarapu KK, Radek JT, Tonelli M, Markley JL, Lan Q. Differences in the structure and dynamics of the apo- and palmitate-ligated forms of Aedes aegypti sterol carrier protein 2 (AeSCP-2). The Journal of Biological Chemistry. 285: 17046-53. PMID 20356842 DOI: 10.1074/jbc.M110.101154  0.32
2010 Assadi-Porter FM, Tonelli M, Maillet EL, Markley JL, Max M. Interactions between the human sweet-sensing T1R2-T1R3 receptor and sweeteners detected by saturation transfer difference NMR spectroscopy. Biochimica Et Biophysica Acta. 1798: 82-6. PMID 19664591 DOI: 10.1016/j.bbamem.2009.07.021  0.32
2009 Kieken F, Jović M, Tonelli M, Naslavsky N, Caplan S, Sorgen PL. Structural insight into the interaction of proteins containing NPF, DPF, and GPF motifs with the C-terminal EH-domain of EHD1. Protein Science : a Publication of the Protein Society. 18: 2471-9. PMID 19798736 DOI: 10.1002/pro.258  0.32
2009 Tonelli M, Masterson LR, Cornilescu G, Markley JL, Veglia G. One-sample approach to determine the relative orientations of proteins in ternary and binary complexes from residual dipolar coupling measurements. Journal of the American Chemical Society. 131: 14138-9. PMID 19764746 DOI: 10.1021/ja904766g  0.32
2009 Masterson LR, Shi L, Tonelli M, Mascioni A, Mueller MM, Veglia G. Backbone NMR resonance assignment of the catalytic subunit of cAMP-dependent protein kinase A in complex with AMP-PNP. Biomolecular Nmr Assignments. 3: 115-7. PMID 19636960 DOI: 10.1007/s12104-009-9154-8  0.32
2009 Kim JH, Füzéry AK, Tonelli M, Ta DT, Westler WM, Vickery LE, Markley JL. Structure and dynamics of the iron-sulfur cluster assembly scaffold protein IscU and its interaction with the cochaperone HscB. Biochemistry. 48: 6062-71. PMID 19492851 DOI: 10.1021/bi9002277  0.32
2009 Popovych N, Tzeng SR, Tonelli M, Ebright RH, Kalodimos CG. Structural basis for cAMP-mediated allosteric control of the catabolite activator protein. Proceedings of the National Academy of Sciences of the United States of America. 106: 6927-32. PMID 19359484 DOI: 10.1073/pnas.0900595106  0.32
2008 Füzéry AK, Tonelli M, Ta DT, Cornilescu G, Vickery LE, Markley JL. Solution structure of the iron-sulfur cluster cochaperone HscB and its binding surface for the iron-sulfur assembly scaffold protein IscU. Biochemistry. 47: 9394-404. PMID 18702525 DOI: 10.1021/bi800502r  0.32
2008 Masterson LR, Tonelli M, Markley JL, Veglia G. Simultaneous detection and deconvolution of congested NMR spectra containing three isotopically labeled species. Journal of the American Chemical Society. 130: 7818-9. PMID 18512910 DOI: 10.1021/ja802701w  0.32
2008 Assadi-Porter FM, Tonelli M, Maillet E, Hallenga K, Benard O, Max M, Markley JL. Direct NMR detection of the binding of functional ligands to the human sweet receptor, a heterodimeric family 3 GPCR. Journal of the American Chemical Society. 130: 7212-3. PMID 18481853 DOI: 10.1021/ja8016939  0.32
2008 Song J, Bettendorff L, Tonelli M, Markley JL. Structural basis for the catalytic mechanism of mammalian 25-kDa thiamine triphosphatase. The Journal of Biological Chemistry. 283: 10939-48. PMID 18276586 DOI: 10.1074/jbc.M709675200  0.32
2007 Lewis IA, Schommer SC, Hodis B, Robb KA, Tonelli M, Westler WM, Sussman MR, Markley JL. Method for determining molar concentrations of metabolites in complex solutions from two-dimensional 1H-13C NMR spectra. Analytical Chemistry. 79: 9385-90. PMID 17985927 DOI: 10.1021/ac071583z  0.32
2007 Tonelli M, Masterson LR, Hallenga K, Veglia G, Markley JL. Carbonyl carbon label selective (CCLS) 1H-15N HSQC experiment for improved detection of backbone 13C-15N cross peaks in larger proteins. Journal of Biomolecular Nmr. 39: 177-85. PMID 17828465 DOI: 10.1007/s10858-007-9185-3  0.32
