Zobrazeno 1 - 10
of 21
pro vyhledávání: '"Diego del Alamo"'
Publikováno v:
eLife, Vol 11 (2022)
Equilibrium fluctuations and triggered conformational changes often underlie the functional cycles of membrane proteins. For example, transporters mediate the passage of molecules across cell membranes by alternating between inward- and outward-facin
Externí odkaz:
https://doaj.org/article/cc2a5f25a21b4d9fac2ad36ac9cb3bba
Publikováno v:
PLoS Computational Biology, Vol 17, Iss 6, p e1009107 (2021)
We describe an approach for integrating distance restraints from Double Electron-Electron Resonance (DEER) spectroscopy into Rosetta with the purpose of modeling alternative protein conformations from an initial experimental structure. Fundamental to
Externí odkaz:
https://doaj.org/article/1599e04c3312432790c834f98fa1720e
We describe attempts to design protein sequences by inverting the protein structure prediction algorithm ESMFold. State-of-the-art protein structure prediction methods achieve high accuracy by relying on evolutionary patterns derived from either mult
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_________::2d6abdbe673c775410c7871504b1bcf1
https://doi.org/10.1101/2023.05.23.541774
https://doi.org/10.1101/2023.05.23.541774
Autor:
Diego del Alamo, Lillian DeSousa, Rahul M. Nair, Suhaila Rahman, Jens Meiler, Hassane S. Mchaourab
Publikováno v:
Proceedings of the National Academy of Sciences of the United States of America. 119(34)
The Amino Acid-Polyamine-Organocation transporter GadC contributes to the survival of pathogenic bacteria under extreme acid stress by exchanging extracellular glutamate for intracellular GABA. Its structure, determined exclusively in an inward-facin
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::2e20e8bebe861884305126f22c7ea6c4
https://pubmed.ncbi.nlm.nih.gov/35969794
https://pubmed.ncbi.nlm.nih.gov/35969794
Autor:
Nathan Alexander, Axel Fischer, Jeffrey L. Mendenhall, Nicholas J Hyman, Jens Meiler, Diego del Alamo, Rocco Moretti
Publikováno v:
Journal of Chemical Theory and Computation. 17:560-570
De novo construction of loop regions is an important problem in computational structural biology. Compared to regions with well-defined secondary structure, loops tend to exhibit significant conformational heterogeneity. As a result, their structures
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::660f7ec024c37b6f7c9adad6ce18bf60
https://doi.org/10.1021/acs.jctc.0c00836
https://doi.org/10.1021/acs.jctc.0c00836
Publikováno v:
eLife. 11
Equilibrium fluctuations and triggered conformational changes often underlie the functional cycles of membrane proteins. For example, transporters mediate the passage of molecules across cell membranes by alternating between inward- and outward-facin
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::c644b60ab598b2b25105548eddb743e5
https://pubmed.ncbi.nlm.nih.gov/35238773
https://pubmed.ncbi.nlm.nih.gov/35238773
Publikováno v:
Journal of Molecular Biology. 434:167746
Found in all domains of life, transporters belonging to the LeuT-fold class mediate the import and exchange of hydrophilic and charged compounds such as amino acids, metals, and sugar molecules. Nearly two decades of investigations on the eponymous b
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::103f7d9df8632a60d94221c778910b2b
https://doi.org/10.1016/j.jmb.2022.167746
https://doi.org/10.1016/j.jmb.2022.167746
Publikováno v:
PLoS Computational Biology, Vol 17, Iss 6, p e1009107 (2021)
PLoS Computational Biology
PLoS Computational Biology
We describe an approach for integrating distance restraints from Double Electron-Electron Resonance (DEER) spectroscopy into Rosetta with the purpose of modeling alternative protein conformations from an initial experimental structure. Fundamental to
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::3a0c1e12639ce1692a10e4709fe1a8e4
https://doaj.org/article/1599e04c3312432790c834f98fa1720e
https://doaj.org/article/1599e04c3312432790c834f98fa1720e
Publikováno v:
Structure. 30:1157-1168.e3
Conformational changes are an essential component of functional cycles of many proteins such as transporters or receptors. Despite their importance, the characterization of functionally-relevant structural intermediates is often a hard task for both
Externí odkaz:
https://explore.openaire.eu/search/publication?articleId=doi_dedup___::cf778f5903c542280f71a4a252398dfb
https://doi.org/10.1016/j.str.2022.04.013
https://doi.org/10.1016/j.str.2022.04.013