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Jinwei Zhang, Ph.D. - Publications

Affiliations: 
2009 University of Wisconsin, Madison, Madison, WI 
 2011- National Institute of Diabetes and Digestive and Kidney Diseases 
Area:
Molecular Biology, Microbiology Biology
Website:
https://www-mslmb.niddk.nih.gov/zhang/jinwei.html
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45 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
2023 Zhang J. Recognition of the tRNA structure: Everything everywhere but not all at once. Cell Chemical Biology. PMID 38159570 DOI: 10.1016/j.chembiol.2023.12.008  0.363
2023 Suddala KC, Yoo J, Fan L, Zuo X, Wang YX, Chung HS, Zhang J. Direct observation of tRNA-chaperoned folding of a dynamic mRNA ensemble. Nature Communications. 14: 5438. PMID 37673863 DOI: 10.1038/s41467-023-41155-3  0.759
2023 Ding J, Lee YT, Bhandari Y, Schwieters CD, Fan L, Yu P, Tarosov SG, Stagno JR, Ma B, Nussinov R, Rein A, Zhang J, Wang YX. Visualizing RNA conformational and architectural heterogeneity in solution. Nature Communications. 14: 714. PMID 36759615 DOI: 10.1038/s41467-023-36184-x  0.367
2022 Zhang J. Probing RNA Structures and Interactions Using Fluorescence Lifetime Analyses. Methods in Molecular Biology (Clifton, N.J.). 2568: 13-23. PMID 36227559 DOI: 10.1007/978-1-0716-2687-0_2  0.358
2022 Sapkota KP, Li S, Zhang J. Cotranscriptional Assembly and Native Purification of Large RNA-RNA Complexes for Structural Analyses. Methods in Molecular Biology (Clifton, N.J.). 2568: 1-12. PMID 36227558 DOI: 10.1007/978-1-0716-2687-0_1  0.414
2022 Giarimoglou N, Kouvela A, Maniatis A, Papakyriakou A, Zhang J, Stamatopoulou V, Stathopoulos C. A Riboswitch-Driven Era of New Antibacterials. Antibiotics (Basel, Switzerland). 11. PMID 36140022 DOI: 10.3390/antibiotics11091243  0.381
2022 Giarimoglou N, Kouvela A, Patsi I, Zhang J, Stamatopoulou V, Stathopoulos C. Lineage-specific insertions in T-box riboswitches modulate antibiotic binding and action. Nucleic Acids Research. PMID 35580054 DOI: 10.1093/nar/gkac359  0.41
2022 Bou-Nader C, Bothra A, Garboczi DN, Leppla SH, Zhang J. Structural basis of R-loop recognition by the S9.6 monoclonal antibody. Nature Communications. 13: 1641. PMID 35347133 DOI: 10.1038/s41467-022-29187-7  0.306
2021 Skeparnias I, Zhang J. Cooperativity and Interdependency between RNA Structure and RNA-RNA Interactions. Non-Coding Rna. 7. PMID 34940761 DOI: 10.3390/ncrna7040081  0.435
2021 Zhang J, Ferré-D'Amaré AR. Improving RNA Crystal Diffraction Quality by Postcrystallization Treatment. Methods in Molecular Biology (Clifton, N.J.). 2323: 25-37. PMID 34086271 DOI: 10.1007/978-1-0716-1499-0_3  0.378
2020 Zhang J. Unboxing the T-box riboswitches-A glimpse into multivalent and multimodal RNA-RNA interactions. Wiley Interdisciplinary Reviews. Rna. e1600. PMID 32633085 DOI: 10.1002/Wrna.1600  0.596
2020 Bou-Nader C, Zhang J. Structural Insights into RNA Dimerization: Motifs, Interfaces and Functions. Molecules (Basel, Switzerland). 25. PMID 32585844 DOI: 10.3390/Molecules25122881  0.532
2019 Suddala KC, Zhang J. High-affinity recognition of specific tRNAs by an mRNA anticodon-binding groove. Nature Structural & Molecular Biology. PMID 31792448 DOI: 10.1038/S41594-019-0335-6  0.744
2019 Li S, Su Z, Lehmann J, Stamatopoulou V, Giarimoglou N, Henderson FE, Fan L, Pintilie GD, Zhang K, Chen M, Ludtke SJ, Wang YX, Stathopoulos C, Chiu W, Zhang J. Structural basis of amino acid surveillance by higher-order tRNA-mRNA interactions. Nature Structural & Molecular Biology. PMID 31740854 DOI: 10.2210/Pdb6Pom/Pdb  0.525
