Zobrazeno 1 - 10
of 137
pro vyhledávání: '"Saraswathi Vishveshwara"'
Autor:
Vasundhara Gadiyaram, Vasam Manjveekar Prabantu, Arinnia Anto Manjaly, Ananth Muthiah, Saraswathi Vishveshwara
Publikováno v:
Current Research in Structural Biology, Vol 7, Iss , Pp 100147- (2024)
The function of a protein is most of the time achieved due to minute conformational changes in its structure due to ligand binding or environmental changes or other interactions. Hence the analysis of structure of proteins should go beyond the analys
Externí odkaz:
https://doaj.org/article/543e27fd4a7b4f9d939908b3670a2073
Autor:
Vasam Manjveekar Prabantu, Vasundhara Gadiyaram, Saraswathi Vishveshwara, Narayanaswamy Srinivasan
Publikováno v:
Current Research in Structural Biology, Vol 4, Iss , Pp 134-145 (2022)
Proteins perform their function by accessing a suitable conformer from the ensemble of available conformations. The conformational diversity of a chosen protein structure can be obtained by experimental methods under different conditions. A key issue
Externí odkaz:
https://doaj.org/article/74aea45c16ad4eaba06795c4df258f35
Autor:
Anushka Halder, Arinnia Anto, Varsha Subramanyan, Moitrayee Bhattacharyya, Smitha Vishveshwara, Saraswathi Vishveshwara
Publikováno v:
Frontiers in Molecular Biosciences, Vol 7 (2020)
Network theory-based approaches provide valuable insights into the variations in global structural connectivity between different dynamical states of proteins. Our objective is to review network-based analyses to elucidate such variations, especially
Externí odkaz:
https://doaj.org/article/a3af64f585b741a7bd2c0658cb62808d
Autor:
Zdeněk Dvořák, Felix Kopp, Cait M Costello, Jazmin S Kemp, Hao Li, Aneta Vrzalová, Martina Štěpánková, Iveta Bartoňková, Eva Jiskrová, Karolína Poulíková, Barbora Vyhlídalová, Lars U Nordstroem, Chamini V Karunaratne, Harmit S Ranhotra, Kyu Shik Mun, Anjaparavanda P Naren, Iain A Murray, Gary H Perdew, Julius Brtko, Lucia Toporova, Arne Schön, Bret D Wallace, William G Walton, Matthew R Redinbo, Katherine Sun, Amanda Beck, Sandhya Kortagere, Michelle C Neary, Aneesh Chandran, Saraswathi Vishveshwara, Maria M Cavalluzzi, Giovanni Lentini, Julia Yue Cui, Haiwei Gu, John C March, Shirshendu Chatterjee, Adam Matson, Dennis Wright, Kyle L Flannigan, Simon A Hirota, Ryan Balfour Sartor, Sridhar Mani
Publikováno v:
EMBO Molecular Medicine, Vol 12, Iss 4, Pp n/a-n/a (2020)
Abstract The human PXR (pregnane X receptor), a master regulator of drug metabolism, has essential roles in intestinal homeostasis and abrogating inflammation. Existing PXR ligands have substantial off‐target toxicity. Based on prior work that esta
Externí odkaz:
https://doaj.org/article/3bc1d75f8f9149f2b831e9fe3ca8d3bb
Autor:
Chen Keasar, Liam J. McGuffin, Björn Wallner, Gaurav Chopra, Badri Adhikari, Debswapna Bhattacharya, Lauren Blake, Leandro Oliveira Bortot, Renzhi Cao, B. K. Dhanasekaran, Itzhel Dimas, Rodrigo Antonio Faccioli, Eshel Faraggi, Robert Ganzynkowicz, Sambit Ghosh, Soma Ghosh, Artur Giełdoń, Lukasz Golon, Yi He, Lim Heo, Jie Hou, Main Khan, Firas Khatib, George A. Khoury, Chris Kieslich, David E. Kim, Pawel Krupa, Gyu Rie Lee, Hongbo Li, Jilong Li, Agnieszka Lipska, Adam Liwo, Ali Hassan A. Maghrabi, Milot Mirdita, Shokoufeh Mirzaei, Magdalena A. Mozolewska, Melis Onel, Sergey Ovchinnikov, Anand Shah, Utkarsh Shah, Tomer Sidi, Adam K. Sieradzan, Magdalena Ślusarz, Rafal Ślusarz, James Smadbeck, Phanourios Tamamis, Nicholas Trieber, Tomasz Wirecki, Yanping Yin, Yang Zhang, Jaume Bacardit, Maciej Baranowski, Nicholas Chapman, Seth Cooper, Alexandre Defelicibus, Jeff Flatten, Brian Koepnick, Zoran Popović, Bartlomiej Zaborowski, David Baker, Jianlin Cheng, Cezary Czaplewski, Alexandre Cláudio Botazzo Delbem, Christodoulos Floudas, Andrzej Kloczkowski, Stanislaw Ołdziej, Michael Levitt, Harold Scheraga, Chaok Seok, Johannes Söding, Saraswathi Vishveshwara, Dong Xu, Foldit Players consortium, Silvia N. Crivelli
Publikováno v:
Scientific Reports, Vol 8, Iss 1, Pp 1-18 (2018)
Abstract Every two years groups worldwide participate in the Critical Assessment of Protein Structure Prediction (CASP) experiment to blindly test the strengths and weaknesses of their computational methods. CASP has significantly advanced the field
Externí odkaz:
https://doaj.org/article/b0b847aec1154062a3c86bac14d94e55
Publikováno v:
PLoS Computational Biology, Vol 11, Iss 12, p e1004500 (2015)
Metalloproteins form a major class of enzymes in the living system that are involved in crucial biological functions such as catalysis, redox reactions and as 'switches' in signal transductions. Iron dependent repressor (IdeR) is a metal-sensing tran
Externí odkaz:
https://doaj.org/article/53b8557a86dd422193147dc311932426
Autor:
Soma Ghosh, Saraswathi Vishveshwara
Publikováno v:
F1000Research, Vol 3 (2014)
Determining the correct structure of a protein given its sequence still remains an arduous task with many researchers working towards this goal. Most structure prediction methodologies result in the generation of a large number of probable candidates
Externí odkaz:
https://doaj.org/article/98ac4f3a3b0140a5b34d37b4deb7e34a
Publikováno v:
PLoS ONE, Vol 7, Iss 12, p e51676 (2012)
The fidelity of the folding pathways being encoded in the amino acid sequence is met with challenge in instances where proteins with no sequence homology, performing different functions and no apparent evolutionary linkage, adopt a similar fold. The
Externí odkaz:
https://doaj.org/article/37b8ce3e3313430082003dd354aff6ab
Publikováno v:
PLoS Computational Biology, Vol 8, Iss 5, p e1002505 (2012)
There are many well-known examples of proteins with low sequence similarity, adopting the same structural fold. This aspect of sequence-structure relationship has been extensively studied both experimentally and theoretically, however with limited su
Externí odkaz:
https://doaj.org/article/7d767ac614ce45e099e0aa5088a30f2c
Publikováno v:
PLoS ONE, Vol 4, Iss 8, p e6684 (2009)
In this paper, we present numerical evidence that supports the notion of minimization in the sequence space of proteins for a target conformation. We use the conformations of the real proteins in the Protein Data Bank (PDB) and present computationall
Externí odkaz:
https://doaj.org/article/b38c2ad2206c4f22a858c3a24c1ddce9