Matches in SemOpenAlex for { <https://semopenalex.org/work/W3137588455> ?p ?o ?g. }
- W3137588455 endingPage "e1008818" @default.
- W3137588455 startingPage "e1008818" @default.
- W3137588455 abstract "Amphipathic helices have hydrophobic and hydrophilic/charged residues situated on opposite faces of the helix. They can anchor peripheral membrane proteins to the membrane, be attached to integral membrane proteins, or exist as independent peptides. Despite the widespread presence of membrane-interacting amphipathic helices, there is no computational tool within Rosetta to model their interactions with membranes. In order to address this need, we developed the AmphiScan protocol with PyRosetta, which runs a grid search to find the most favorable position of an amphipathic helix with respect to the membrane. The performance of the algorithm was tested in benchmarks with the RosettaMembrane , ref2015_memb , and franklin2019 score functions on six engineered and 44 naturally-occurring amphipathic helices using membrane coordinates from the OPM and PDBTM databases, OREMPRO server, and MD simulations for comparison. The AmphiScan protocol predicted the coordinates of amphipathic helices within less than 3Å of the reference structures and identified membrane-embedded residues with a Matthews Correlation Constant (MCC) of up to 0.57. Overall, AmphiScan stands as fast, accurate, and highly-customizable protocol that can be pipelined with other Rosetta and Python applications." @default.
- W3137588455 created "2021-03-29" @default.
- W3137588455 creator A5019958884 @default.
- W3137588455 creator A5046955385 @default.
- W3137588455 date "2021-03-17" @default.
- W3137588455 modified "2023-09-29" @default.
- W3137588455 title "Prediction of amphipathic helix—membrane interactions with Rosetta" @default.
- W3137588455 cites W135702927 @default.
- W3137588455 cites W1857017278 @default.
- W3137588455 cites W1879820513 @default.
- W3137588455 cites W1967316941 @default.
- W3137588455 cites W1968077410 @default.
- W3137588455 cites W1990771438 @default.
- W3137588455 cites W1996355353 @default.
- W3137588455 cites W2008968082 @default.
- W3137588455 cites W2026530461 @default.
- W3137588455 cites W2027699805 @default.
- W3137588455 cites W2029653438 @default.
- W3137588455 cites W2029882655 @default.
- W3137588455 cites W2034521636 @default.
- W3137588455 cites W2044993462 @default.
- W3137588455 cites W2056402029 @default.
- W3137588455 cites W2063102132 @default.
- W3137588455 cites W2065943239 @default.
- W3137588455 cites W2067706841 @default.
- W3137588455 cites W2069863445 @default.
- W3137588455 cites W2085136523 @default.
- W3137588455 cites W2088598791 @default.
- W3137588455 cites W2091622692 @default.
- W3137588455 cites W2095512917 @default.
- W3137588455 cites W2101810621 @default.
- W3137588455 cites W2104434319 @default.
- W3137588455 cites W2112014931 @default.
- W3137588455 cites W2114471659 @default.
- W3137588455 cites W2119993590 @default.
- W3137588455 cites W2131390096 @default.
- W3137588455 cites W2140831051 @default.
- W3137588455 cites W2141500961 @default.
- W3137588455 cites W2147796031 @default.
- W3137588455 cites W2149529602 @default.
- W3137588455 cites W2151363352 @default.
- W3137588455 cites W2151581834 @default.
- W3137588455 cites W2153654642 @default.
- W3137588455 cites W2155839962 @default.
- W3137588455 cites W2162274915 @default.
- W3137588455 cites W2166137928 @default.
- W3137588455 cites W2170670602 @default.
- W3137588455 cites W2265164857 @default.
- W3137588455 cites W2323104785 @default.
- W3137588455 cites W2332712348 @default.
- W3137588455 cites W2335866036 @default.
- W3137588455 cites W2404280981 @default.
- W3137588455 cites W2604223107 @default.
- W3137588455 cites W2767063510 @default.
- W3137588455 cites W2783944345 @default.
- W3137588455 cites W2809900338 @default.
- W3137588455 cites W2901361432 @default.
- W3137588455 cites W2936969503 @default.
- W3137588455 cites W2953362071 @default.
- W3137588455 cites W2970715101 @default.
- W3137588455 cites W3011535809 @default.
- W3137588455 doi "https://doi.org/10.1371/journal.pcbi.1008818" @default.
- W3137588455 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/8007005" @default.
- W3137588455 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/33730029" @default.
- W3137588455 hasPublicationYear "2021" @default.
- W3137588455 type Work @default.
- W3137588455 sameAs 3137588455 @default.
- W3137588455 citedByCount "3" @default.
- W3137588455 countsByYear W31375884552021 @default.
- W3137588455 countsByYear W31375884552022 @default.
- W3137588455 countsByYear W31375884552023 @default.
- W3137588455 crossrefType "journal-article" @default.
- W3137588455 hasAuthorship W3137588455A5019958884 @default.
- W3137588455 hasAuthorship W3137588455A5046955385 @default.
- W3137588455 hasBestOaLocation W31375884551 @default.
- W3137588455 hasConcept C12554922 @default.
- W3137588455 hasConcept C144647389 @default.
- W3137588455 hasConcept C15920480 @default.
- W3137588455 hasConcept C161200384 @default.
- W3137588455 hasConcept C178790620 @default.
- W3137588455 hasConcept C185592680 @default.
- W3137588455 hasConcept C18903297 @default.
- W3137588455 hasConcept C2778530040 @default.
- W3137588455 hasConcept C2779965526 @default.
- W3137588455 hasConcept C41625074 @default.
- W3137588455 hasConcept C521977710 @default.
- W3137588455 hasConcept C55493867 @default.
- W3137588455 hasConcept C560191 @default.
- W3137588455 hasConcept C67407626 @default.
- W3137588455 hasConcept C8010536 @default.
- W3137588455 hasConcept C86803240 @default.
- W3137588455 hasConceptScore W3137588455C12554922 @default.
- W3137588455 hasConceptScore W3137588455C144647389 @default.
- W3137588455 hasConceptScore W3137588455C15920480 @default.
- W3137588455 hasConceptScore W3137588455C161200384 @default.
- W3137588455 hasConceptScore W3137588455C178790620 @default.
- W3137588455 hasConceptScore W3137588455C185592680 @default.
- W3137588455 hasConceptScore W3137588455C18903297 @default.