2019 Hood IV, Gordon JM, Bou-Nader C, Henderson FE, Bahmanjah S, Zhang J. Crystal structure of an adenovirus virus-associated RNA. Nature Communications. 10: 2871. PMID 31253805 DOI: 10.2210/Pdb6Ol3/Pdb  0.506
2019 Suddala KC, Zhang J. An evolving tale of two interacting RNAs-themes and variations of the T-box riboswitch mechanism. Iubmb Life. PMID 31206978 DOI: 10.1002/Iub.2098  0.751
2019 Bou-Nader C, Gordon JM, Henderson FE, Zhang J. The search for a PKR code - Differential regulation of Protein Kinase R activity by diverse RNA and protein regulators. Rna (New York, N.Y.). PMID 30770398 DOI: 10.1261/Rna.070169.118  0.466
2017 Stamatopoulou V, Apostolidi M, Li S, Lamprinou K, Papakyriakou A, Zhang J, Stathopoulos C. Direct modulation of T-box riboswitch-controlled transcription by protein synthesis inhibitors. Nucleic Acids Research. 45: 10242-10258. PMID 28973457 DOI: 10.1093/Nar/Gkx663  0.476
2017 Zhang J. Brothers in arms: emerging roles of RNA epigenetics in DNA damage repair. Cell & Bioscience. 7: 24. PMID 28484591 DOI: 10.1186/s13578-017-0151-9  0.342
2017 Stagno JR, Liu Y, Bhandari YR, Conrad CE, Panja S, Swain M, Fan L, Nelson G, Li C, Wendel DR, White TA, Coe JD, Wiedorn MO, Knoska J, Oberthuer D, ... ... Zhang J, et al. Structures of riboswitch RNA reaction states by mix-and-inject XFEL serial crystallography Acta Crystallographica Section a Foundations and Advances. 73: a92-a92. DOI: 10.1107/S0108767317099081  0.426
2016 Stagno JR, Liu Y, Bhandari YR, Conrad CE, Panja S, Swain M, Fan L, Nelson G, Li C, Wendel DR, White TA, Coe JD, Wiedorn MO, Knoska J, Oberthuer D, ... ... Zhang J, et al. Structures of riboswitch RNA reaction states by mix-and-inject XFEL serial crystallography. Nature. PMID 27841871 DOI: 10.1038/Nature20599  0.431
2016 Zhang J, Landick R. A Two-Way Street: Regulatory Interplay between RNA Polymerase and Nascent RNA Structure. Trends in Biochemical Sciences. PMID 26822487 DOI: 10.1016/J.Tibs.2015.12.009  0.664
2016 Zhang J, Ferré-D'Amaré AR. The tRNA Elbow in Structure, Recognition and Evolution. Life (Basel, Switzerland). 6. PMID 26771646 DOI: 10.3390/Life6010003  0.525
2015 Zhang J, Ferré-D'Amaré AR. Post-crystallization Improvement of RNA Crystals by Synergistic Ion Exchange and Dehydration. Bio-Protocol. 5. PMID 27430006  0.305
2015 Zhang J, Ferré-D'Amaré AR. Post-crystallization Improvement of RNA Crystal Diffraction Quality. Methods in Molecular Biology (Clifton, N.J.). 1316: 13-24. PMID 25967049 DOI: 10.1007/978-1-4939-2730-2_2  0.45
2015 Zhang J, Ferré-D'Amaré AR. Structure and mechanism of the T-box riboswitches. Wiley Interdisciplinary Reviews. Rna. 6: 419-33. PMID 25959893 DOI: 10.1002/Wrna.1285  0.597
2015 Liu Y, Holmstrom E, Zhang J, Yu P, Wang J, Dyba MA, Chen D, Ying J, Lockett S, Nesbitt DJ, Ferré-D'Amaré AR, Sousa R, Stagno JR, Wang YX. Synthesis and applications of RNAs with position-selective labelling and mosaic composition. Nature. 522: 368-72. PMID 25938715 DOI: 10.1038/Nature14352  0.48
2015 Miao Z, Adamiak RW, Blanchet MF, Boniecki M, Bujnicki JM, Chen SJ, Cheng C, Chojnowski G, Chou FC, Cordero P, Cruz JA, Ferré-D'Amaré AR, Das R, Ding F, Dokholyan NV, ... ... Zhang J, et al. RNA-Puzzles Round II: assessment of RNA structure prediction programs applied to three large RNA structures. Rna (New York, N.Y.). 21: 1066-84. PMID 25883046 DOI: 10.1261/Rna.049502.114  0.471
2015 Lageix S, Zhang J, Rothenburg S, Hinnebusch AG. Interaction between the tRNA-binding and C-terminal domains of Yeast Gcn2 regulates kinase activity in vivo. Plos Genetics. 11: e1004991. PMID 25695491 DOI: 10.1371/Journal.Pgen.1004991  0.391
