| Year |
Citation |
Score |
| 2019 |
Long C, E C, Da LT, Yu J. A Viral T7 RNA Polymerase Ratcheting Along DNA With Fidelity Control. Computational and Structural Biotechnology Journal. 17: 638-644. PMID 31193497 DOI: 10.1016/J.Csbj.2019.05.001 |
0.354 |
|
| 2019 |
Long C, E C, Da LT, Yu J. Determining selection free energetics from nucleotide pre-insertion to insertion in viral T7 RNA polymerase transcription fidelity control. Nucleic Acids Research. PMID 30916310 DOI: 10.1093/Nar/Gkz213 |
0.315 |
|
| 2018 |
Jing X, Loskot P, Yu J. How does supercoiling regulation on a battery of RNA polymerases impact on bacterial transcription bursting? Physical Biology. PMID 30091721 DOI: 10.1088/1478-3975/Aad933 |
0.313 |
|
| 2018 |
Da LT, Yu J. Base-flipping dynamics from an intrahelical to an extrahelical state exerted by thymine DNA glycosylase during DNA repair process. Nucleic Acids Research. PMID 29762710 DOI: 10.1093/Nar/Gky386 |
0.341 |
|
| 2018 |
Long C, Yu J. Balancing Non-Equilibrium Driving with Nucleotide Selectivity at Kinetic Checkpoints in Polymerase Fidelity Control Entropy. 20: 306. DOI: 10.3390/E20040306 |
0.319 |
|
| 2017 |
Da LT, Shi Y, Ning G, Yu J. Dynamics of the excised base release in thymine DNA glycosylase during DNA repair process. Nucleic Acids Research. PMID 29253232 DOI: 10.1093/Nar/Gkx1261 |
0.318 |
|
| 2017 |
Da LT, E C, Shuai Y, Wu S, Su XD, Yu J. T7 RNA polymerase translocation is facilitated by a helix opening on the fingers domain that may also prevent backtracking. Nucleic Acids Research. PMID 28575393 DOI: 10.1093/Nar/Gkx495 |
0.354 |
|
| 2017 |
E C, Duan B, Yu J. The Nucleotide Selectivity at a Pre-Insertion Checkpoint of T7 RNA Polymerase Transcription Elongation. The Journal of Physical Chemistry. B. PMID 28199109 DOI: 10.1021/Acs.Jpcb.6B11668 |
0.31 |
|
| 2016 |
Yu J. Computational investigations on polymerase actions in gene transcription and replication: Combining physical modeling and atomistic simulations Chinese Physics B. 25: 18706. DOI: 10.1088/1674-1056/25/1/018706 |
0.347 |
|
| 2016 |
E C, Da L, Duan B, Wu S, Yu J. PPi Release Followed by DNA Translocation Studied from Atomistic Simulations of T7 RNA Polymerase Transcription Biophysical Journal. 110: 232. DOI: 10.1016/J.Bpj.2015.11.1280 |
0.364 |
|
| 2015 |
Da LT, E C, Duan B, Zhang C, Zhou X, Yu J. A Jump-from-Cavity Pyrophosphate Ion Release Assisted by a Key Lysine Residue in T7 RNA Polymerase Transcription Elongation. Plos Computational Biology. 11: e1004624. PMID 26599007 DOI: 10.1371/Journal.Pcbi.1004624 |
0.342 |
|
| 2014 |
Yu J, Da LT, Huang X. Constructing kinetic models to elucidate structural dynamics of a complete RNA polymerase II elongation cycle. Physical Biology. 12: 016004. PMID 25475208 DOI: 10.1088/1478-3975/12/1/016004 |
0.349 |
|
| 2014 |
Duan B, Wu S, Da LT, Yu J. A critical residue selectively recruits nucleotides for t7 RNA polymerase transcription fidelity control. Biophysical Journal. 107: 2130-40. PMID 25418098 DOI: 10.1016/J.Bpj.2014.09.038 |
0.329 |
|
| 2014 |
