Year |
Citation |
Score |
2024 |
Zhao H, Wu H, Guseman A, Abeykoon D, Camara CM, Dalal Y, Fushman D, Papoian GA. The role of cryptic ancestral symmetry in histone folding mechanisms across Eukarya and Archaea. Plos Computational Biology. 20: e1011721. PMID 38181064 DOI: 10.1371/journal.pcbi.1011721 |
0.773 |
|
2021 |
Wu H, Dalal Y, Papoian GA. Binding Dynamics of Disordered Linker Histone H1 with a Nucleosomal Particle. Journal of Molecular Biology. 166881. PMID 33617899 DOI: 10.1016/j.jmb.2021.166881 |
0.644 |
|
2020 |
Jin S, Contessoto VG, Chen M, Schafer NP, Lu W, Chen X, Bueno C, Hajitaheri A, Sirovetz BJ, Davtyan A, Papoian GA, Tsai MY, Wolynes PG. AWSEM-Suite: a protein structure prediction server based on template-guided, coevolutionary-enhanced optimized folding landscapes. Nucleic Acids Research. PMID 32383764 DOI: 10.1093/Nar/Gkaa356 |
0.754 |
|
2020 |
Pitman M, Dalal Y, Papoian GA. Minimal Cylinder Analysis Reveals the Mechanical Properties of Oncogenic Nucleosomes. Biophysical Journal. PMID 32097625 DOI: 10.1016/J.Bpj.2020.01.042 |
0.652 |
|
2020 |
Pitman M, Dalal Y, Papoian GA, Melters DP, Rakshit T, Dimitriadis EK, Bui M. Computational Modeling of Nucleosomal Mechanics and Epigenetic Modifications Biophysical Journal. 118: 9a. DOI: 10.1016/J.Bpj.2019.11.3372 |
0.605 |
|
2020 |
Melters DP, Pitman M, Rakshit T, Dimitriadis EK, Bui M, Papoian GA, Dalal Y. A Balance Between Elastic and Rigidified CENP-A Nucleosomes Govern Centromeric Chromatin Fidelity Biophysical Journal. 118: 8a. DOI: 10.1016/J.Bpj.2019.11.3369 |
0.604 |
|
2019 |
Melters DP, Pitman M, Rakshit T, Dimitriadis EK, Bui M, Papoian GA, Dalal Y. Intrinsic elasticity of nucleosomes is encoded by histone variants and calibrated by their binding partners. Proceedings of the National Academy of Sciences of the United States of America. PMID 31712435 DOI: 10.1073/Pnas.1911880116 |
0.639 |
|
2019 |
Zhao H, Winogradoff D, Dalal Y, Papoian GA. The Oligomerization Landscape of Histones. Biophysical Journal. PMID 31005236 DOI: 10.1016/J.Bpj.2019.03.021 |
0.771 |
|
2019 |
Wu H, Dalal Y, Papoian GA. Binding Dynamics of Disordered Linker Histone H1 with a Nucleosomal Particle Biophysical Journal. 116: 70a. DOI: 10.1016/J.Bpj.2018.11.421 |
0.619 |
|
2019 |
Pitman M, Dalal Y, Papoian GA. Cenp-A Hijacks the Histone Chaperone Network in Cancer--Computational Insights Biophysical Journal. 116: 436a. DOI: 10.1016/J.Bpj.2018.11.2347 |
0.582 |
|
2018 |
Wu H, Wolynes PG, Papoian GA. AWSEM-IDP: A Coarse-Grained Force Field for Intrinsically Disordered Proteins. The Journal of Physical Chemistry. B. PMID 30091924 DOI: 10.1021/Acs.Jpcb.8B05791 |
0.497 |
|
2017 |
Bui M, Pitman M, Nuccio A, Roque S, Donlin-Asp PG, Nita-Lazar A, Papoian GA, Dalal Y. Internal modifications in the CENP-A nucleosome modulate centromeric dynamics. Epigenetics & Chromatin. 10: 17. PMID 28396698 DOI: 10.1186/S13072-017-0124-6 |
0.632 |
|
2016 |
Zhao H, Winogradoff D, Bui M, Dalal Y, Papoian GA. Promiscuous histone mis-assembly is actively prevented by chaperones. Journal of the American Chemical Society. PMID 27454815 DOI: 10.1021/Jacs.6B05355 |
0.751 |
|
2016 |
Zhang B, Zheng W, Papoian GA, Wolynes PG. Exploring the Free Energy Landscape of Nucleosomes. Journal of the American Chemical Society. PMID 27300314 DOI: 10.1021/Jacs.6B02893 |
0.587 |
|
2016 |
Davtyan A, Platkov M, Gruebele M, Papoian GA. Stochastic Resonance in Protein Folding Dynamics. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. PMID 26992148 DOI: 10.1002/Cphc.201501125 |
0.634 |
|
2015 |
