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Sichun Yang - Publications

Affiliations: 
2006 University of California, San Diego, La Jolla, CA 
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40 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
2022 Zheng W, Du Z, Ko SB, Wickramasinghe NP, Yang S. Incorporation of DO-Induced Fluorine Chemical Shift Perturbations into Ensemble-Structure Characterization of the ERalpha Disordered Region. The Journal of Physical Chemistry. B. 126: 9176-9186. PMID 36331868 DOI: 10.1021/acs.jpcb.2c05456  0.349
2020 Ruan H, Kiselar J, Zhang W, Li S, Xiong R, Liu Y, Yang S, Lai L. Integrative structural modeling of a multidomain polo-like kinase. Physical Chemistry Chemical Physics : Pccp. PMID 33236741 DOI: 10.1039/d0cp05030j  0.392
2020 Huang L, Wright M, Yang S, Blachowicz L, Makowski L, Roux B. Glycine substitution in SH3-SH2 connector of Hck tyrosine kinase causes population shift from assembled to disassembled state. Biochimica Et Biophysica Acta. General Subjects. 1864: 129604. PMID 32224253 DOI: 10.1016/J.Bbagen.2020.129604  0.542
2020 Chance MR, Farquhar ER, Yang S, Lodowski D, Kiselar J. Protein Footprinting: Auxiliary Engine to Power the Structural Biology Revolution. Journal of Molecular Biology. PMID 32088185 DOI: 10.1016/J.Jmb.2020.02.011  0.409
2018 Peng Y, Cao S, Kiselar J, Xiao X, Du Z, Hsieh A, Ko S, Chen Y, Agrawal P, Zheng W, Shi W, Jiang W, Yang L, Chance MR, Surewicz WK, ... ... Yang S, et al. A Metastable Contact and Structural Disorder in the Estrogen Receptor Transactivation Domain. Structure (London, England : 1993). PMID 30581045 DOI: 10.1016/J.Str.2018.10.026  0.418
2018 Gao Y, Liu X, Sun L, Xu Y, Yang S, Fan C, Li D. Alleviated Inhibition of Single Enzyme in Confined and Crowded Environment. The Journal of Physical Chemistry Letters. PMID 30565943 DOI: 10.1021/Acs.Jpclett.8B03736  0.318
2018 Huang W, Peng Y, Kiselar J, Zhao X, Albaqami A, Mendez D, Chen Y, Chakravarthy S, Gupta S, Ralston C, Kao HY, Chance MR, Yang S. Multidomain architecture of estrogen receptor reveals interfacial cross-talk between its DNA-binding and ligand-binding domains. Nature Communications. 9: 3520. PMID 30166540 DOI: 10.1038/S41467-018-06034-2  0.436
2018 Peng Y, Cao S, Buck M, Yang S. Quantifying Disorder of an Intrinsically Unstructured Domain in Estrogen Receptor Biophysical Journal. 114: 428a. DOI: 10.1016/J.Bpj.2017.11.2372  0.321
2017 Hsieh A, Lu L, Chance MR, Yang S. A Practical Guide to iSPOT Modeling: An Integrative Structural Biology Platform. Advances in Experimental Medicine and Biology. 1009: 229-238. PMID 29218563 DOI: 10.1007/978-981-10-6038-0_14  0.404
2017 Gustavsson M, Wang L, van Gils N, Stephens BS, Zhang P, Schall TJ, Yang S, Abagyan R, Chance MR, Kufareva I, Handel TM. Structural basis of ligand interaction with atypical chemokine receptor 3. Nature Communications. 8: 14135. PMID 28098154 DOI: 10.1038/Ncomms14135  0.338
2017 Tong D, Yang S, Lu L. Implicit Hydration Modelling in Small-Angle X-Ray Scattering for Protein Structure Determination Biophysical Journal. 112: 293a. DOI: 10.1016/J.Bpj.2016.11.1589  0.444
2017 Yang S, Peng Y. Hydrophobic Burial and Dynamic Conformations of Estrogen Receptor N-Terminus Biophysical Journal. 112: 197a-198a. DOI: 10.1016/J.Bpj.2016.11.1094  0.454