Yu J. Coordination and control inside simple biomolecular machines. Advances in Experimental Medicine and Biology. 805: 353-384. PMID 24446369 DOI: 10.1007/978-3-319-02970-2_15 |
0.31 |
|
| 2012 |
Yu J, Oster G. A small post-translocation energy bias aids nucleotide selection in T7 RNA polymerase transcription. Biophysical Journal. 102: 532-41. PMID 22325276 DOI: 10.1016/J.Bpj.2011.12.028 |
0.345 |
|
| 2011 |
Yu J, Oster G. Ratcheting Mechanism of T7 RNA Polymerase During Transcription Elongation Biophysical Journal. 100: 66a. DOI: 10.1016/J.Bpj.2010.12.556 |
0.346 |
|
| 2010 |
Yu J, Cheng W, Bustamante C, Oster G. Coupling translocation with nucleic acid unwinding by NS3 helicase Journal of Molecular Biology. 404: 439-455. PMID 20887735 DOI: 10.1016/J.Jmb.2010.09.047 |
0.315 |
|
| 2010 |
Park J, Myong S, Niedziela-Majka A, Lee KS, Yu J, Lohman TM, Ha T. PcrA helicase dismantles RecA filaments by reeling in DNA in uniform steps. Cell. 142: 544-55. PMID 20723756 DOI: 10.1016/J.Cell.2010.07.016 |
0.354 |
|
| 2010 |
Yu J, Moffitt J, Hetherington CL, Bustamante C, Oster G. Mechanochemistry of a viral DNA packaging motor. Journal of Molecular Biology. 400: 186-203. PMID 20452360 DOI: 10.1016/J.Jmb.2010.05.002 |
0.302 |
|
| 2010 |
Yu J, Moffitt J, Hetherington C, Bustamante C, Oster G. A Mechanochemical Model of a Viral DNA Packaging Motor Biophysical Journal. 98: 656a. DOI: 10.1016/J.Bpj.2009.12.3596 |
0.31 |
|
| 2010 |
Park J, Myong S, Niedziela-Majka A, Yu J, Lohman T, Ha T. Reeling in DNA One Base at A Time: pcrA Translocation Coupled to DNA Looping Dismantles RecA Filaments Biophysical Journal. 98: 221a. DOI: 10.1016/J.Bpj.2009.12.1190 |
0.351 |
|
| 2007 |
Cui S, Yu J, Kühner F, Schulten K, Gaub HE. Double-stranded DNA dissociates into single strands when dragged into a poor solvent. Journal of the American Chemical Society. 129: 14710-6. PMID 17983226 DOI: 10.1021/Ja074776C |
0.474 |
|
| 2007 |
Hohng S, Zhou R, Nahas MK, Yu J, Schulten K, Lilley DM, Ha T. Fluorescence-force spectroscopy maps two-dimensional reaction landscape of the holliday junction. Science (New York, N.Y.). 318: 279-83. PMID 17932299 DOI: 10.1126/Science.1146113 |
0.428 |
|
| 2007 |
Yu J, Ha T, Schulten K. How directional translocation is regulated in a DNA helicase motor. Biophysical Journal. 93: 3783-97. PMID 17704159 DOI: 10.1529/Biophysj.107.109546 |
0.486 |
|
| 2006 |
Yu J, Yool AJ, Schulten K, Tajkhorshid E. Mechanism of gating and ion conductivity of a possible tetrameric pore in aquaporin-1. Structure (London, England : 1993). 14: 1411-23. PMID 16962972 DOI: 10.1016/J.Str.2006.07.006 |
0.426 |
|
| 2006 |
Yu J, Ha T, Schulten K. Structure-based model of the stepping motor of PcrA helicase. Biophysical Journal. 91: 2097-114. PMID 16815905 DOI: 10.1529/Biophysj.106.088203 |
0.487 |
|
| 2004 |
Yu J, Ha T, Schulten K. Conformational model of the Holliday junction transition deduced from molecular dynamics simulations. Nucleic Acids Research. 32: 6683-95. PMID 15613597 DOI: 10.1093/Nar/Gkh1006 |
0.471 |
|
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