Gruebele M, Dave K, Davtyan A, Papoian GA, Platkov M. Environmental fluctuations and stochastic resonance in protein folding. Chemphyschem : a European Journal of Chemical Physics and Physical Chemistry. PMID 26711088 DOI: 10.1002/Cphc.201501041 |
0.59 |
|
2015 |
Winogradoff D, Zhao H, Dalal Y, Papoian GA. Shearing of the CENP-A dimerization interface mediates plasticity in the octameric centromeric nucleosome. Scientific Reports. 5: 17038. PMID 26602160 DOI: 10.1038/Srep17038 |
0.764 |
|
2015 |
Winogradoff D, Echeverria I, Potoyan DA, Papoian GA. The Acetylation Landscape of the H4 Histone Tail: Disentangling the Interplay between the Specific and Cumulative Effects. Journal of the American Chemical Society. 137: 6245-53. PMID 25905561 DOI: 10.1021/Jacs.5B00235 |
0.706 |
|
2015 |
Zhao H, Dalal Y, Papoian GA. The Binding Landscapes of the H3/H4 and CENP-A/H4 Dimers Biophysical Journal. 108: 538a. DOI: 10.1016/J.Bpj.2014.11.2949 |
0.752 |
|
2015 |
Zhao H, Fushman D, Papoian GA. The Association Landscape of Ubiquitin Dimerization Biophysical Journal. 108: 519a. DOI: 10.1016/J.Bpj.2014.11.2848 |
0.643 |
|
2015 |
Komianos JE, Popov K, Papoian G. Simulating Complex Mechanochemistry of Actin Networks Biophysical Journal. 108: 452a. DOI: 10.1016/J.Bpj.2014.11.2468 |
0.32 |
|
2015 |
Winogradoff D, Echeverria I, Papoian G. The Acetylation Landscape of the H4 Histone Tail Biophysical Journal. 108: 388a. DOI: 10.1016/J.Bpj.2014.11.2128 |
0.423 |
|
2015 |
Wu H, Papoian G. Structural and Dynamic Analysis on Disordered H4 Histone Tail by Modified AWSEM-MD Biophysical Journal. 108: 388a. DOI: 10.1016/J.Bpj.2014.11.2127 |
0.458 |
|
2013 |
Ma D, Bettis SE, Hanson K, Minakova M, Alibabaei L, Fondrie W, Ryan DM, Papoian GA, Meyer TJ, Waters ML, Papanikolas JM. Interfacial energy conversion in Ru(II) polypyridyl-derivatized oligoproline assemblies on TiO2. Journal of the American Chemical Society. 135: 5250-3. PMID 23514453 DOI: 10.1021/Ja312143H |
0.757 |
|
2013 |
Echeverria I, Makarov DE, Papoian G. Insight into the Molecular Origins of the Internal Friction in Unfolded Proteins Biophysical Journal. 104: 188a. DOI: 10.1016/J.Bpj.2012.11.1061 |
0.391 |
|
2013 |
Potoyan DA, Savelyev A, Papoian GA. Recent successes in coarse-grained modeling of DNA Wiley Interdisciplinary Reviews: Computational Molecular Science. 3: 69-83. DOI: 10.1002/wcms.1114 |
0.644 |
|
2012 |
Zheng W, Schafer NP, Davtyan A, Papoian GA, Wolynes PG. Predictive energy landscapes for protein-protein association. Proceedings of the National Academy of Sciences of the United States of America. 109: 19244-9. PMID 23129648 DOI: 10.1073/Pnas.1216215109 |
0.719 |
|
2012 |
Potoyan DA, Papoian GA. Regulation of the H4 tail binding and folding landscapes via Lys-16 acetylation. Proceedings of the National Academy of Sciences of the United States of America. 109: 17857-62. PMID 22988066 DOI: 10.1073/pnas.1201805109 |
0.718 |
|
2012 |
Zhuravlev PI, Lan Y, Minakova MS, Papoian GA. Theory of active transport in filopodia and stereocilia. Proceedings of the National Academy of Sciences of the United States of America. 109: 10849-54. PMID 22711803 DOI: 10.1073/Pnas.1200160109 |
0.749 |
|
2012 |
Wilger DJ, Bettis SE, Materese CK, Minakova M, Papoian GA, Papanikolas JM, Waters ML. Tunable energy transfer rates via control of primary, secondary, and tertiary structure of a coiled coil peptide scaffold. Inorganic Chemistry. 51: 11324-38. PMID 22679929 DOI: 10.1021/Ic300669T |
0.737 |
|
2012 |
