Joachim Frank - Publications

Affiliations: 
Biochemistry and Molecular Biophysics Columbia University, New York, NY 
Area:
cryo-electron microscopy (cryo-EM) of ribosomes
Website:
http://biochemistry.hs.columbia.edu/faculty/joachim.html

171 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 Park J, Fu Z, Frangaj A, Liu J, Mosyak L, Shen T, Slavkovich VN, Ray KM, Taura J, Cao B, Geng Y, Zuo H, Kou Y, Grassucci R, Chen S, ... ... Frank J, et al. Structure of human GABA receptor in an inactive state. Nature. PMID 32581365 DOI: 10.1038/s41586-020-2452-0  1
2020 Zheng X, Fu Z, Su D, Zhang Y, Li M, Pan Y, Li H, Li S, Grassucci RA, Ren Z, Hu Z, Li X, Zhou M, Li G, Frank J, et al. Mechanism of ligand activation of a eukaryotic cyclic nucleotide-gated channel. Nature Structural & Molecular Biology. PMID 32483338 DOI: 10.1038/s41594-020-0433-5  1
2020 Carter SD, Hampton CM, Langlois R, Melero R, Farino ZJ, Calderon MJ, Li W, Wallace CT, Tran NH, Grassucci RA, Siegmund SE, Pemberton J, Morgenstern TJ, Eisenman L, Aguilar JI, ... ... Frank J, et al. Ribosome-associated vesicles: A dynamic subcompartment of the endoplasmic reticulum in secretory cells. Science Advances. 6: eaay9572. PMID 32270040 DOI: 10.1126/sciadv.aay9572  1
2020 Maji S, Liao H, Dashti A, Mashayekhi G, Ourmazd A, Frank J. Propagation of Conformational Coordinates Across Angular Space in Mapping the Continuum of States from Cryo-EM Data by Manifold Embedding. Journal of Chemical Information and Modeling. PMID 32207941 DOI: 10.1021/acs.jcim.9b01115  1
2019 Fu Z, Indrisiunaite G, Kaledhonkar S, Shah B, Sun M, Chen B, Grassucci RA, Ehrenberg M, Frank J. The structural basis for release-factor activation during translation termination revealed by time-resolved cryogenic electron microscopy. Nature Communications. 10: 2579. PMID 31189921 DOI: 10.1038/s41467-019-10608-z  1
2019 Kaledhonkar S, Fu Z, Caban K, Li W, Chen B, Sun M, Gonzalez RL, Frank J. Late steps in bacterial translation initiation visualized using time-resolved cryo-EM. Nature. PMID 31108498 DOI: 10.1038/s41586-019-1249-5  1
2018 Qiu W, Fu Z, Xu GG, Grassucci RA, Zhang Y, Frank J, Hendrickson WA, Guo Y. Structure and activity of lipid bilayer within a membrane-protein transporter. Proceedings of the National Academy of Sciences of the United States of America. 115: 12985-12990. PMID 30509977 DOI: 10.1073/pnas.1812526115  1
2018 Gerbasi VR, Browne CM, Samir P, Shen B, Sun M, Hazelbaker DZ, Galassie AC, Frank J, Link AJ. Critical Role for Saccharomyces cerevisiae Asc1p in Translational Initiation at Elevated Temperatures. Proteomics. e1800208. PMID 30285306 DOI: 10.1002/pmic.201800208  1
2018 Wang J, Liu Z, Crabtree RH, Frank J, Moore PB. On the damage done to the structure of the T. acidophilum proteasome by electron radiation. Protein Science : a Publication of the Protein Society. PMID 30242932 DOI: 10.1002/pro.3511  1
2018 Siegmund SE, Grassucci R, Carter SD, Barca E, Farino ZJ, Juanola-Falgarona M, Zhang P, Tanji K, Hirano M, Schon EA, Frank J, Freyberg Z. Three-Dimensional Analysis of Mitochondrial Crista Ultrastructure in a Patient with Leigh Syndrome by In Situ Cryoelectron Tomography. Iscience. 6: 83-91. PMID 30240627 DOI: 10.1016/j.isci.2018.07.014  1
2018 Samir P, Brown CM, Rahul R, Sun M, Shen B, Li W, Frank J, Link AJ. Identification of Changing Ribosome Protein Compositions using Mass Spectrometry. Proteomics. e1800217. PMID 30211483 DOI: 10.1002/pmic.201800217  1
2018 Wang J, Liu Z, Frank J, Moore PB. Identification of ions in experimental electrostatic potential maps. Iucrj. 5: 375-381. PMID 30002838 DOI: 10.1107/S2052252518006292  1
2018 Frank J. Single-Particle Reconstruction of Biological Molecules-Story in a Sample (Nobel Lecture). Angewandte Chemie (International Ed. in English). PMID 29978534 DOI: 10.1002/anie.201802770  0.01
2018 Jobe A, Liu Z, Gutierrez-Vargas C, Frank J. New Insights into Ribosome Structure and Function. Cold Spring Harbor Perspectives in Biology. PMID 29903714 DOI: 10.1101/cshperspect.a032615  1
2018 Fislage M, Zhang J, Brown ZP, Mandava CS, Sanyal S, Ehrenberg M, Frank J. Cryo-EM shows stages of initial codon selection on the ribosome by aa-tRNA in ternary complex with GTP and the GTPase-deficient EF-TuH84A. Nucleic Acids Research. PMID 29733411 DOI: 10.1093/nar/gky346  1
2018 Kaledhonkar S, Fu Z, White H, Frank J. Time-Resolved Cryo-electron Microscopy Using a Microfluidic Chip. Methods in Molecular Biology (Clifton, N.J.). 1764: 59-71. PMID 29605908 DOI: 10.1007/978-1-4939-7759-8_4  1
2018 Hashem Y, Frank J. The Jigsaw Puzzle of mRNA Translation Initiation in Eukaryotes: A Decade of Structures Unraveling the Mechanics of the Process. Annual Review of Biophysics. PMID 29494255 DOI: 10.1146/annurev-biophys-070816-034034  1
2018 Santulli G, Lewis D, des Georges A, Marks AR, Frank J. Ryanodine Receptor Structure and Function in Health and Disease. Sub-Cellular Biochemistry. 87: 329-352. PMID 29464565 DOI: 10.1007/978-981-10-7757-9_11  1
