Water molecule ordering on the surface of an intrinsically disordered protein
Vural, Derya, Shrestha, Utsab R., Petridis, Loukas, Smith, Jeremy C.
Published in Biophysical journal (21.11.2023)
Published in Biophysical journal (21.11.2023)
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Journal Article
Generation of the configurational ensemble of an intrinsically disordered protein from unbiased molecular dynamics simulation
Shrestha, Utsab R., Juneja, Puneet, Zhang, Qiu, Gurumoorthy, Viswanathan, Borreguero, Jose M., Urban, Volker, Cheng, Xiaolin, Pingali, Sai Venkatesh, Smith, Jeremy C., O’Neill, Hugh M., Petridis, Loukas
Published in Proceedings of the National Academy of Sciences - PNAS (08.10.2019)
Published in Proceedings of the National Academy of Sciences - PNAS (08.10.2019)
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Journal Article
Full structural ensembles of intrinsically disordered proteins from unbiased molecular dynamics simulations
Shrestha, Utsab R., Smith, Jeremy C., Petridis, Loukas
Published in Communications biology (23.02.2021)
Published in Communications biology (23.02.2021)
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Journal Article
Predicting the structural basis of targeted protein degradation by integrating molecular dynamics simulations with structural mass spectrometry
Dixon, Tom, MacPherson, Derek, Mostofian, Barmak, Dauzhenka, Taras, Lotz, Samuel, McGee, Dwight, Shechter, Sharon, Shrestha, Utsab R., Wiewiora, Rafal, McDargh, Zachary A., Pei, Fen, Pal, Rajat, Ribeiro, João V., Wilkerson, Tanner, Sachdeva, Vipin, Gao, Ning, Jain, Shourya, Sparks, Samuel, Li, Yunxing, Vinitsky, Alexander, Zhang, Xin, Razavi, Asghar M., Kolossváry, István, Imbriglio, Jason, Evdokimov, Artem, Bergeron, Louise, Zhou, Wenchang, Adhikari, Jagat, Ruprecht, Benjamin, Dickson, Alex, Xu, Huafeng, Sherman, Woody, Izaguirre, Jesus A.
Published in Nature communications (06.10.2022)
Published in Nature communications (06.10.2022)
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Journal Article
Disordered Domain Shifts the Conformational Ensemble of the Folded Regulatory Domain of the Multidomain Oncoprotein c‑Src
Gurumoorthy, Viswanathan, Shrestha, Utsab R., Zhang, Qiu, Pingali, Sai Venkatesh, Boder, Eric T., Urban, Volker S., Smith, Jeremy C., Petridis, Loukas, O’Neill, Hugh
Published in Biomacromolecules (13.02.2023)
Published in Biomacromolecules (13.02.2023)
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Journal Article
Mesophilic Pyrophosphatase Function at High Temperature: A Molecular Dynamics Simulation Study
Agarwal, Rupesh, Shrestha, Utsab R., Chu, Xiang-Qiang, Petridis, Loukas, Smith, Jeremy C.
Published in Biophysical journal (07.07.2020)
Published in Biophysical journal (07.07.2020)
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Journal Article
Arabinose substitution effect on xylan rigidity and self-aggregation
Shrestha, Utsab R., Smith, Sydney, Pingali, Sai Venkatesh, Yang, Hui, Zahran, Mai, Breunig, Lloyd, Wilson, Liza A., Kowali, Margaret, Kubicki, James D., Cosgrove, Daniel J., O’Neill, Hugh M., Petridis, Loukas
Published in Cellulose (London) (15.03.2019)
Published in Cellulose (London) (15.03.2019)
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Journal Article
Effect of molecular shape on rotation under severe confinement
Dhiman, I., Bhowmik, D., Shrestha, Utsab R., Cole, D.R., Gautam, S.