2015 Lageix S, Zhang J, Rothenburg S, Hinnebusch AG. Summary of domain interactions in Gcn2 that couple binding of uncharged tRNA to activation of kinase function in starved cells. Plos Genetics. DOI: 10.1371/Journal.Pgen.1004991.G001  0.324
2014 Zhang J, Ferré-D'Amaré AR. A flexible, scalable method for preparation of homogeneous aminoacylated tRNAs. Methods in Enzymology. 549: 105-13. PMID 25432746 DOI: 10.1016/B978-0-12-801122-5.00005-2  0.492
2014 Windgassen TA, Mooney RA, Nayak D, Palangat M, Zhang J, Landick R. Trigger-helix folding pathway and SI3 mediate catalysis and hairpin-stabilized pausing by Escherichia coli RNA polymerase. Nucleic Acids Research. 42: 12707-21. PMID 25336618 DOI: 10.1093/Nar/Gku997  0.716
2014 Zhang J, Ferré-D'Amaré AR. Dramatic improvement of crystals of large RNAs by cation replacement and dehydration. Structure (London, England : 1993). 22: 1363-71. PMID 25185828 DOI: 10.1016/J.Str.2014.07.011  0.453
2014 Zhang J, Ferré-D'Amaré AR. Direct evaluation of tRNA aminoacylation status by the T-box riboswitch using tRNA-mRNA stacking and steric readout. Molecular Cell. 55: 148-55. PMID 24954903 DOI: 10.1016/J.Molcel.2014.05.017  0.5
2014 Zhang J, Jones CP, Ferré-D'Amaré AR. Global analysis of riboswitches by small-angle X-ray scattering and calorimetry. Biochimica Et Biophysica Acta. 1839: 1020-1029. PMID 24769285 DOI: 10.1016/J.Bbagrm.2014.04.014  0.419
2014 Zhang J, Ferré-D'Amaré AR. New molecular engineering approaches for crystallographic studies of large RNAs. Current Opinion in Structural Biology. 26: 9-15. PMID 24607443 DOI: 10.1016/J.Sbi.2014.02.001  0.522
2013 Zhang J, Ferré-D'Amaré AR. Co-crystal structure of a T-box riboswitch stem I domain in complex with its cognate tRNA. Nature. 500: 363-6. PMID 23892783 DOI: 10.1038/Nature12440  0.55
2012 Baird NJ, Zhang J, Hamma T, Ferré-D'Amaré AR. YbxF and YlxQ are bacterial homologs of L7Ae and bind K-turns but not K-loops. Rna (New York, N.Y.). 18: 759-70. PMID 22355167 DOI: 10.1261/Rna.031518.111  0.39
2010 Zhang J, Lau MW, Ferré-D'Amaré AR. Ribozymes and riboswitches: modulation of RNA function by small molecules. Biochemistry. 49: 9123-31. PMID 20931966 DOI: 10.1021/Bi1012645  0.541
2010 Zhang J, Palangat M, Landick R. Role of the RNA polymerase trigger loop in catalysis and pausing. Nature Structural & Molecular Biology. 17: 99-104. PMID 19966797 DOI: 10.1038/Nsmb.1732  0.63
2008 Vassylyev D, Vassylyeva M, Perederina A, Zhang J, Palangat M, Landick R, Tahirov T, Artsimovitch I. Structural basis of transcription: structures of the bacterial RNA polymerase elongation complexes Acta Crystallographica Section a Foundations of Crystallography. 64: C15-C16. DOI: 10.1107/S0108767308099558  0.643
2007 Toulokhonov I, Zhang J, Palangat M, Landick R. A central role of the RNA polymerase trigger loop in active-site rearrangement during transcriptional pausing. Molecular Cell. 27: 406-19. PMID 17679091 DOI: 10.1016/J.Molcel.2007.06.008  0.665
2007 Vassylyev DG, Vassylyeva MN, Zhang J, Palangat M, Artsimovitch I, Landick R. Structural basis for substrate loading in bacterial RNA polymerase. Nature. 448: 163-8. PMID 17581591 DOI: 10.1038/nature05931  0.598
2005 Kyzer S, Zhang J, Landick R. Inhibition of RNA polymerase by streptolydigin: no cycling allowed. Cell. 122: 494-6. PMID 16122417 DOI: 10.1016/J.Cell.2005.08.008  0.647
1999 Hanna MM, Yuriev E, Zhang J, Riggs DL. Probing the environment of nascent RNA in Escherichia coli transcription elongation complexes utilizing a new fluorescent ribonucleotide analog. Nucleic Acids Research. 27: 1369-76. PMID 9973628 DOI: 10.1093/nar/27.5.1369  0.332
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