2018 Frank J. New Opportunities Created by Single-Particle Cryo-EM: The Mapping of Conformational Space. Biochemistry. PMID 29368918 DOI: 10.1021/acs.biochem.8b00064  0.01
2017 Twomey EC, Yelshanskaya MV, Grassucci RA, Frank J, Sobolevsky AI. Channel opening and gating mechanism in AMPA-subtype glutamate receptors. Nature. PMID 28737760 DOI: 10.1038/nature23479  1
2017 Frank J. Time-resolved Cryo-Electron Microscopy: Recent Progress. Journal of Structural Biology. PMID 28625887 DOI: 10.1016/j.jsb.2017.06.005  0.01
2017 Twomey EC, Yelshanskaya MV, Grassucci RA, Frank J, Sobolevsky AI. Structural Bases of Desensitization in AMPA Receptor-Auxiliary Subunit Complexes. Neuron. 94: 569-580.e5. PMID 28472657 DOI: 10.1016/j.neuron.2017.04.025  1
2017 Frank J. The mechanism of translation. F1000research. 6: 198. PMID 28344776 DOI: 10.12688/f1000research.9760.1  0.01
2017 Feng X, Fu Z, Kaledhonkar S, Jia Y, Shah B, Jin A, Liu Z, Sun M, Chen B, Grassucci RA, Ren Y, Jiang H, Frank J, Lin Q. A Fast and Effective Microfluidic Spraying-Plunging Method for High-Resolution Single-Particle Cryo-EM. Structure (London, England : 1993). PMID 28286002 DOI: 10.1016/j.str.2017.02.005  1
2017 Maji S, Shahoei R, Schulten K, Frank J. Quantitative Characterization of Domain Motions in Molecular Machines. The Journal of Physical Chemistry. B. PMID 28199113 DOI: 10.1021/acs.jpcb.6b10732  1
2017 Malyutin AG, Musalgaonkar S, Patchett S, Frank J, Johnson AW. Nmd3 is a structural mimic of eIF5A, and activates the cpGTPase Lsg1 during 60S ribosome biogenesis. The Embo Journal. PMID 28179369 DOI: 10.15252/embj.201696012  1
2017 Frank J. The translation elongation cycle-capturing multiple states by cryo-electron microscopy. Philosophical Transactions of the Royal Society of London. Series B, Biological Sciences. 372. PMID 28138066 DOI: 10.1098/rstb.2016.0180  0.01
2017 Frank J. Advances in the field of single-particle cryo-electron microscopy over the last decade. Nature Protocols. 12: 209-212. PMID 28055037 DOI: 10.1038/nprot.2017.004  0.01
2016 Fu Z, Kaledhonkar S, Borg A, Sun M, Chen B, Grassucci RA, Ehrenberg M, Frank J. Key Intermediates in Ribosome Recycling Visualized by Time-Resolved Cryoelectron Microscopy. Structure (London, England : 1993). PMID 27818103 DOI: 10.1016/j.str.2016.09.014  1
2016 Liu Z, Gutierrez-Vargas C, Wei J, Grassucci RA, Ramesh M, Espina N, Sun M, Tutuncuoglu B, Madison-Antenucci S, Woolford JL, Tong L, Frank J. Structure and assembly model for the Trypanosoma cruzi 60S ribosomal subunit. Proceedings of the National Academy of Sciences of the United States of America. 113: 12174-12179. PMID 27791004 DOI: 10.1073/pnas.1614594113  1
2016 Liu Z, Gutierrez-Vargas C, Wei J, Grassucci RA, Espina N, Madison-Antenucci S, Tong L, Frank J. Determination of the ribosome structure to a resolution of 2.5 Å by single-particle cryo-EM. Protein Science : a Publication of the Protein Society. PMID 27750394 DOI: 10.1002/pro.3068  1
2016 des Georges A, Clarke OB, Zalk R, Yuan Q, Condon KJ, Grassucci RA, Hendrickson WA, Marks AR, Frank J. Structural Basis for Gating and Activation of RyR1. Cell. 167: 145-157.e17. PMID 27662087 DOI: 10.1016/j.cell.2016.08.075  1
2016 Chen Y, Clarke OB, Kim J, Stowe S, Kim YK, Assur Z, Cavalier M, Godoy-Ruiz R, von Alpen DC, Manzini C, Blaner WS, Frank J, Quadro L, Weber DJ, Shapiro L, et al. Structure of the STRA6 receptor for retinol uptake. Science (New York, N.Y.). 353. PMID 27563101 DOI: 10.1126/science.aad8266  1
2016 Twomey EC, Yelshanskaya MV, Grassucci RA, Frank J, Sobolevsky AI. Elucidation of AMPA receptor-stargazin complexes by cryo-electron microscopy. Science (New York, N.Y.). 353: 83-6. PMID 27365450 DOI: 10.1126/science.aaf8411  1
2016 Frank J. Whither ribosome structure and dynamics research? (A Perspective). Journal of Molecular Biology. PMID 27178840 DOI: 10.1016/j.jmb.2016.04.034  1
2016 Frank J, Ourmazd A. Continuous Changes in Structure Mapped by Manifold Embedding of Single-Particle Data in Cryo-EM. Methods (San Diego, Calif.). PMID 26884261 DOI: 10.1016/j.ymeth.2016.02.007  1
2015 Frank J. Generalized single-particle cryo-EM - a historical perspective. Microscopy (Oxford, England). PMID 26566976 DOI: 10.1093/jmicro/dfv358  0.01
2015 Chen B, Frank J. Two promising future developments of cryo-EM: capturing short-lived states and mapping a continuum of states of a macromolecule. Microscopy (Oxford, England). PMID 26520784 DOI: 10.1093/jmicro/dfv344  1
2015 Sun M, Li W, Blomqvist K, Das S, Hashem Y, Dvorin JD, Frank J. Dynamical features of the Plasmodium falciparum ribosome during translation. Nucleic Acids Research. PMID 26432834 DOI: 10.1093/nar/gkv991  1
2015 des Georges A, Dhote V, Kuhn L, Hellen CU, Pestova TV, Frank J, Hashem Y. Structure of mammalian eIF3 in the context of the 43S preinitiation complex. Nature. 525: 491-5. PMID 26344199 DOI: 10.1038/nature14891  1
2015 Li W, Liu Z, Koripella RK, Langlois R, Sanyal S, Frank J. Activation of GTP hydrolysis in mRNA-tRNA translocation by elongation factor G. Science Advances. 1. PMID 26229983 DOI: 10.1126/sciadv.1500169  1