Davtyan A, Schafer NP, Zheng W, Clementi C, Wolynes PG, Papoian GA. AWSEM-MD: protein structure prediction using coarse-grained physical potentials and bioinformatically based local structure biasing. The Journal of Physical Chemistry. B. 116: 8494-503. PMID 22545654 DOI: 10.1021/Jp212541Y |
0.691 |
|
2012 |
Potoyan DA, Zhuravlev PI, Papoian GA. Computing free energy of a large-scale allosteric transition in adenylate kinase using all atom explicit solvent simulations. The Journal of Physical Chemistry. B. 116: 1709-15. PMID 22212071 DOI: 10.1021/jp209980b |
0.674 |
|
2012 |
Davtyan A, Zheng W, Schafer N, Wolynes P, Papoian G. AWSEM-MD: Coarse-Grained Protein Structure Prediction using Physical Potentials and Bioinformatically Based Local Structure Biasing Biophysical Journal. 102: 619a. DOI: 10.1016/J.Bpj.2011.11.3373 |
0.732 |
|
2011 |
Savelyev A, Materese CK, Papoian GA. Is DNA's rigidity dominated by electrostatic or nonelectrostatic interactions? Journal of the American Chemical Society. 133: 19290-3. PMID 22039974 DOI: 10.1021/Ja207984Z |
0.708 |
|
2011 |
Minakova M, Savelyev A, Papoian GA. Nonequilibrium water transport in a nonionic microemulsion system. The Journal of Physical Chemistry. B. 115: 6503-8. PMID 21528855 DOI: 10.1021/Jp201431U |
0.741 |
|
2011 |
Potoyan DA, Papoian GA. Energy landscape analyses of disordered histone tails reveal special organization of their conformational dynamics. Journal of the American Chemical Society. 133: 7405-15. PMID 21517079 DOI: 10.1021/ja1111964 |
0.704 |
|
2011 |
Zhuravlev PI, Minakova M, Lan Y, Papoian GA. Myosin Motor Dynamics in Filopodia Biophysical Journal. 100: 596a. DOI: 10.1016/J.Bpj.2010.12.3433 |
0.747 |
|
2011 |
Bettis S, Wilger D, Materese C, Minakova M, Papoian G, Papanikolas JM, Waters ML. Energy transfer in ruthenium and osmium functionalized coiled-coil peptides Acs National Meeting Book of Abstracts. |
0.537 |
|
2010 |
Oklejas V, Zong C, Papoian GA, Wolynes PG. Protein structure prediction: do hydrogen bonding and water-mediated interactions suffice? Methods (San Diego, Calif.). 52: 84-90. PMID 20561998 DOI: 10.1016/J.Ymeth.2010.05.006 |
0.629 |
|
2010 |
Zhuravlev PI, Wu S, Potoyan DA, Rubinstein M, Papoian GA. Computing free energies of protein conformations from explicit solvent simulations. Methods (San Diego, Calif.). 52: 115-21. PMID 20493264 DOI: 10.1016/J.Ymeth.2010.05.003 |
0.668 |
|
2010 |
Potoyan D, Papoian G. Energy Landscape Analysis Reveals Residual Order in Histone Tail Dynamics Biophysical Journal. 98: 257a. DOI: 10.1016/J.Bpj.2009.12.1395 |
0.731 |
|
2009 |
Materese CK, Savelyev A, Papoian GA. Counterion atmosphere and hydration patterns near a nucleosome core particle. Journal of the American Chemical Society. 131: 15005-13. PMID 19778017 DOI: 10.1021/Ja905376Q |
0.73 |
|
2009 |
Zhuravlev PI, Materese CK, Papoian GA. Deconstructing the native state: energy landscapes, function, and dynamics of globular proteins. The Journal of Physical Chemistry. B. 113: 8800-12. PMID 19453123 DOI: 10.1021/Jp810659U |
0.741 |
|
2008 |
Materese CK, Goldmon CC, Papoian GA. Hierarchical organization of eglin c native state dynamics is shaped by competing direct and water-mediated interactions. Proceedings of the National Academy of Sciences of the United States of America. 105: 10659-64. PMID 18664578 DOI: 10.1073/Pnas.0801850105 |
0.717 |
|
2007 |
Lätzer J, Papoian GA, Prentiss MC, Komives EA, Wolynes PG. Induced fit, folding, and recognition of the NF-kappaB-nuclear localization signals by IkappaBalpha and IkappaBbeta. Journal of Molecular Biology. 367: 262-74. PMID 17257619 DOI: 10.1016/J.Jmb.2006.12.006 |
0.751 |
|
2006 |
