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Predicting Structural and Functional Properties of Membrane Proteins from Protein Sequence
- Metzger, Jennifer (author)
- Schaadt, Nadine S. (author)
-
- Hayat, Sikander (author)
- Stockholms universitet,Institutionen för biokemi och biofysik
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- Helms, Volkhard (author)
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- (creator_code:org_t)
- Amsterdam : Elsevier Science BV, 2011
- 2011
- English.
- In: Annual Reports in Computational Chemistry. - Amsterdam : Elsevier Science BV. - 9780444543028 ; , s. 39-64
- Book chapter (peer-reviewed)
Abstract
Subject headings
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- Integral transmembrane (TM) proteins are essential constituents of biological membranes where they fulfill a variety of important cellular functions. Because of difficulties with determining their structures by experimental techniques, comparably few 3D structures of membrane proteins are known so far. Therefore, computational methods trained on the available structures using only the protein sequence as input have become important tools in this field. In this chapter, we give a short introduction to the topic and then summarize recent bioinformatics tools for the prediction of structural as well as functional properties of alpha-helical and beta-barrel TM proteins. We present methods that allow predicting the locations of alpha-helical and beta-strand TM segments, to determine the exposure status of residues in the TM region to the surrounding lipids, and that allow functional annotations from the protein sequence.
Subject headings
- NATURVETENSKAP -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
- NATURVETENSKAP -- Data- och informationsvetenskap -- Annan data- och informationsvetenskap (hsv//swe)
- NATURAL SCIENCES -- Computer and Information Sciences -- Other Computer and Information Science (hsv//eng)
Keyword
- membrane protein topology
- helical bundle
- beta barrel
- helix kink
- reentrant loop
- helix interaction
- lipid exposure
- propensity scale
- functional classification
- position-specific scoring matrix
- amino acid composition
Publication and Content Type
- ref (subject category)
- kap (subject category)
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