2015 Chen B, Kaledhonkar S, Sun M, Shen B, Lu Z, Barnard D, Lu TM, Gonzalez RL, Frank J. Structural dynamics of ribosome subunit association studied by mixing-spraying time-resolved cryogenic electron microscopy. Structure (London, England : 1993). 23: 1097-105. PMID 26004440 DOI: 10.1016/j.str.2015.04.007  1
2015 Liao HY, Hashem Y, Frank J. Efficient estimation of three-dimensional covariance and its application in the analysis of heterogeneous samples in cryo-electron microscopy. Structure (London, England : 1993). 23: 1129-37. PMID 25982529 DOI: 10.1016/j.str.2015.04.004  1
2015 Marabini R, Carragher B, Chen S, Chen J, Cheng A, Downing KH, Frank J, Grassucci RA, Bernard Heymann J, Jiang W, Jonic S, Liao HY, Ludtke SJ, Patwari S, Piotrowski AL, et al. CTF Challenge: Result summary. Journal of Structural Biology. 190: 348-59. PMID 25913484 DOI: 10.1016/j.jsb.2015.04.003  1
2015 Kinz-Thompson CD, Sharma AK, Frank J, Gonzalez RL, Chowdhury D. Quantitative Connection between Ensemble Thermodynamics and Single-Molecule Kinetics: A Case Study Using Cryogenic Electron Microscopy and Single-Molecule Fluorescence Resonance Energy Transfer Investigations of the Ribosome. The Journal of Physical Chemistry. B. PMID 25785884 DOI: 10.1021/jp5128805  1
2015 Zalk R, Clarke OB, des Georges A, Grassucci RA, Reiken S, Mancia F, Hendrickson WA, Frank J, Marks AR. Structure of a mammalian ryanodine receptor. Nature. 517: 44-9. PMID 25470061 DOI: 10.1038/nature13950  1
2015 Langlois R, Frank J. Corrigendum to "A clarification of the terms used in comparing semi-automated particle selection algorithms in cryo-EM" [J. Struct. Biol. 175 (2011) 348-352] 10.1016/j.jsb.2015.01.007 Journal of Structural Biology. 189: 281. DOI: 10.1016/j.jsb.2015.01.007  1
2014 Chen B, Shen B, Frank J. Particle migration analysis in iterative classification of cryo-EM single-particle data. Journal of Structural Biology. 188: 267-73. PMID 25449317 DOI: 10.1016/j.jsb.2014.10.006  1
2014 Dashti A, Schwander P, Langlois R, Fung R, Li W, Hosseinizadeh A, Liao HY, Pallesen J, Sharma G, Stupina VA, Simon AE, Dinman JD, Frank J, Ourmazd A. Trajectories of the ribosome as a Brownian nanomachine. Proceedings of the National Academy of Sciences of the United States of America. 111: 17492-7. PMID 25422471 DOI: 10.1073/pnas.1419276111  1
2014 Langlois R, Pallesen J, Ash JT, Nam Ho D, Rubinstein JL, Frank J. Automated particle picking for low-contrast macromolecules in cryo-electron microscopy. Journal of Structural Biology. 186: 1-7. PMID 24607413 DOI: 10.1016/j.jsb.2014.03.001  1
2014 Boël G, Smith PC, Ning W, Englander MT, Chen B, Hashem Y, Testa AJ, Fischer JJ, Wieden HJ, Frank J, Gonzalez RL, Hunt JF. The ABC-F protein EttA gates ribosome entry into the translation elongation cycle. Nature Structural & Molecular Biology. 21: 143-51. PMID 24389466 DOI: 10.1038/nsmb.2740  1
2014 Chen B, Boël G, Hashem Y, Ning W, Fei J, Wang C, Gonzalez RL, Hunt JF, Frank J. EttA regulates translation by binding the ribosomal E site and restricting ribosome-tRNA dynamics. Nature Structural & Molecular Biology. 21: 152-9. PMID 24389465 DOI: 10.1038/nsmb.2741  1
2014 des Georges A, Hashem Y, Unbehaun A, Grassucci RA, Taylor D, Hellen CU, Pestova TV, Frank J. Structure of the mammalian ribosomal pre-termination complex associated with eRF1.eRF3.GDPNP. Nucleic Acids Research. 42: 3409-18. PMID 24335085 DOI: 10.1093/nar/gkt1279  1
2013 Hashem Y, des Georges A, Dhote V, Langlois R, Liao HY, Grassucci RA, Pestova TV, Hellen CU, Frank J. Hepatitis-C-virus-like internal ribosome entry sites displace eIF3 to gain access to the 40S subunit. Nature. 503: 539-43. PMID 24185006 DOI: 10.1038/nature12658  1
2013 Pallesen J, Hashem Y, Korkmaz G, Koripella RK, Huang C, Ehrenberg M, Sanyal S, Frank J. Cryo-EM visualization of the ribosome in termination complex with apo-RF3 and RF1. Elife. 2: e00411. PMID 23755360 DOI: 10.7554/eLife.00411  1
2013 Hashem Y, des Georges A, Dhote V, Langlois R, Liao HY, Grassucci RA, Hellen CU, Pestova TV, Frank J. Structure of the mammalian ribosomal 43S preinitiation complex bound to the scanning factor DHX29. Cell. 153: 1108-19. PMID 23706745 DOI: 10.1016/j.cell.2013.04.036  1
2013 Frank J. Story in a sample-the potential (and limitations) of cryo-electron microscopy applied to molecular machines. Biopolymers. 99: 832-6. PMID 23640776 DOI: 10.1002/bip.22274  1
2013 Li W, Atkinson GC, Thakor NS, Allas U, Lu CC, Chan KY, Tenson T, Schulten K, Wilson KS, Hauryliuk V, Frank J. Mechanism of tetracycline resistance by ribosomal protection protein Tet(O). Nature Communications. 4: 1477. PMID 23403578 DOI: 10.1038/ncomms2470  1
2013 Hashem Y, des Georges A, Fu J, Buss SN, Jossinet F, Jobe A, Zhang Q, Liao HY, Grassucci RA, Bajaj C, Westhof E, Madison-Antenucci S, Frank J. High-resolution cryo-electron microscopy structure of the Trypanosoma brucei ribosome. Nature. 494: 385-9. PMID 23395961 DOI: 10.1080/07391102.2013.786464  1
