Membrane proteins topology

The molecular basis of the positive-inside rule is unknown. However, negatively charged phospholipids can control the membrane protein topology, suggesting part of the mechanism (van Klompenburg et al., 1997). 

Seligman, L.,and Manoil, C. (1994). An amphipathic sequence determinant of membrane protein topology. / Biol. Chem. 269, 19888-19896. 

Membrane protein topology (localization relative to the lipid bilayer) can be determined with reagents that react with protein side chains but cannot cross membranes—polar chemical reagents that react with primary amines of Lys residues, for example, or enzymes... 

Membrane Protein Topology The receptor for the hormone epinephrine in animal cells is an integral membrane protein (Mr 64,000) that is believed to have seven membrane-spanning regions. 

Mptopo Membrane protein topology http //blanco.biomol.uci.edu/mptopo/... 

LIPID Membrane lipid structures Merck manual Monosaccharide database Mptopo Membrane protein topology PDB 3D structures of biomacromolecules RNA modification database RNA Structure database Spectral Database Systems (SDBS)... 

Predicting Membrane Protein Topology from Sequence You have cloned the gene for a human erythrocyte protein, which you suspect is a membrane protein. From the nucleotide sequence of the gene, you know the amino acid sequence. From this sequence alone, how would you evaluate the possibility that... 

Andersson, H., and von Heijne, G. (1994). Membrane protein topology effects of A/xH+ on the translocation of charged residues explain the positive inside rule. EMBO J. 13, 2267-2272. 

Saaf, A., Johansson, M., Wallin, E., and von Heijne, G. (1999). Divergent evolution of membrane protein topology the Escherichia coli RnfA and RnfE homologues. Proc. Natl. Acad. Sci. USA 96, 8540-8544. 

Bogdanov, M., Xie, J., Heacock, P.N. and Dowhan, W., To flip or not to flip protein-hpid charge interactions are a determinant of final membrane protein topology, J Cell Biol (2008), editorially accepted. 

Ikeda, M., Kida, Y., Ikushiro, S. and Sakaguchi, M., Manipulation of membrane protein topology on the endoplasmic reticulum by a specific Ugand in living cells, J. Biochem. 138 (2005) 631-637. 

Based on statistical analysis and experimental determination, the cytoplasmic extramembrane domains connecting transmembrane domains predominantly carry a positive charge in contrast to the remaining extramembrane domains that are either neutral or negative (positive inside rule) [24]. Although amino acid sequence determines membrane protein topology, the sequence is encoded for a specific membrane lipid environment as has been demonstrated for the secondary transport proteins of E. coli. Reducing the net positive... 

C. Manoil and J. Beckwith, A genetic approxh to analyzing membrane protein topology, Science 233, 1403-1408 (1986). 

Using model proteins Walsh and Wang have discussed in detail the utilization of dipolar waves to extract structural information such as the periodicity of peptide plane, its planarity, kink or curvature of a-helix and irregularities of P-strand. Veglia and co-workers have exploited the amplitude and average values of dipolar waves in determination of helical membrane protein topology. In the latter studies N-labelled phospholamban protein was used as a test molecule. 

Elofsson A, von Heijne G. Membrane protein structure prediction versus reaUty. Annu Reo Biochem. 2007 76 125-140. Bernsel A, Viklrmd H, Falk J, Lindahl E, von Heijne G, Elofsson A. Prediction of membrane-protein topology from first principles. Proceedings of the National Academy of Sciences of the United States of America. 2(X)8 105(20) 7177-7181. 

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