The Use of Internal and External Functional Domains to Improve Transmembrane Protein Topology Prediction
نویسندگان
چکیده
................................................................................................................................................ iii Acknowledgements................................................................................................................................iv Table of
منابع مشابه
The use of functional domains to improve transmembrane protein topology prediction
Transmembrane proteins affect vital cellular functions and pathogenesis, and are a focus of drug design. It is difficult to obtain diffraction quality crystals to study transmembrane protein structure. Computational tools for transmembrane protein topology prediction fill in the gap between the abundance of transmembrane proteins and the scarcity of known membrane protein structures. Their pred...
متن کاملMolecular Insight into the Mutual Interactions of Two Transmembrane Domains of Human Glycine Receptor (TM23-GlyR), with the Lipid Bilayers
Appearing as a computational microscope, MD simulation can ‘zoom in’ to atomic resolution to assess detailed interactions of a membrane protein with its surrounding lipids, which play important roles in the stability and function of such proteins. This study has employed the molecular dynamics (MD) simulations, to determine the effect of added DMPC or DMTAP molecules on the structure of D...
متن کاملIdentification of Extracellular Segments by Mass Spectrometry Improves Topology Prediction of Transmembrane Proteins
Transmembrane proteins play crucial role in signaling, ion transport, nutrient uptake, as well as in maintaining the dynamic equilibrium between the internal and external environment of cells. Despite their important biological functions and abundance, less than 2% of all determined structures are transmembrane proteins. Given the persisting technical difficulties associated with high resolutio...
متن کاملHTP: a neural network-based method for predicting the topology of helical transmembrane domains in proteins
In this paper we describe a microcomputer program (HTP) for predicting the location and orientation of alpha-helical transmembrane segments in integral membrane proteins. HTP is a neural network-based tool which gives as output the protein membrane topology based on the statistical propensity of residues to be located in external and internal loops. This method, which uses single protein sequen...
متن کاملTopology of eukaryotic multispanning transmembrane proteins: use of LacZ fusions for the localization of cytoplasmic domains in COS.M6 cells.
In Escherichia coli, the topology of inner membrane proteins can be studied conveniently with the alkaline phosphatase/beta-galactosidase (PhoA/LacZ) gene fusion system. PhoA is enzymatically active only when fused to external domains, LacZ when fused to cytoplasmic domains. In eukaryotic cells, only time consuming methods exist to study the topology of membrane proteins. We have extended in th...
متن کامل