2013 Sharma G, Pallesen J, Das S, Grassucci R, Langlois R, Hampton CM, Kelly DF, des Georges A, Frank J. Affinity grid-based cryo-EM of PKC binding to RACK1 on the ribosome. Journal of Structural Biology. 181: 190-4. PMID 23228487 DOI: 10.1016/j.jsb.2012.11.006  1
2012 Taylor D, Unbehaun A, Li W, Das S, Lei J, Liao HY, Grassucci RA, Pestova TV, Frank J. Cryo-EM structure of the mammalian eukaryotic release factor eRF1-eRF3-associated termination complex. Proceedings of the National Academy of Sciences of the United States of America. 109: 18413-8. PMID 23091004 DOI: 10.1073/pnas.1216730109  1
2012 Frank J. Intermediate states during mRNA-tRNA translocation. Current Opinion in Structural Biology. 22: 778-85. PMID 22906732 DOI: 10.1016/j.sbi.2012.08.001  1
2012 Bussiere C, Hashem Y, Arora S, Frank J, Johnson AW. Integrity of the P-site is probed during maturation of the 60S ribosomal subunit Journal of Cell Biology. 197: 747-759. PMID 22689654 DOI: 10.1083/jcb.201112131  1
2012 Agirrezabala X, Liao HY, Schreiner E, Fu J, Ortiz-Meoz RF, Schulten K, Green R, Frank J. Structural characterization of mRNA-tRNA translocation intermediates. Proceedings of the National Academy of Sciences of the United States of America. 109: 6094-9. PMID 22467828 DOI: 10.1073/pnas.1201288109  1
2012 Henderson R, Sali A, Baker ML, Carragher B, Devkota B, Downing KH, Egelman EH, Feng Z, Frank J, Grigorieff N, Jiang W, Ludtke SJ, Medalia O, Penczek PA, Rosenthal PB, et al. Outcome of the first electron microscopy validation task force meeting. Structure (London, England : 1993). 20: 205-14. PMID 22325770 DOI: 10.1016/j.str.2011.12.014  1
2011 Langlois R, Pallesen J, Frank J. Reference-free particle selection enhanced with semi-supervised machine learning for cryo-electron microscopy. Journal of Structural Biology. 175: 353-61. PMID 21708269 DOI: 10.1016/j.jsb.2011.06.004  1
2011 Fu J, Hashem Y, Wower J, Frank J. tmRNA on its way through the ribosome: two steps of resume, and what next? Rna Biology. 8: 586-90. PMID 21593606 DOI: 10.4161/rna.8.4.15585  1
2011 Langlois R, Frank J. A clarification of the terms used in comparing semi-automated particle selection algorithms in cryo-EM. Journal of Structural Biology. 175: 348-52. PMID 21420497 DOI: 10.1016/j.jsb.2011.03.009  1
2011 Fu J, Munro JB, Blanchard SC, Frank J. Cryoelectron microscopy structures of the ribosome complex in intermediate states during tRNA translocation. Proceedings of the National Academy of Sciences of the United States of America. 108: 4817-21. PMID 21383139 DOI: 10.1073/pnas.1101503108  1
2011 Agirrezabala X, Schreiner E, Trabuco LG, Lei J, Ortiz-Meoz RF, Schulten K, Green R, Frank J. Structural insights into cognate versus near-cognate discrimination during decoding. The Embo Journal. 30: 1497-507. PMID 21378755 DOI: 10.1038/emboj.2011.58  1
2011 Li W, Trabuco LG, Schulten K, Frank J. Molecular dynamics of EF-G during translocation. Proteins. 79: 1478-86. PMID 21365677 DOI: 10.1002/prot.22976  1
2011 Huang T, Shaikh TR, Gupta K, Contreras-Martin LM, Grassucci RA, Van Duyne GD, Frank J, Belfort M. The group II intron ribonucleoprotein precursor is a large, loosely packed structure Nucleic Acids Research. 39: 2845-2854. PMID 21131279 DOI: 10.1093/nar/gkq1202  1
2011 Frank J. Visualization of molecular machines by cryo-electron microscopy Molecular Machines in Biology: Workshop of the Cell. 20-37. DOI: 10.1017/CBO9781139003704.004  1
2011 Frank J. Introduction Molecular Machines in Biology: Workshop of the Cell. 1-3. DOI: 10.1017/CBO9781139003704.002  1
2011 Frank J. Preface Molecular Machines in Biology: Workshop of the Cell. xiii-xiv. DOI: 10.1017/CBO9781139003704.001  1
2011 Frank J. Molecular machines in biology: Workshop of the cell Molecular Machines in Biology: Workshop of the Cell. 1-282. DOI: 10.1017/CBO9781139003704  1
2010 Frank J. The Ribosome Comes Alive. Israel Journal of Chemistry. 50: 95-98. PMID 21072331 DOI: 10.1002/ijch.201000010  1
2010 Fu J, Hashem Y, Wower I, Lei J, Liao HY, Zwieb C, Wower J, Frank J. Visualizing the transfer-messenger RNA as the ribosome resumes translation. The Embo Journal. 29: 3819-25. PMID 20940705 DOI: 10.1038/emboj.2010.255  1
2010 Liao HY, Frank J. CLASSIFICATION BY BOOTSTRAPPING IN SINGLE PARTICLE METHODS. Proceedings / Ieee International Symposium On Biomedical Imaging: From Nano to Macro. Ieee International Symposium On Biomedical Imaging. 2010: 169-172. PMID 20729994 DOI: 10.1109/ISBI.2010.5490386  1
2010 Liao HY, Frank J. Definition and estimation of resolution in single-particle reconstructions. Structure (London, England : 1993). 18: 768-75. PMID 20637413 DOI: 10.1016/j.str.2010.05.008  1
2010 Sengupta J, Bussiere C, Pallesen J, West M, Johnson AW, Frank J. Characterization of the nuclear export adaptor protein Nmd3 in association with the 60S ribosomal subunit. The Journal of Cell Biology. 189: 1079-86. PMID 20584915 DOI: 10.1083/jcb.201001124  1
2010 Agirrezabala X, Frank J. From DNA to proteins via the ribosome: structural insights into the workings of the translation machinery. Human Genomics. 4: 226-37. PMID 20511136 DOI: 10.1186/1479-7364-4-4-226  1
