FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W1569656372> ?p ?o ?g. }

• W1569656372 endingPage "48" @default.
• W1569656372 startingPage "35" @default.
• W1569656372 abstract "The identification of protein–protein interactions is vital for understanding protein function, elucidating interaction mechanisms, and for practical applications in drug discovery. With the exponentially growing protein sequence data, fully automated computational methods that predict interactions between proteins are becoming essential components of system‐level function inference. A thorough analysis of protein complex structures demonstrated that binding site locations as well as the interfacial geometry are highly conserved across evolutionarily related proteins. Because the conformational space of protein–protein interactions is highly covered by experimental structures, sensitive protein threading techniques can be used to identify suitable templates for the accurate prediction of interfacial residues. Toward this goal, we developed e FindSite PPI , an algorithm that uses the three‐dimensional structure of a target protein, evolutionarily remotely related templates and machine learning techniques to predict binding residues. Using crystal structures, the average sensitivity (specificity) of e FindSite PPI in interfacial residue prediction is 0.46 (0.92). For weakly homologous protein models, these values only slightly decrease to 0.40–0.43 (0.91–0.92) demonstrating that e FindSite PPI performs well not only using experimental data but also tolerates structural imperfections in computer‐generated structures. In addition, e FindSite PPI detects specific molecular interactions at the interface; for instance, it correctly predicts approximately one half of hydrogen bonds and aromatic interactions, as well as one third of salt bridges and hydrophobic contacts. Comparative benchmarks against several dimer datasets show that e FindSite PPI outperforms other methods for protein‐binding residue prediction. It also features a carefully tuned confidence estimation system, which is particularly useful in large‐scale applications using raw genomic data. e FindSite PPI is freely available to the academic community at http://www.brylinski.org/efindsiteppi . Copyright © 2014 John Wiley & Sons, Ltd." @default.
• W1569656372 created "2016-06-24" @default.
• W1569656372 creator A5033579800 @default.
• W1569656372 creator A5084215922 @default.
• W1569656372 date "2015-01-01" @default.
• W1569656372 modified "2023-10-16" @default.
• W1569656372 title "Prediction of protein-protein interaction sites from weakly homologous template structures using meta-threading and machine learning" @default.
• W1569656372 cites W1548757996 @default.
• W1569656372 cites W1580328099 @default.
• W1569656372 cites W1877203705 @default.
• W1569656372 cites W1926568554 @default.
• W1569656372 cites W1977845138 @default.
• W1569656372 cites W1982309045 @default.
• W1569656372 cites W1987749411 @default.
• W1569656372 cites W1994803330 @default.
• W1569656372 cites W1995875735 @default.
• W1569656372 cites W1997037174 @default.
• W1569656372 cites W1999390565 @default.
• W1569656372 cites W2000093524 @default.
• W1569656372 cites W2004360551 @default.
• W1569656372 cites W2014499409 @default.
• W1569656372 cites W2021703339 @default.
• W1569656372 cites W2031772330 @default.
• W1569656372 cites W2035503835 @default.
• W1569656372 cites W2035634619 @default.
• W1569656372 cites W2036509722 @default.
• W1569656372 cites W2039473152 @default.
• W1569656372 cites W2040074453 @default.
• W1569656372 cites W2042730255 @default.
• W1569656372 cites W2046407284 @default.
• W1569656372 cites W2047399603 @default.
• W1569656372 cites W2048466187 @default.
• W1569656372 cites W2056169996 @default.
• W1569656372 cites W2058933664 @default.
• W1569656372 cites W2064383522 @default.
• W1569656372 cites W2065430316 @default.
• W1569656372 cites W2067852761 @default.
• W1569656372 cites W2091734240 @default.
• W1569656372 cites W2093916754 @default.
• W1569656372 cites W2094148990 @default.
• W1569656372 cites W2095805596 @default.
• W1569656372 cites W2097697746 @default.
• W1569656372 cites W2097698280 @default.
• W1569656372 cites W2103210604 @default.
• W1569656372 cites W2104760790 @default.
• W1569656372 cites W2108211735 @default.
• W1569656372 cites W2118737745 @default.
• W1569656372 cites W2127745456 @default.
• W1569656372 cites W2128888818 @default.
• W1569656372 cites W2130479394 @default.
• W1569656372 cites W2136447625 @default.
• W1569656372 cites W2137991504 @default.
• W1569656372 cites W2139262886 @default.
• W1569656372 cites W2141627824 @default.
• W1569656372 cites W2142757818 @default.
• W1569656372 cites W2153635508 @default.
• W1569656372 cites W2155194485 @default.
• W1569656372 cites W2158714788 @default.
• W1569656372 cites W2160902835 @default.
• W1569656372 cites W2161151688 @default.
• W1569656372 cites W2161692857 @default.
• W1569656372 cites W2162682281 @default.
• W1569656372 cites W2163352757 @default.
• W1569656372 cites W2169834479 @default.
• W1569656372 cites W2315598842 @default.
• W1569656372 cites W2915344963 @default.
• W1569656372 cites W4302414012 @default.
• W1569656372 doi "https://doi.org/10.1002/jmr.2410" @default.
• W1569656372 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/26268369" @default.
• W1569656372 hasPublicationYear "2015" @default.
• W1569656372 type Work @default.
• W1569656372 sameAs 1569656372 @default.
• W1569656372 citedByCount "22" @default.
• W1569656372 countsByYear W15696563722015 @default.
• W1569656372 countsByYear W15696563722016 @default.
• W1569656372 countsByYear W15696563722017 @default.
• W1569656372 countsByYear W15696563722019 @default.
• W1569656372 countsByYear W15696563722020 @default.
• W1569656372 countsByYear W15696563722021 @default.
• W1569656372 countsByYear W15696563722022 @default.
• W1569656372 crossrefType "journal-article" @default.
• W1569656372 hasAuthorship W1569656372A5033579800 @default.
• W1569656372 hasAuthorship W1569656372A5084215922 @default.
• W1569656372 hasConcept C104317684 @default.
• W1569656372 hasConcept C11804247 @default.
• W1569656372 hasConcept C171250308 @default.
• W1569656372 hasConcept C178180057 @default.
• W1569656372 hasConcept C18051474 @default.
• W1569656372 hasConcept C185592680 @default.
• W1569656372 hasConcept C186060115 @default.
• W1569656372 hasConcept C192562407 @default.
• W1569656372 hasConcept C200307862 @default.
• W1569656372 hasConcept C2986374874 @default.
• W1569656372 hasConcept C41008148 @default.
• W1569656372 hasConcept C47701112 @default.
• W1569656372 hasConcept C55493867 @default.
• W1569656372 hasConcept C65556437 @default.
• W1569656372 hasConcept C70721500 @default.

• next