FRINK Linked Data Fragments server

Matches in SemOpenAlex for { <https://semopenalex.org/work/W2086941007> ?p ?o ?g. }

• W2086941007 endingPage "455" @default.
• W2086941007 startingPage "445" @default.
• W2086941007 abstract "Profile comparison methods have been shown to be very powerful in creating accurate alignments of protein sequences, especially in the case of remotely related proteins (RRP). These methods take advantage of the observation that hydrophobic profiles are more conserved than the corresponding amino acid sequences. Here, we present the PROFALIGN algorithm, which allows one to perform a detailed comparative analysis, at both local and global levels of two protein sequence profiles. The user can either choose among four different hydrophobic scales (Miyazawa-Jernigan, Eisenberg, Engelman-Steiz, and Kyte-Doolittle) or can add a personal scale. The interface is designed for a wide range of users, including those who are not involved in protein research. It allows one to vary the alignment parameters (such as gap penalties, embedding, and profile smoothness). Secondary structure propensity is added as an optional alignment filter. Similar segments of two proteins are singled out on the basis of score. We have tested the algorithm with different Src homology 3 (SH3) domain fragments sharing low sequence homology but very similar three-dimensional (3D) structures. By using the Miyazawa-Jernigan hydrophobic scale, PROFALIGN was able to detect the strong correlation between the regions that are known to be crucial for SH3 transition state topology. PROFALIGN seems able to identify most of the mutual alignment of structures on the basis of their hydrophobic profiles, delimiting the regions containing the key determinants of folding. Therefore, the present methodology may be useful for the detection of the most structurally relevant positions inside remote related proteins." @default.
• W2086941007 created "2016-06-24" @default.
• W2086941007 creator A5013428460 @default.
• W2086941007 creator A5031162633 @default.
• W2086941007 creator A5058496536 @default.
• W2086941007 date "2008-05-01" @default.
• W2086941007 modified "2023-10-16" @default.
• W2086941007 title "PROFALIGN Algorithm Identifies the Regions Containing Folding Determinants by Scoring Pairs of Hydrophobic Profiles of Remotely Related Proteins" @default.
• W2086941007 cites W1536428180 @default.
• W2086941007 cites W1590648220 @default.
• W2086941007 cites W1593987163 @default.
• W2086941007 cites W1967595679 @default.
• W2086941007 cites W1969051510 @default.
• W2086941007 cites W1971024387 @default.
• W2086941007 cites W1975304761 @default.
• W2086941007 cites W1981625739 @default.
• W2086941007 cites W2034669559 @default.
• W2086941007 cites W2062693912 @default.
• W2086941007 cites W2074231493 @default.
• W2086941007 cites W2074774389 @default.
• W2086941007 cites W2075292448 @default.
• W2086941007 cites W2089088187 @default.
• W2086941007 cites W2099075703 @default.
• W2086941007 cites W2102122585 @default.
• W2086941007 cites W2108642468 @default.
• W2086941007 cites W2134709166 @default.
• W2086941007 cites W2142529984 @default.
• W2086941007 cites W2144112248 @default.
• W2086941007 cites W2145268834 @default.
• W2086941007 cites W2147075997 @default.
• W2086941007 cites W2151631782 @default.
• W2086941007 cites W2151831732 @default.
• W2086941007 cites W2169602699 @default.
• W2086941007 cites W2170171070 @default.
• W2086941007 cites W2171546617 @default.
• W2086941007 doi "https://doi.org/10.1089/cmb.2007.0100" @default.
• W2086941007 hasPubMedId "https://pubmed.ncbi.nlm.nih.gov/18386966" @default.
• W2086941007 hasPublicationYear "2008" @default.
• W2086941007 type Work @default.
• W2086941007 sameAs 2086941007 @default.
• W2086941007 citedByCount "1" @default.
• W2086941007 countsByYear W20869410072022 @default.
• W2086941007 crossrefType "journal-article" @default.
• W2086941007 hasAuthorship W2086941007A5013428460 @default.
• W2086941007 hasAuthorship W2086941007A5031162633 @default.
• W2086941007 hasAuthorship W2086941007A5058496536 @default.
• W2086941007 hasConcept C104317684 @default.
• W2086941007 hasConcept C11413529 @default.
• W2086941007 hasConcept C114614502 @default.
• W2086941007 hasConcept C119599485 @default.
• W2086941007 hasConcept C127413603 @default.
• W2086941007 hasConcept C154945302 @default.
• W2086941007 hasConcept C165525559 @default.
• W2086941007 hasConcept C167625842 @default.
• W2086941007 hasConcept C169627665 @default.
• W2086941007 hasConcept C181199279 @default.
• W2086941007 hasConcept C184720557 @default.
• W2086941007 hasConcept C206276672 @default.
• W2086941007 hasConcept C2776545253 @default.
• W2086941007 hasConcept C33923547 @default.
• W2086941007 hasConcept C41008148 @default.
• W2086941007 hasConcept C41608201 @default.
• W2086941007 hasConcept C45484198 @default.
• W2086941007 hasConcept C47701112 @default.
• W2086941007 hasConcept C515207424 @default.
• W2086941007 hasConcept C54355233 @default.
• W2086941007 hasConcept C55493867 @default.
• W2086941007 hasConcept C70721500 @default.
• W2086941007 hasConcept C86803240 @default.
• W2086941007 hasConceptScore W2086941007C104317684 @default.
• W2086941007 hasConceptScore W2086941007C11413529 @default.
• W2086941007 hasConceptScore W2086941007C114614502 @default.
• W2086941007 hasConceptScore W2086941007C119599485 @default.
• W2086941007 hasConceptScore W2086941007C127413603 @default.
• W2086941007 hasConceptScore W2086941007C154945302 @default.
• W2086941007 hasConceptScore W2086941007C165525559 @default.
• W2086941007 hasConceptScore W2086941007C167625842 @default.
• W2086941007 hasConceptScore W2086941007C169627665 @default.
• W2086941007 hasConceptScore W2086941007C181199279 @default.
• W2086941007 hasConceptScore W2086941007C184720557 @default.
• W2086941007 hasConceptScore W2086941007C206276672 @default.
• W2086941007 hasConceptScore W2086941007C2776545253 @default.
• W2086941007 hasConceptScore W2086941007C33923547 @default.
• W2086941007 hasConceptScore W2086941007C41008148 @default.
• W2086941007 hasConceptScore W2086941007C41608201 @default.
• W2086941007 hasConceptScore W2086941007C45484198 @default.
• W2086941007 hasConceptScore W2086941007C47701112 @default.
• W2086941007 hasConceptScore W2086941007C515207424 @default.
• W2086941007 hasConceptScore W2086941007C54355233 @default.
• W2086941007 hasConceptScore W2086941007C55493867 @default.
• W2086941007 hasConceptScore W2086941007C70721500 @default.
• W2086941007 hasConceptScore W2086941007C86803240 @default.
• W2086941007 hasIssue "4" @default.
• W2086941007 hasLocation W20869410071 @default.
• W2086941007 hasLocation W20869410072 @default.
• W2086941007 hasOpenAccess W2086941007 @default.
• W2086941007 hasPrimaryLocation W20869410071 @default.
• W2086941007 hasRelatedWork W1992842793 @default.

• next