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  Visual proteomics

Förster, F., Han, B.-G., & Beck, M. (2010). Visual proteomics. In Methods in Enzymology (pp. 215-243). Amsterdam: Elsevier.

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 Urheber:
Förster, Friedrich1, Autor
Han, Bong-Gyoon2, Autor
Beck, Martin3, Autor                 
Affiliations:
1Max Planck Institut of Biochemistry, Martinsried, Germany, ou_persistent22              
2Life Sciences Division, Lawrence Berkeley National Laboratory, University of Carlifornia, USA, ou_persistent22              
3Institute of Molecular Systems Biology, Eidgenössische Technische Hochschule, Zürich, Switzerland, ou_persistent22              

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Schlagwörter: Bacterial Proteins, Chaperonin 60, Computational Biology, Cryoelectron Microscopy, Desulfovibrio vulgaris, Leptospira interrogans, Protein Structure, Quaternary, Proteomics, Software, Tomography
 Zusammenfassung: Visual proteomics attempts to generate molecular atlases by providing the position and angular orientation of protein complexes inside of cells. This is accomplished by template matching (pattern recognition), a cross-correlation-based process that matches the structure of a specific protein complex to the densities of the whole volume or subvolume of a cell, that is typically acquired by cryoelectron tomography. Thereby, a search is performed that scans the entire volume for structural templates contained in a database. In this chapter, we primarily describe the practical experiences gained with visual proteomics during the Leptospira interrogans proteome project [Beck et al. (2009). Visual proteomics of the human pathogen Leptospira interrogans. Nat. Methods 6, 817.]. We give a practical guide how to implement the method and review critical experimental and computational aspects in detail. Based on a survey that has been undertaken for protein complexes from Desulfovibrio vulgaris, we review the difficulty of generating reference structures in detail. Finally, we discuss the high yield targets for technical improvements.

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Sprache(n): eng - English
 Datum: 20102010
 Publikationsstatus: Erschienen
 Seiten: 29
 Ort, Verlag, Ausgabe: -
 Inhaltsverzeichnis: -
 Art der Begutachtung: Expertenbegutachtung
 Identifikatoren: DOI: 10.1016/S0076-6879(10)83011-3
BibTex Citekey: forster_visual_2010
 Art des Abschluß: -

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Titel: Methods in Enzymology
Genre der Quelle: Reihe
 Urheber:
Affiliations:
Ort, Verlag, Ausgabe: Amsterdam : Elsevier
Seiten: - Band / Heft: 483 Artikelnummer: - Start- / Endseite: 215 - 243 Identifikator: ISSN: 1557-7988