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  How do I get the most out of my protein sequence using bioinformatics tools?

Pereira, J., & Alva, V. (2021). How do I get the most out of my protein sequence using bioinformatics tools? Acta Crystallographica Section D: Structural Biology, 77(9), 1116-1126. doi:10.1107/S2059798321007907.

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Pereira, J1, Autor           
Alva, V1, 2, Autor           
Affiliations:
1Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society, ou_3375791              
2Protein Bioinformatics Group, Department Protein Evolution, Max Planck Institute for Developmental Biology, Max Planck Society, ou_3477398              

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 Zusammenfassung: Biochemical and biophysical experiments are essential for uncovering the three-dimensional structure and biological role of a protein of interest. However, meaningful predictions can frequently also be made using bioinformatics resources that transfer knowledge from a well studied protein to an uncharacterized protein based on their evolutionary relatedness. These predictions are helpful in developing specific hypotheses to guide wet-laboratory experiments. Commonly used bioinformatics resources include methods to identify and predict conserved sequence motifs, protein domains, transmembrane segments, signal sequences, and secondary as well as tertiary structure. Here, several such methods available through the MPI Bioinformatics Toolkit (https://toolkit.tuebingen.mpg.de) are described and how their combined use can provide meaningful information on a protein of unknown function is demonstrated. In particular, the identification of homologs of known structure using HHpred, internal repeats using HHrepID, coiled coils using PCOILS and DeepCoil, and transmembrane segments using Quick2D are focused on.

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 Datum: 2021-09
 Publikationsstatus: Erschienen
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 Identifikatoren: DOI: 10.1107/S2059798321007907
PMID: 34473083
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Titel: Acta Crystallographica Section D: Structural Biology
  Kurztitel : Acta Cryst. D
Genre der Quelle: Zeitschrift
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Ort, Verlag, Ausgabe: Chester, England : International Union of Crystallography
Seiten: - Band / Heft: 77 (9) Artikelnummer: - Start- / Endseite: 1116 - 1126 Identifikator: ISSN: 2059-7983
CoNE: https://pure.mpg.de/cone/journals/resource/2059-7983