2010 Frank J, Gonzalez RL. Structure and dynamics of a processive Brownian motor: the translating ribosome. Annual Review of Biochemistry. 79: 381-412. PMID 20235828 DOI: 10.1146/annurev-biochem-060408-173330  1
2010 Réblová K, Rázga F, Li W, Gao H, Frank J, Sponer J. Dynamics of the base of ribosomal A-site finger revealed by molecular dynamics simulations and Cryo-EM. Nucleic Acids Research. 38: 1325-40. PMID 19952067 DOI: 10.1093/nar/gkp1057  1
2010 Frank J. Three-Dimensional Electron Microscopy of Macromolecular Assemblies: Visualization of Biological Molecules in Their Native State Three-Dimensional Electron Microscopy of Macromolecular Assemblies: Visualization of Biological Molecules in Their Native State. 1-456. DOI: 10.1093/acprof:oso/9780195182187.001.0001  1
2009 Agirrezabala X, Frank J. Elongation in translation as a dynamic interaction among the ribosome, tRNA, and elongation factors EF-G and EF-Tu. Quarterly Reviews of Biophysics. 42: 159-200. PMID 20025795 DOI: 10.1017/S0033583509990060  1
2009 Frank J. Single-particle reconstruction of biological macromolecules in electron microscopy--30 years. Quarterly Reviews of Biophysics. 42: 139-58. PMID 20025794 DOI: 10.1017/S0033583509990059  1
2009 Taylor DJ, Devkota B, Huang AD, Topf M, Narayanan E, Sali A, Harvey SC, Frank J. Comprehensive molecular structure of the eukaryotic ribosome. Structure (London, England : 1993). 17: 1591-604. PMID 20004163 DOI: 10.1016/j.str.2009.09.015  1
2009 Sorci M, Grassucci RA, Hahn I, Frank J, Belfort G. Time-dependent insulin oligomer reaction pathway prior to fibril formation: cooling and seeding. Proteins. 77: 62-73. PMID 19408310 DOI: 10.1002/prot.22417  1
2009 Baxter WT, Grassucci RA, Gao H, Frank J. Determination of signal-to-noise ratios and spectral SNRs in cryo-EM low-dose imaging of molecules. Journal of Structural Biology. 166: 126-32. PMID 19269332 DOI: 10.1016/j.jsb.2009.02.012  1
2009 Shi Y, Di Giammartino DC, Taylor D, Sarkeshik A, Rice WJ, Yates JR, Frank J, Manley JL. Molecular architecture of the human pre-mRNA 3' processing complex. Molecular Cell. 33: 365-76. PMID 19217410 DOI: 10.1016/j.molcel.2008.12.028  1
2009 Villa E, Sengupta J, Trabuco LG, LeBarron J, Baxter WT, Shaikh TR, Grassucci RA, Nissen P, Ehrenberg M, Schulten K, Frank J. Ribosome-induced changes in elongation factor Tu conformation control GTP hydrolysis. Proceedings of the National Academy of Sciences of the United States of America. 106: 1063-8. PMID 19122150 DOI: 10.1073/pnas.0811370106  1
2009 Renken C, Hsieh CE, Marko M, Rath B, Leith A, Wagenknecht T, Frank J, Mannella CA. Structure of frozen-hydrated triad junctions: a case study in motif searching inside tomograms. Journal of Structural Biology. 165: 53-63. PMID 19028586 DOI: 10.1016/j.jsb.2008.09.011  1
2008 Frank J. Under the Rug, or a Plea for the Lighter Touch. Journal of Structural Biology. 163: 270. PMID 19255612 DOI: 10.1016/j.jsb.2008.03.014  1
2008 Shaikh TR, Gao H, Baxter WT, Asturias FJ, Boisset N, Leith A, Frank J. SPIDER image processing for single-particle reconstruction of biological macromolecules from electron micrographs. Nature Protocols. 3: 1941-74. PMID 19180078 DOI: 10.1038/nprot.2008.156  1
2008 Li W, Agirrezabala X, Lei J, Bouakaz L, Brunelle JL, Ortiz-Meoz RF, Green R, Sanyal S, Ehrenberg M, Frank J. Recognition of aminoacyl-tRNA: a common molecular mechanism revealed by cryo-EM. The Embo Journal. 27: 3322-31. PMID 19020518 DOI: 10.1038/emboj.2008.243  1
2008 Agirrezabala X, Lei J, Brunelle JL, Ortiz-Meoz RF, Green R, Frank J. Visualization of the hybrid state of tRNA binding promoted by spontaneous ratcheting of the ribosome. Molecular Cell. 32: 190-7. PMID 18951087 DOI: 10.1016/j.molcel.2008.10.001  1
2008 Sengupta J, Nilsson J, Gursky R, Kjeldgaard M, Nissen P, Frank J. Visualization of the eEF2-80S ribosome transition-state complex by cryo-electron microscopy. Journal of Molecular Biology. 382: 179-87. PMID 18644383 DOI: 10.1016/j.jmb.2008.07.004  1
2008 Shaikh TR, Trujillo R, LeBarron JS, Baxter WT, Frank J. Particle-verification for single-particle, reference-based reconstruction using multivariate data analysis and classification. Journal of Structural Biology. 164: 41-8. PMID 18619547 DOI: 10.1016/j.jsb.2008.06.006  1
2008 LeBarron J, Grassucci RA, Shaikh TR, Baxter WT, Sengupta J, Frank J. Exploration of parameters in cryo-EM leading to an improved density map of the E. coli ribosome. Journal of Structural Biology. 164: 24-32. PMID 18606549 DOI: 10.1016/j.jsb.2008.05.007  1
2008 Trabuco LG, Villa E, Mitra K, Frank J, Schulten K. Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics. Structure (London, England : 1993). 16: 673-83. PMID 18462672 DOI: 10.1016/j.str.2008.03.005  1
2008 Grassucci RA, Taylor D, Frank J. Visualization of macromolecular complexes using cryo-electron microscopy with FEI Tecnai transmission electron microscopes. Nature Protocols. 3: 330-9. PMID 18274535 DOI: 10.1038/nprot.2007.474  1
2007 Grassucci RA, Taylor DJ, Frank J. Preparation of macromolecular complexes for cryo-electron microscopy. Nature Protocols. 2: 3239-46. PMID 18079724 DOI: 10.1038/nprot.2007.452  1
