De novo design of a non-local β-sheet protein with high stability and accuracy

Autor: Gustav Oberdorfer, Santrupti Nerli, David Baker, Lauren Carter, Konstantinos Tripsianes, Nikolaos G. Sgourakis, Andrew C. McShan, Lucas G. Nivón, Enrique Marcos, Tamuka M. Chidyausiku, Audrey Davis, Thomas Evangelidis

Publikováno v: Nature structural & molecular biology

β-sheet proteins carry out critical functions in biology, and hence are attractive scaffolds for computational protein design. Despite this potential, de novo design of all-β-sheet proteins from first principles lags far behind the design of all-α

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::21b68551131c2cbeda9fd08b000bcb3a
http://europepmc.org/articles/PMC6219906

Amino acid sequence of the Felis catus prion protein

Autor: Kurt Wüthrich, Lucas G. Nivón, Dominikus A. Lysek

Publikováno v: Gene. 341:249-253

A new determination of the house cat (Felis catus) prion protein gene sequence (fPrnp), which has so far been subject of controversy, is reported. The newly determined fPrnp sequence is similar to dog (Canis familiaris) and mink (Mustela putorius) Pr

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::654a4ff8a4b1a92b0fa8d67b56d966fc
https://doi.org/10.1016/j.gene.2004.07.002

Computational design of a red fluorophore ligase for site-specific protein labeling in living cells

Autor: Catherine L. Drennan, Lucas G. Nivón, Florian Richter, Anne Z. Ye, Douglas S. Richardson, David Baker, Peter Goldman, Jennifer Z. Yao, Daniel S. Liu, Mark H. Ellisman, William S. Phipps, Thomas J. Deerinck, Alice Y. Ting

Publikováno v: Proceedings of the National Academy of Sciences of the United States of America
Proceedings of the National Academy of Sciences of the United States of America, vol 111, iss 43

Chemical fluorophores offer tremendous size and photophysical advantages over fluorescent proteins but are much more challenging to target to specific cellular proteins. Here, we used Rosetta-based computation to design a fluorophore ligase that acce

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::8c7f221ac3b138fc989a3f46a3939c51
https://hdl.handle.net/11858/00-001M-0000-0024-4092-A11858/00-001M-0000-0024-408F-311858/00-001M-0000-0024-4091-C

Computational Design of Enone-Binding Proteins with Catalytic Activity for the Morita-Baylis-Hillman Reaction

Autor: Sinisa Bjelic, Forrest E. Michael, David Baker, Scott Lew, Gert Kiss, Jasmine L. Gallaher, Helena M. Lovick, John F. Hunt, Gaetano T. Montelione, Erica L. Ingalls, Lucas G. Nivón, Kendall N. Houk, Nihan Çelebi-Ölçüm, Jayaraman Seetharaman, Carolyn F. Rosewall

The Morita-Baylis-Hillman reaction forms a carbon-carbon bond between the alpha carbon of a conjugated carbonyl compound and a carbon electrophile. The reaction mechanism involves Michael addition of a nucleophile catalyst at the carbonyl beta carbon

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::fec4d63de181fde4358467b377a9b20f
https://europepmc.org/articles/PMC3647451/

Two Distinct Binding Modes of a Protein Cofactor with its Target RNA

Autor: Minh Hong, Xiaowei Zhuang, Shixin Liu, Gregory Bokinsky, Geqing Chai, Kevin M. Weeks, Lucas G. Nivón

Like most cellular RNA enzymes, the bI5 group I intron requires binding by a protein cofactor to fold correctly. Here, we use single-molecule approaches to monitor the structural dynamics of the bI5 RNA in real time as it assembles with its CBP2 prot

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::31167185f42247404c2fe8bacd5409f9