2007 Cornilescu G, Bahrami A, Tonelli M, Markley JL, Eghbalnia HR. HIFI-C: a robust and fast method for determining NMR couplings from adaptive 3D to 2D projections. Journal of Biomolecular Nmr. 38: 341-51. PMID 17610130 DOI: 10.1007/s10858-007-9173-7  0.32
2007 Davis JH, Foster TR, Tonelli M, Butcher SE. Role of metal ions in the tetraloop-receptor complex as analyzed by NMR. Rna (New York, N.Y.). 13: 76-86. PMID 17119098 DOI: 10.1261/rna.268307  0.32
2006 Reiter NJ, Lee D, Wang YX, Tonelli M, Bahrami A, Cornilescu CC, Butcher SE. Resonance assignments for the two N-terminal RNA recognition motifs (RRM) of the S. cerevisiae pre-mRNA processing protein Prp24. Journal of Biomolecular Nmr. 36: 58. PMID 17131032 DOI: 10.1007/s10858-006-9039-4  0.32
2006 Gao F, Mer G, Tonelli M, Hansen SB, Burghardt TP, Taylor P, Sine SM. Solution NMR of acetylcholine binding protein reveals agonist-mediated conformational change of the C-loop. Molecular Pharmacology. 70: 1230-5. PMID 16847142 DOI: 10.1124/mol.106.027185  0.32
2006 Ulyanov NB, Mujeeb A, Du Z, Tonelli M, Parslow TG, James TL. NMR structure of the full-length linear dimer of stem-loop-1 RNA in the HIV-1 dimer initiation site. The Journal of Biological Chemistry. 281: 16168-77. PMID 16603544 DOI: 10.1074/jbc.M601711200  0.32
2005 Singh S, Cornilescu CC, Tyler RC, Cornilescu G, Tonelli M, Lee MS, Markley JL. Solution structure of a late embryogenesis abundant protein (LEA14) from Arabidopsis thaliana, a cellular stress-related protein. Protein Science : a Publication of the Protein Society. 14: 2601-9. PMID 16155204 DOI: 10.1110/ps.051579205  0.32
2005 Eghbalnia HR, Bahrami A, Tonelli M, Hallenga K, Markley JL. High-resolution iterative frequency identification for NMR as a general strategy for multidimensional data collection. Journal of the American Chemical Society. 127: 12528-36. PMID 16144400 DOI: 10.1021/ja052120i  0.32
2005 Singh S, Tonelli M, Tyler RC, Bahrami A, Lee MS, Markley JL. Three-dimensional structure of the AAH26994.1 protein from Mus musculus, a putative eukaryotic Urm1. Protein Science : a Publication of the Protein Society. 14: 2095-102. PMID 16046629 DOI: 10.1110/ps.051577605  0.32
2005 Davis JH, Tonelli M, Scott LG, Jaeger L, Williamson JR, Butcher SE. RNA helical packing in solution: NMR structure of a 30 kDa GAAA tetraloop-receptor complex. Journal of Molecular Biology. 351: 371-82. PMID 16002091 DOI: 10.1016/j.jmb.2005.05.069  0.32
2003 Tonelli M, Ulyanov NB, Billeci TM, Karwowski B, Guga P, Stec WJ, James TL. Dynamic NMR structures of [Rp]- and [Sp]-phosphorothioated DNA-RNA hybrids: is flexibility required for RNase H recognition? Biophysical Journal. 85: 2525-38. PMID 14507715 DOI: 10.1016/S0006-3495(03)74675-X  0.32
2001 Tonelli M, Peters RJ, James TL, Agard DA. The solution structure of the viral binding domain of Tva, the cellular receptor for subgroup A avian leukosis and sarcoma virus. Febs Letters. 509: 161-8. PMID 11768384 DOI: 10.1016/S0014-5793(01)03086-1  0.32
1998 Tonelli M, Ragg E, Bianucci AM, Lesiak K, James TL. Nuclear magnetic resonance structure of d(GCATATGATAG). d(CTATCATATGC): a consensus sequence for promoters recognized by sigma K RNA polymerase. Biochemistry. 37: 11745-61. PMID 9718297 DOI: 10.1021/bi980481n  0.32
1998 Tonelli M, James TL. Insights into the dynamic nature of DNA duplex structure via analysis of nuclear Overhauser effect intensities. Biochemistry. 37: 11478-87. PMID 9708983 DOI: 10.1021/bi980905d  0.32
1996 Liu H, Tonelli M, James TL. Correcting NOESY cross-peak intensities for partial relaxation effects enabling accurate distance information. Journal of Magnetic Resonance. Series B. 111: 85-9. PMID 8620288 DOI: 10.1006/jmrb.1996.0064  0.32
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