2007 Frank J, Gao H, Sengupta J, Gao N, Taylor DJ. The process of mRNA-tRNA translocation. Proceedings of the National Academy of Sciences of the United States of America. 104: 19671-8. PMID 18003906 DOI: 10.1073/pnas.0708517104  1
2007 Gao N, Zavialov AV, Ehrenberg M, Frank J. Specific interaction between EF-G and RRF and its implication for GTP-dependent ribosome splitting into subunits. Journal of Molecular Biology. 374: 1345-58. PMID 17996252 DOI: 10.1016/j.jmb.2007.10.021  1
2007 Li W, Frank J. Transfer RNA in the hybrid P/E state: correlating molecular dynamics simulations with cryo-EM data. Proceedings of the National Academy of Sciences of the United States of America. 104: 16540-5. PMID 17925437 DOI: 10.1073/pnas.0708094104  1
2007 Gao H, Zhou Z, Rawat U, Huang C, Bouakaz L, Wang C, Cheng Z, Liu Y, Zavialov A, Gursky R, Sanyal S, Ehrenberg M, Frank J, Song H. RF3 induces ribosomal conformational changes responsible for dissociation of class I release factors. Cell. 129: 929-41. PMID 17540173 DOI: 10.1016/j.cell.2007.03.050  1
2007 Taylor DJ, Nilsson J, Merrill AR, Andersen GR, Nissen P, Frank J. Structures of modified eEF2 80S ribosome complexes reveal the role of GTP hydrolysis in translocation. The Embo Journal. 26: 2421-31. PMID 17446867 DOI: 10.1038/sj.emboj.7601677  1
2007 Nilsson J, Sengupta J, Gursky R, Nissen P, Frank J. Comparison of fungal 80 S ribosomes by cryo-EM reveals diversity in structure and conformation of rRNA expansion segments. Journal of Molecular Biology. 369: 429-38. PMID 17434183 DOI: 10.1016/j.jmb.2007.03.035  1
2007 Marko M, Hsieh C, Schalek R, Frank J, Mannella C. Focused-ion-beam thinning of frozen-hydrated biological specimens for cryo-electron microscopy. Nature Methods. 4: 215-7. PMID 17277781 DOI: 10.1038/nmeth1014  1
2007 Allen GS, Frank J. Structural insights on the translation initiation complex: ghosts of a universal initiation complex. Molecular Microbiology. 63: 941-50. PMID 17238926 DOI: 10.1111/j.1365-2958.2006.05574.x  1
2007 Scheres SH, Gao H, Valle M, Herman GT, Eggermont PP, Frank J, Carazo JM. Disentangling conformational states of macromolecules in 3D-EM through likelihood optimization. Nature Methods. 4: 27-9. PMID 17179934 DOI: 10.1038/nmeth992  1
2007 Gillet R, Kaur S, Li W, Hallier M, Felden B, Frank J. Scaffolding as an organizing principle in trans-translation. The roles of small protein B and ribosomal protein S1. The Journal of Biological Chemistry. 282: 6356-63. PMID 17179154 DOI: 10.1074/jbc.M609658200  1
2007 LeBarron J, Mitra K, Frank J. Displaying 3D data on RNA secondary structures: coloRNA. Journal of Structural Biology. 157: 262-70. PMID 17070699 DOI: 10.1016/j.jsb.2006.08.018  1
2007 Baxter WT, Leith A, Frank J. SPIRE: the SPIDER reconstruction engine. Journal of Structural Biology. 157: 56-63. PMID 17055743 DOI: 10.1016/j.jsb.2006.07.019  1
2007 Fu J, Gao H, Frank J. Unsupervised classification of single particles by cluster tracking in multi-dimensional space. Journal of Structural Biology. 157: 226-39. PMID 16931050 DOI: 10.1016/j.jsb.2006.06.012  1
2007 Yang C, Penczek PA, Leith A, Asturias FJ, Ng EG, Glaeser RM, Frank J. The parallelization of SPIDER on distributed-memory computers using MPI Journal of Structural Biology. 157: 240-249. PMID 16859923 DOI: 10.1016/j.jsb.2006.05.011  1
2007 Sorci M, Nayak A, Lee CC, McRae GJ, Grassucci R, Hahn I, Frank J, Belfort G. Memory and reversibility of insulin oligomers Aiche Annual Meeting, Conference Proceedings 1
2006 Mitra K, Frank J, Driessen A. Co- and post-translational translocation through the protein-conducting channel: analogous mechanisms at work? Nature Structural & Molecular Biology. 13: 957-64. PMID 17082791 DOI: 10.1038/nsmb1166  1
2006 Kaur S, Gillet R, Li W, Gursky R, Frank J. Cryo-EM visualization of transfer messenger RNA with two SmpBs in a stalled ribosome. Proceedings of the National Academy of Sciences of the United States of America. 103: 16484-9. PMID 17056712 DOI: 10.1073/pnas.0607438103  1
2006 Berman HM, Burley SK, Chiu W, Sali A, Adzhubei A, Bourne PE, Bryant SH, Dunbrack RL, Fidelis K, Frank J, Godzik A, Henrick K, Joachimiak A, Heymann B, Jones D, et al. Outcome of a Workshop on Archiving Structural Models of Biological Macromolecules Structure. 14: 1211-1217. PMID 16955948 DOI: 10.1016/j.str.2006.06.005  1
2006 Slagter-Jäger JG, Allen GS, Smith D, Hahn IA, Frank J, Belfort M. Visualization of a group II intron in the 23S rRNA of a stable ribosome. Proceedings of the National Academy of Sciences of the United States of America. 103: 9838-43. PMID 16785426 DOI: 10.1073/pnas.0603956103  1
2006 Mitra K, Frank J. A model for co-translational translocation: ribosome-regulated nascent polypeptide translocation at the protein-conducting channel. Febs Letters. 580: 3353-60. PMID 16714018 DOI: 10.1016/j.febslet.2006.05.019  1