Lan Y, Wolynes PG, Papoian GA. A variational approach to the stochastic aspects of cellular signal transduction. The Journal of Chemical Physics. 125: 124106. PMID 17014165 DOI: 10.1063/1.2353835 |
0.4 |
|
2006 |
Zong C, Papoian GA, Ulander J, Wolynes PG. Role of topology, nonadditivity, and water-mediated interactions in predicting the structures of alpha/beta proteins. Journal of the American Chemical Society. 128: 5168-76. PMID 16608353 DOI: 10.1021/Ja058589V |
0.616 |
|
2004 |
Papoian GA, Ulander J, Eastwood MP, Luthey-Schulten Z, Wolynes PG. Water in protein structure prediction. Proceedings of the National Academy of Sciences of the United States of America. 101: 3352-7. PMID 14988499 DOI: 10.1073/Pnas.0307851100 |
0.482 |
|
2004 |
Levy Y, Papoian GA, Onuchic JN, Wolynes PG. Energy landscape analysis of protein dimers Israel Journal of Chemistry. 44: 281-297. DOI: 10.1560/Xgcb-Wuhn-Jrjc-Bv0Y |
0.503 |
|
2003 |
Papoian GA, Ulander J, Wolynes PG. Role of water mediated interactions in protein-protein recognition landscapes. Journal of the American Chemical Society. 125: 9170-8. PMID 15369374 DOI: 10.1021/Ja034729U |
0.457 |
|
2003 |
Papoian GA, Wolynes PG. The physics and bioinformatics of binding and folding-an energy landscape perspective. Biopolymers. 68: 333-49. PMID 12601793 DOI: 10.1002/Bip.10286 |
0.502 |
|
2003 |
Papoian GA, DeGrado WF, Klein ML. Probing the configurational space of a metalloprotein core: an ab initio molecular dynamics study of Duo Ferro 1 binuclear Zn cofactor. Journal of the American Chemical Society. 125: 560-9. PMID 12517172 DOI: 10.1021/Ja028161L |
0.408 |
|
2001 |
Ienco A, Hoffmann R, Papoian G. Electron-rich bonding and the importance of s,p mixing as one moves across a period: a lesson from the LiSn system. Journal of the American Chemical Society. 123: 2317-25. PMID 11456880 DOI: 10.1021/Ja0032576 |
0.423 |
|
2001 |
Papoian G, Hoffmann R. Electron-rich rods as building blocks for Sb strips and Te sheets. Journal of the American Chemical Society. 123: 6600-8. PMID 11439046 DOI: 10.1021/Ja003420X |
0.39 |
|
2000 |
Papoian G, Nørskov JK, Hoffmann R. A comparative theoretical study of the hydrogen, methyl, and ethyl chemisorption on the Pt(111) surface Journal of the American Chemical Society. 122: 4129-4144. DOI: 10.1021/Ja993483J |
0.426 |
|
2000 |
Papoian GA, Hoffmann R. Hypervalent bonding in one, two, and three dimensions: Extending the Zintl-Klemm concept to nonclassical electron-rich networks Angewandte Chemie - International Edition. 39: 2408-2448. DOI: 10.1002/1521-3773(20000717)39:14<2408::Aid-Anie2408>3.0.Co;2-U |
0.325 |
|
2000 |
Seo D, Papoian G, Hoffmann R. Generalized perturbational molecular orbital (PMO) theory*Dedicated to our friend, Mike Zerner. International Journal of Quantum Chemistry. 77: 408. DOI: 10.1002/(Sici)1097-461X(2000)77:1<408::Aid-Qua41>3.3.Co;2-T |
0.561 |
|
2000 |
Seo DK, Papoian G, Hoffmann R. Generalized perturbational molecular orbital (PMO) theory International Journal of Quantum Chemistry. 77: 408-420. DOI: 10.1002/(Sici)1097-461X(2000)77:1<408::Aid-Qua41>3.0.Co;2-1 |
0.388 |
|
1999 |
Glassey WV, Papoian GA, Hoffmann R. Total energy partitioning within a one-electron formalism: A Hamilton population study of surface-CO interaction in the c(2x2)-CO/Ni(100) chemisorption system Journal of Chemical Physics. 111: 893-910. |
0.744 |
|
1998 |
Papoian G, Hoffmann R. Building up Complexity from Strips and Sheets: The Electronic Structure of the La12Mn2Sb30Alloy Journal of Solid State Chemistry. 139: 8-21. DOI: 10.1006/Jssc.1998.7773 |
0.445 |
|
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