Published in Chemical engineering science (28.04.2018)
Published in Chemical engineering science (28.04.2018)
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Journal Article
Effects of pressure on the dynamics of an oligomeric protein from deep-sea hyperthermophile
Shrestha, Utsab R., Bhowmik, Debsindhu, Copley, John R. D., Tyagi, Madhusudan, Leão, Juscelino B., Chu, Xiang-qiang, 储祥蔷
Published in Proceedings of the National Academy of Sciences - PNAS (10.11.2015)
Published in Proceedings of the National Academy of Sciences - PNAS (10.11.2015)
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Journal Article
Small-Angle Neutron Scattering Reveals Energy Landscape for Rhodopsin Photoactivation
Perera, Suchithranga M. D. C, Chawla, Udeep, Shrestha, Utsab R, Bhowmik, Debsindhu, Struts, Andrey V, Qian, Shuo, Chu, Xiang-Qiang, Brown, Michael F
Published in The journal of physical chemistry letters (20.12.2018)
Published in The journal of physical chemistry letters (20.12.2018)
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Journal Article
Using Small-Angle Scattering Data and Parametric Machine Learning to Optimize Force Field Parameters for Intrinsically Disordered Proteins
Demerdash, Omar, Shrestha, Utsab R, Petridis, Loukas, Smith, Jeremy C, Mitchell, Julie C, Ramanathan, Arvind
Published in Frontiers in molecular biosciences (13.08.2019)
Published in Frontiers in molecular biosciences (13.08.2019)
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Journal Article
Experimental mapping of short-wavelength phonons in proteins
Shrestha, Utsab R., Mamontov, Eugene, O'Neill, Hugh M., Zhang, Qiu, Kolesnikov, Alexander I., Chu, Xiangqiang
Published in Innovation (New York, NY) (25.01.2022)
Published in Innovation (New York, NY) (25.01.2022)
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Journal Article
Quasi-elastic Neutron Scattering Reveals Ligand-Induced Protein Dynamics of a G‑Protein-Coupled Receptor
Shrestha, Utsab R, Perera, Suchithranga M. D. C, Bhowmik, Debsindhu, Chawla, Udeep, Mamontov, Eugene, Brown, Michael F, Chu, Xiang-Qiang
Published in The journal of physical chemistry letters (20.10.2016)
Published in The journal of physical chemistry letters (20.10.2016)
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Journal Article
Collective Excitations in Protein as a Measure of Balance Between its Softness and Rigidity
Shrestha, Utsab R, Bhowmik, Debsindhu, Van Delinder, Kurt W, Mamontov, Eugene, O’Neill, Hugh, Zhang, Qiu, Alatas, Ahmet, Chu, Xiang-Qiang
Published in The journal of physical chemistry. B (09.02.2017)
Published in The journal of physical chemistry. B (09.02.2017)
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Journal Article
Water molecule ordering on the surface of an intrinsically disordered protein
Vural, Derya, Shrestha, Utsab R., Petridis, Loukas, Smith, Jeremy C.
Published in Biophysical journal (14.10.2023)
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Published in Biophysical journal (14.10.2023)
Journal Article
Correlation of lumbar disc degeneration and spinal-pelvic sagittal balance
Liu, Hui, Shrivastava, Shilabant Rajesh, Zheng, Zhao-min, Wang, Jian-ru, Yang, Hao, Li, Ze-min, Wang, Tai-ping, Wang, Hua, Utsab, Shrestha
Published in Zhong hua yi xue za zhi (16.04.2013)
Published in Zhong hua yi xue za zhi (16.04.2013)
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Journal Article
Domain camoflouge of c-Src: segmental labeling highlights oncoprotein domains for neutron scattering
Gurumoorthy, Viswanathan, Shrestha, Utsab, Venkatesh Pingali, Sai, Smith, Jeremy C., Urban, Volker, Petridis, Loukas, O'Neill, Hugh M.
Published in Biophysical journal (11.02.2022)
Published in Biophysical journal (11.02.2022)
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Journal Article