2006 Mitra K, Schaffitzel C, Fabiola F, Chapman MS, Ban N, Frank J. Elongation arrest by SecM via a cascade of ribosomal RNA rearrangements. Molecular Cell. 22: 533-43. PMID 16713583 DOI: 10.1016/j.molcel.2006.05.003  1
2006 Mitra K, Frank J. Ribosome dynamics: insights from atomic structure modeling into cryo-electron microscopy maps. Annual Review of Biophysics and Biomolecular Structure. 35: 299-317. PMID 16689638 DOI: 10.1146/annurev.biophys.35.040405.101950  1
2006 Li W, Sengupta J, Rath BK, Frank J. Functional conformations of the L11-ribosomal RNA complex revealed by correlative analysis of cryo-EM and molecular dynamics simulations. Rna (New York, N.Y.). 12: 1240-53. PMID 16682558 DOI: 10.1261/rna.2294806  1
2006 Gao N, Frank J. A library of RNA bridges. Nature Chemical Biology. 2: 231-2. PMID 16619019 DOI: 10.1038/nchembio0506-231  1
2006 Penczek PA, Frank J, Spahn CM. A method of focused classification, based on the bootstrap 3D variance analysis, and its application to EF-G-dependent translocation. Journal of Structural Biology. 154: 184-94. PMID 16520062 DOI: 10.1016/j.jsb.2005.12.013  1
2006 Penczek PA, Yang C, Frank J, Spahn CM. Estimation of variance in single-particle reconstruction using the bootstrap technique. Journal of Structural Biology. 154: 168-83. PMID 16510296 DOI: 10.1016/j.jsb.2006.01.003  1
2006 Rawat U, Gao H, Zavialov A, Gursky R, Ehrenberg M, Frank J. Interactions of the release factor RF1 with the ribosome as revealed by cryo-EM. Journal of Molecular Biology. 357: 1144-53. PMID 16476444 DOI: 10.1016/j.jmb.2006.01.038  1
2006 Hsieh CE, Leith A, Mannella CA, Frank J, Marko M. Towards high-resolution three-dimensional imaging of native mammalian tissue: electron tomography of frozen-hydrated rat liver sections. Journal of Structural Biology. 153: 1-13. PMID 16343943 DOI: 10.1016/j.jsb.2005.10.004  1
2006 Penczek PA, Frank J. Resolution in electron tomography Electron Tomography: Methods For Three-Dimensional Visualization of Structures in the Cell. 307-330. DOI: 10.1007/978-0-387-69008-7_11  1
2006 Frank J. Introduction: Principles of electron tomography Electron Tomography: Methods For Three-Dimensional Visualization of Structures in the Cell. 1-15. DOI: 10.1007/978-0-387-69008-7_1  1
2005 Datta PP, Sharma MR, Qi L, Frank J, Agrawal RK. Interaction of the G' domain of elongation factor G and the C-terminal domain of ribosomal protein L7/L12 during translocation as revealed by cryo-EM. Molecular Cell. 20: 723-31. PMID 16337596 DOI: 10.1016/j.molcel.2005.10.028  1
2005 Adiga U, Baxter WT, Hall RJ, Rockel B, Rath BK, Frank J, Glaeser R. Particle picking by segmentation: a comparative study with SPIDER-based manual particle picking. Journal of Structural Biology. 152: 211-20. PMID 16330229 DOI: 10.1016/j.jsb.2005.09.007  1
2005 Mitra K, Schaffitzel C, Shaikh T, Tama F, Jenni S, Brooks CL, Ban N, Frank J. Structure of the E. coli protein-conducting channel bound to a translating ribosome. Nature. 438: 318-24. PMID 16292303 DOI: 10.1038/nature04133  1
2005 Gao H, Ayub MJ, Levin MJ, Frank J. The structure of the 80S ribosome from Trypanosoma cruzi reveals unique rRNA components. Proceedings of the National Academy of Sciences of the United States of America. 102: 10206-11. PMID 16014419 DOI: 10.1073/pnas.0500926102  1
2005 Gao N, Zavialov AV, Li W, Sengupta J, Valle M, Gursky RP, Ehrenberg M, Frank J. Mechanism for the disassembly of the posttermination complex inferred from cryo-EM studies. Molecular Cell. 18: 663-74. PMID 15949441 DOI: 10.1016/j.molcel.2005.05.005  1
2005 Allen GS, Zavialov A, Gursky R, Ehrenberg M, Frank J. The cryo-EM structure of a translation initiation complex from Escherichia coli. Cell. 121: 703-12. PMID 15935757 DOI: 10.1016/j.cell.2005.03.023  1
2005 Halic M, Becker T, Frank J, Spahn CM, Beckmann R. Localization and dynamic behavior of ribosomal protein L30e. Nature Structural & Molecular Biology. 12: 467-8. PMID 15864315 DOI: 10.1038/nsmb933  1
2005 Lei J, Frank J. Automated acquisition of cryo-electron micrographs for single particle reconstruction on an FEI Tecnai electron microscope. Journal of Structural Biology. 150: 69-80. PMID 15797731 DOI: 10.1016/j.jsb.2005.01.002  1
2005 Gao H, Frank J. Molding atomic structures into intermediate-resolution cryo-EM density maps of ribosomal complexes using real-space refinement. Structure (London, England : 1993). 13: 401-6. PMID 15766541 DOI: 10.1016/j.str.2005.01.004  1
2005 Frank J, Sengupta J, Gao H, Li W, Valle M, Zavialov A, Ehrenberg M. The role of tRNA as a molecular spring in decoding, accommodation, and peptidyl transfer. Febs Letters. 579: 959-62. PMID 15680982 DOI: 10.1016/j.febslet.2004.10.105  1
2004 Nilsson J, Sengupta J, Frank J, Nissen P. Regulation of eukaryotic translation by the RACK1 protein: a platform for signalling molecules on the ribosome. Embo Reports. 5: 1137-41. PMID 15577927 DOI: 10.1038/sj.embor.7400291  1
2004 Gao H, Valle M, Ehrenberg M, Frank J. Dynamics of EF-G interaction with the ribosome explored by classification of a heterogeneous cryo-EM dataset. Journal of Structural Biology. 147: 283-90. PMID 15450297 DOI: 10.1016/j.jsb.2004.02.008  1
