Determination of ubiquitin fitness landscapes under different chemical stresses in a classroom setting

Autor: David Mavor, Kyle Barlow, Samuel Thompson, Benjamin A Barad, Alain R Bonny, Clinton L Cario, Garrett Gaskins, Zairan Liu, Laura Deming, Seth D Axen, Elena Caceres, Weilin Chen, Adolfo Cuesta, Rachel E Gate, Evan M Green, Kaitlin R Hulce, Weiyue Ji, Lillian R Kenner, Bruk Mensa, Leanna S Morinishi, Steven M Moss, Marco Mravic, Ryan K Muir, Stefan Niekamp, Chimno I Nnadi, Eugene Palovcak, Erin M Poss, Tyler D Ross, Eugenia C Salcedo, Stephanie K See, Meena Subramaniam, Allison W Wong, Jennifer Li, Kurt S Thorn, Shane Ó Conchúir, Benjamin P Roscoe, Eric D Chow, Joseph L DeRisi, Tanja Kortemme, Daniel N Bolon, James S Fraser

Publikováno v: eLife, Vol 5 (2016)

Ubiquitin is essential for eukaryotic life and varies in only 3 amino acid positions between yeast and humans. However, recent deep sequencing studies indicate that ubiquitin is highly tolerant to single mutations. We hypothesized that this tolerance

Externí odkaz: https://doaj.org/article/f3e8373dbc7b4012a1c82425c9fb49fb

Three-color single-molecule imaging reveals conformational dynamics of dynein undergoing motility

Autor: Stefan Niekamp, Ronald D. Vale, Nico Stuurman, Nan Zhang

Publikováno v: Proceedings of the National Academy of Sciences of the United States of America, vol 118, iss 31
Proceedings of the National Academy of Sciences of the United States of America

Significance Dynein, a dimeric motor protein, moves along microtubules through adenosine 5′-triphosphate- and thermal-driven motions of two large ring domains (AAA rings) and small microtubule-binding domains (MTBDs) separated by a long coiled-coil

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::be8971283a2d1f4dab80fce6140f6438
https://escholarship.org/uc/item/7pz1248h

A 6-nm ultra-photostable DNA Fluorocube for fluorescence imaging

Autor: Ronald D. Vale, Nico Stuurman, Stefan Niekamp

Publikováno v: Nature methods, vol 17, iss 4
Nature methods

Photobleaching limits extended imaging of fluorescent biological samples. Here, we developed DNA origami-based “Fluorocubes” that are similar in size to the green fluorescent protein (GFP), have single-point attachment to proteins, have a 50-fold

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::453f7a3d170c304fd5cbd549bb32d76d

Nanometer-accuracy distance measurements between fluorophores at the single-molecule level

Autor: Stefan Niekamp, Walter Huynh, Ronald D. Vale, Gira Bhabha, Jongmin Sung, Nico Stuurman

Publikováno v: Proceedings of the National Academy of Sciences of the United States of America, vol 116, iss 10
Proceedings of the National Academy of Sciences of the United States of America

Significance Measurements of macromolecular shapes provide insight into the mechanism of molecular machines. Distance measurements at the scale of biological macromolecules are often pursued by single-molecule fluorescence techniques. However, while

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::1d70a4dcd72a7b3ec5eee0dfb98e420b
https://escholarship.org/uc/item/1zb238z3

A New Method (Sigma-SHREC) for Two-Color Fluorescent Distance Measurements with Nanometer Accuracy

Autor: Ronald D. Vale, Nico Stuurman, Stefan Niekamp, Walter Huynh, Jongmin Sung

Publikováno v: Biophysical Journal. 114:14a-15a

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::df34209e0bf75df5fe2ec0a342440a80
https://doi.org/10.1016/j.bpj.2017.11.123