2016 Tong D, Yang S, Lu L. Accurate optimization of amino acid form factors for computing small-angle X-ray scattering intensity of atomistic protein structures. Journal of Applied Crystallography. 49: 1148-1161. PMID 28074088 DOI: 10.1107/S1600576716007962  0.411
2016 Song L, Yang L, Meng J, Yang S. Thermodynamics of Hydrophobic Amino Acids in Solution: A Combined Experimental-Computational Study. The Journal of Physical Chemistry Letters. PMID 28033710 DOI: 10.1021/Acs.Jpclett.6B02673  0.387
2016 Huang W, Ravikumar KM, Parisien M, Yang S. Theoretical modeling of multiprotein complexes by iSPOT: Integration of small-angle X-ray scattering, hydroxyl radical footprinting, and computational docking. Journal of Structural Biology. PMID 27496803 DOI: 10.1016/J.Jsb.2016.08.001  0.433
2015 Kaur P, Kiselar J, Yang S, Chance MR. Quantitative protein topography analysis and high-resolution structure prediction using hydroxyl radical labeling and tandem-ion mass spectrometry (MS). Molecular & Cellular Proteomics : McP. 14: 1159-68. PMID 25687570 DOI: 10.1074/Mcp.O114.044362  0.386
2015 Huang W, Ravikumar KM, Chance MR, Yang S. Quantitative mapping of protein structure by hydroxyl radical footprinting-mediated structural mass spectrometry: a protection factor analysis. Biophysical Journal. 108: 107-15. PMID 25564857 DOI: 10.1016/J.Bpj.2014.11.013  0.412
2015 Huang W, Ravikumar KM, Chance MR, Yang S. Erratum: Quantitative mapping of protein structure by hydroxyl radical footprinting mediated structural mass spectrometry: A protection factor analysis (Biophysical Journal (2015) 108(107-115)) Biophysical Journal. 108. DOI: 10.1016/J.Bpj.2015.01.003  0.313
2014 Huang W, Ravikumar KM, Yang S. A Newfound Cancer-Activating Mutation Reshapes the Energy Landscape of Estrogen-Binding Domain. Journal of Chemical Theory and Computation. 10: 2897-900. PMID 26588264 DOI: 10.1021/Ct500313E  0.41
2014 Yang S. Methods for SAXS-based structure determination of biomolecular complexes. Advanced Materials (Deerfield Beach, Fla.). 26: 7902-10. PMID 24888261 DOI: 10.1002/Adma.201304475  0.439
2013 Yang S, Ravikumar KM, Levine H. Energy evaluation of β-strand packing in a fibril-forming SH3 domain. The Journal of Physical Chemistry. B. 117: 13051-7. PMID 23819485 DOI: 10.1021/Jp402442P  0.566
2013 Huang W, Greene GL, Ravikumar KM, Yang S. Cross-talk between the ligand- and DNA-binding domains of estrogen receptor Proteins: Structure, Function and Bioinformatics. 81: 1900-1909. PMID 23737157 DOI: 10.1002/Prot.24331  0.447
2013 Ravikumar KM, Huang W, Yang S. Fast-SAXS-pro: a unified approach to computing SAXS profiles of DNA, RNA, protein, and their complexes. The Journal of Chemical Physics. 138: 024112. PMID 23320673 DOI: 10.1016/J.Bpj.2012.11.1028  0.346
2013 Huang W, Ravikumar KM, Yang S. Crosstalk between Hormone and DNA Binding Domains in Estrogen Receptor Alpha: An Energy Landscape Approach Biophysical Journal. 104: 70a. DOI: 10.1016/J.Bpj.2012.11.422  0.458
2012 Ravikumar KM, Huang W, Yang S. Coarse-grained simulations of protein-protein association: an energy landscape perspective. Biophysical Journal. 103: 837-45. PMID 22947945 DOI: 10.1016/J.Bpj.2012.07.013  0.444
2012 Khurana S, Chakraborty S, Zhao X, Liu Y, Guan D, Lam M, Huang W, Yang S, Kao HY. Identification of a novel LXXLL motif in α-actinin 4-spliced isoform that is critical for its interaction with estrogen receptor α and co-activators. The Journal of Biological Chemistry. 287: 35418-29. PMID 22908231 DOI: 10.1074/Jbc.M112.401364  0.319