2004 Frank J, Schlichting I. Time-resolved imaging of macromolecular processes and interactions. Journal of Structural Biology. 147: 209-10. PMID 15450290 DOI: 10.1016/j.jsb.2004.06.003  0.01
2004 Sengupta J, Nilsson J, Gursky R, Spahn CM, Nissen P, Frank J. Identification of the versatile scaffold protein RACK1 on the eukaryotic ribosome by cryo-EM. Nature Structural & Molecular Biology. 11: 957-62. PMID 15334071 DOI: 10.1038/nsmb822  1
2004 Spahn CM, Jan E, Mulder A, Grassucci RA, Sarnow P, Frank J. Cryo-EM visualization of a viral internal ribosome entry site bound to human ribosomes: the IRES functions as an RNA-based translation factor. Cell. 118: 465-75. PMID 15315759 DOI: 10.1016/j.cell.2004.08.001  1
2004 Agrawal RK, Sharma MR, Kiel MC, Hirokawa G, Booth TM, Spahn CM, Grassucci RA, Kaji A, Frank J. Visualization of ribosome-recycling factor on the Escherichia coli 70S ribosome: functional implications. Proceedings of the National Academy of Sciences of the United States of America. 101: 8900-5. PMID 15178758 DOI: 10.1073/pnas.0401904101  1
2004 Halic M, Becker T, Pool MR, Spahn CM, Grassucci RA, Frank J, Beckmann R. Structure of the signal recognition particle interacting with the elongation-arrested ribosome. Nature. 427: 808-14. PMID 14985753 DOI: 10.1038/nature02342  1
2004 Spahn CM, Gomez-Lorenzo MG, Grassucci RA, Jørgensen R, Andersen GR, Beckmann R, Penczek PA, Ballesta JP, Frank J. Domain movements of elongation factor eEF2 and the eukaryotic 80S ribosome facilitate tRNA translocation. The Embo Journal. 23: 1008-19. PMID 14976550 DOI: 10.1038/sj.emboj.7600102  1
2003 Gomez-Lorenzo MG, Valle M, Frank J, Gruss C, Sorzano CO, Chen XS, Donate LE, Carazo JM. Large T antigen on the simian virus 40 origin of replication: a 3D snapshot prior to DNA replication. The Embo Journal. 22: 6205-13. PMID 14633980 DOI: 10.1093/emboj/cdg612  1
2003 Valle M, Zavialov A, Li W, Stagg SM, Sengupta J, Nielsen RC, Nissen P, Harvey SC, Ehrenberg M, Frank J. Incorporation of aminoacyl-tRNA into the ribosome as seen by cryo-electron microscopy. Nature Structural Biology. 10: 899-906. PMID 14566331 DOI: 10.1038/nsb1003  1
2003 Moccia R, Chen D, Lyles V, Kapuya E, E Y, Kalachikov S, Spahn CM, Frank J, Kandel ER, Barad M, Martin KC. An unbiased cDNA library prepared from isolated Aplysia sensory neuron processes is enriched for cytoskeletal and translational mRNAs. The Journal of Neuroscience : the Official Journal of the Society For Neuroscience. 23: 9409-17. PMID 14561869  1
2003 Tama F, Valle M, Frank J, Brooks CL. Dynamic reorganization of the functionally active ribosome explored by normal mode analysis and cryo-electron microscopy. Proceedings of the National Academy of Sciences of the United States of America. 100: 9319-23. PMID 12878726 DOI: 10.1073/pnas.1632476100  1
2003 Valle M, Zavialov A, Sengupta J, Rawat U, Ehrenberg M, Frank J. Locking and unlocking of ribosomal motions. Cell. 114: 123-34. PMID 12859903  1
2003 Gao H, Sengupta J, Valle M, Korostelev A, Eswar N, Stagg SM, Van Roey P, Agrawal RK, Harvey SC, Sali A, Chapman MS, Frank J. Study of the structural dynamics of the E coli 70S ribosome using real-space refinement. Cell. 113: 789-801. PMID 12809609 DOI: 10.1016/S0092-8674(03)00427-6  1
2003 Valle M, Gillet R, Kaur S, Henne A, Ramakrishnan V, Frank J. Visualizing tmRNA entry into a stalled ribosome Science. 300: 127-130. PMID 12677067 DOI: 10.1126/science.1081798  1
2003 Yarus M, Valle M, Frank J. A twisted tRNA intermediate sets the threshold for decoding. Rna (New York, N.Y.). 9: 384-5. PMID 12649490 DOI: 10.1261/rna.2184703  1
2003 Rawat UB, Zavialov AV, Sengupta J, Valle M, Grassucci RA, Linde J, Vestergaard B, Ehrenberg M, Frank J. A cryo-electron microscopic study of ribosome-bound termination factor RF2. Nature. 421: 87-90. PMID 12511960 DOI: 10.1038/nature01224  1
2002 Gao H, Spahn CM, Grassucci RA, Frank J. An assay for local quality in cryo-electron micrographs of single particles. Ultramicroscopy. 93: 169-78. PMID 12425594  1
2002 Stagg SM, Valle M, Agrawal RK, Frank J, Harvey SC. Problems with the transorientation hypothesis. Rna (New York, N.Y.). 8: 1093-4. PMID 12358427 DOI: 10.1017/S1355838202027061  1
2002 Valle M, Sengupta J, Swami NK, Grassucci RA, Burkhardt N, Nierhaus KH, Agrawal RK, Frank J. Cryo-EM reveals an active role for aminoacyl-tRNA in the accommodation process. The Embo Journal. 21: 3557-67. PMID 12093756 DOI: 10.1093/emboj/cdf326  1
2001 Gabashvili IS, Gregory ST, Valle M, Grassucci R, Worbs M, Wahl MC, Dahlberg AE, Frank J. The polypeptide tunnel system in the ribosome and its gating in erythromycin resistance mutants of L4 and L22. Molecular Cell. 8: 181-8. PMID 11511371 DOI: 10.1016/S1097-2765(01)00293-3  1
2000 VanLoock MS, Agrawal RK, Gabashvili IS, Qi L, Frank J, Harvey SC. Movement of the decoding region of the 16 S ribosomal RNA accompanies tRNA translocation. Journal of Molecular Biology. 304: 507-15. PMID 11099376 DOI: 10.1006/jmbi.2000.4213  1
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