Journal Article

DKFZ-2017-02253

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png Mechismo: predicting the mechanistic impact of mutations and modifications on molecular interactions.

Betts, M. J. ; Lu, Q. ; Jiang, Y. ; Drusko, A. ; Wichmann, O. ; Utz, M. ; Valtierra-Gutiérrez, I. A. ; Schlesner, M.DKFZ* ; Jaeger, N.DKFZ* ; Jones, D.DKFZ* ; Pfister, S.DKFZ* ; Lichter, P.DKFZ* ; Eils, R.DKFZ* ; Siebert, R. ; Bork, P. ; Apic, G. ; Gavin, A.-C. ; Russell, R. B.

2015
Oxford Univ. Press44364 Oxford

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Please use a persistent id in citations: doi:10.1093/nar/gku1094

Abstract: Systematic interrogation of mutation or protein modification data is important to identify sites with functional consequences and to deduce global consequences from large data sets. Mechismo (mechismo.russellab.org) enables simultaneous consideration of thousands of 3D structures and biomolecular interactions to predict rapidly mechanistic consequences for mutations and modifications. As useful functional information often only comes from homologous proteins, we benchmarked the accuracy of predictions as a function of protein/structure sequence similarity, which permits the use of relatively weak sequence similarities with an appropriate confidence measure. For protein-protein, protein-nucleic acid and a subset of protein-chemical interactions, we also developed and benchmarked a measure of whether modifications are likely to enhance or diminish the interactions, which can assist the detection of modifications with specific effects. Analysis of high-throughput sequencing data shows that the approach can identify interesting differences between cancers, and application to proteomics data finds potential mechanistic insights for how post-translational modifications can alter biomolecular interactions.

Keyword(s): Proteins

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Contributing Institute(s):

1. Theoretische Bioinformatik (B080)
2. Pädiatrische Neuroonkologie (B062)
3. Molekulare Genetik (B060)

Research Program(s):

1. 312 - Functional and structural genomics (POF3-312) (POF3-312)

Appears in the scientific report 2015

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Database coverage:
; ; Allianz-Lizenz / DFG ; BIOSIS Previews ; Current Contents - Life Sciences ; DOAJ Seal ; IF >= 5 ; JCR ; NCBI Molecular Biology Database ; Nationallizenz ; SCOPUS ; Science Citation Index ; Science Citation Index Expanded ; Thomson Reuters Master Journal List ; Web of Science Core Collection

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