2011 Yang S, Roux B. EROS: Better than SAXS! Structure (London, England : 1993). 19: 3-4. PMID 21220109 DOI: 10.1016/J.Str.2010.12.008  0.56
2010 Yang S, Blachowicz L, Makowski L, Roux B. Multidomain assembled states of Hck tyrosine kinase in solution. Proceedings of the National Academy of Sciences of the United States of America. 107: 15757-62. PMID 20798061 DOI: 10.1073/Pnas.1004569107  0.53
2010 Yang S, Parisien M, Major F, Roux B. RNA structure determination using SAXS data. The Journal of Physical Chemistry. B. 114: 10039-48. PMID 20684627 DOI: 10.1021/Jp1057308  0.47
2010 Yang S, Blachowicz L, Makowski L, Roux B. Small-Angle X-Ray Scattering and Computational Modeling Reveal the Multi-Domain Assembly States of Hck in Solution Biophysical Journal. 98: 177a. DOI: 10.1016/J.Bpj.2009.12.944  0.585
2009 Gan W, Yang S, Roux B. Atomistic view of the conformational activation of Src kinase using the string method with swarms-of-trajectories. Biophysical Journal. 97: L8-L10. PMID 19686639 DOI: 10.1016/J.Bpj.2009.06.016  0.65
2009 Yang S, Park S, Makowski L, Roux B. A rapid coarse residue-based computational method for x-ray solution scattering characterization of protein folds and multiple conformational states of large protein complexes. Biophysical Journal. 96: 4449-63. PMID 19486669 DOI: 10.1016/J.Bpj.2009.03.036  0.576
2009 Yang S, Banavali NK, Roux B. Mapping the conformational transition in Src activation by cumulating the information from multiple molecular dynamics trajectories. Proceedings of the National Academy of Sciences of the United States of America. 106: 3776-81. PMID 19225111 DOI: 10.1073/Pnas.0808261106  0.567
2009 Yang S, Makowski L, Roux B. X-ray Solution Scattering Combined with Computation Characterizing Protein Folds and Multiple Conformational States: Computation and Application Biophysical Journal. 96: 411a. DOI: 10.1016/J.Bpj.2008.12.2096  0.575
2008 Yang S, Roux B. Src kinase conformational activation: thermodynamics, pathways, and mechanisms. Plos Computational Biology. 4: e1000047. PMID 18369437 DOI: 10.1371/Journal.Pcbi.1000047  0.587
2007 Yang S, Onuchic JN, García AE, Levine H. Folding time predictions from all-atom replica exchange simulations. Journal of Molecular Biology. 372: 756-63. PMID 17681536 DOI: 10.1016/J.Jmb.2007.07.010  0.621
2006 Yang S, Onuchic JN, Levine H. Effective stochastic dynamics on a protein folding energy landscape. The Journal of Chemical Physics. 125: 054910. PMID 16942260 DOI: 10.1063/1.2229206  0.634
2005 Yang S, Levine H, Onuchic JN, Cox DL. Structure of infectious prions: stabilization by domain swapping. Faseb Journal : Official Publication of the Federation of American Societies For Experimental Biology. 19: 1778-82. PMID 16260647 DOI: 10.1096/Fj.05-4067Hyp  0.648
2005 Yang S, Levine H, Onuchic JN. Protein oligomerization through domain swapping: role of inter-molecular interactions and protein concentration. Journal of Molecular Biology. 352: 202-11. PMID 16061250 DOI: 10.1016/J.Jmb.2005.06.062  0.681
2004 Yang S, Cho SS, Levy Y, Cheung MS, Levine H, Wolynes PG, Onuchic JN. Domain swapping is a consequence of minimal frustration. Proceedings of the National Academy of Sciences of the United States of America. 101: 13786-91. PMID 15361578 DOI: 10.1073/Pnas.0403724101  0.706
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