-
1
-
-
0028359878
-
Glycophorin A helical transmembrane domains dimerize in phospholipid bilayers: A resonance energy transfer study
-
doi:10.1021/bi00184a024. PMID:8180176
-
Adair, B.D., and Engelman, D.M. 1994. Glycophorin A helical transmembrane domains dimerize in phospholipid bilayers: a resonance energy transfer study. Biochemistry, 33(18): 5539-5544. doi:10.1021/bi00184a024. PMID:8180176.
-
(1994)
Biochemistry
, vol.33
, Issue.18
, pp. 5539-5544
-
-
Adair, B.D.1
Engelman, D.M.2
-
2
-
-
0028568176
-
TopPred II: An improved software for membrane protein structure predictions
-
PMID:7704669
-
Claros, M.G., and von Heijne, G. 1994. TopPred II: an improved software for membrane protein structure predictions. Comput. Appl. Biosci. 10(6): 685-686. PMID:7704669.
-
(1994)
Comput. Appl. Biosci.
, vol.10
, Issue.6
, pp. 685-686
-
-
Claros, M.G.1
Von Heijne, G.2
-
3
-
-
0030759333
-
Prediction of transmembrane alpha-helices in prokaryotic membrane proteins: The dense alignment surface method
-
doi:10.1093/protein/10.6.673. PMID:9278280
-
Cserzö, M., Wallin, E., Simon, I., von Heijne, G., and Elofsson, A. 1997. Prediction of transmembrane alpha-helices in prokaryotic membrane proteins: the dense alignment surface method. Protein Eng. 10(6): 673-676. doi:10.1093/protein/10.6.673. PMID:9278280.
-
(1997)
Protein Eng.
, vol.10
, Issue.6
, pp. 673-676
-
-
Cserzö, M.1
Wallin, E.2
Simon, I.3
Von Heijne, G.4
Elofsson, A.5
-
4
-
-
33947126602
-
Optimizing synthesis and expression of transmembrane peptides and proteins
-
doi:10.1016/j.ymeth.2006.07.003. PMID:17367709
-
Cunningham, F., and Deber, C.M. 2007. Optimizing synthesis and expression of transmembrane peptides and proteins. Methods, 41(4): 370-380. doi:10.1016/j.ymeth.2006.07.003. PMID: 17367709.
-
(2007)
Methods
, vol.41
, Issue.4
, pp. 370-380
-
-
Cunningham, F.1
Deber, C.M.2
-
5
-
-
21744454309
-
Transmembrane helix prediction: A comparative evaluation and analysis
-
doi:10.1093/protein/gzi032. PMID:15932905
-
Cuthbertson, J.M., Doyle, D.A., and Sansom, M.S. 2005. Transmembrane helix prediction: a comparative evaluation and analysis. Protein Eng. Des. Sel. 18(6): 295-308. doi:10.1093/protein/gzi032. PMID:15932905.
-
(2005)
Protein Eng. Des. Sel.
, vol.18
, Issue.6
, pp. 295-308
-
-
Cuthbertson, J.M.1
Doyle, D.A.2
Sansom, M.S.3
-
6
-
-
0035104092
-
TM Finder: A prediction program for transmembrane protein segments using a combination of hydrophobicity and nonpolar phase helicity scales
-
doi:10.1110/ps.30301. PMID:11266608
-
Deber, C.M., Wang, C., Liu, L.P., Prior, A.S., Agrawal, S., Muskat, B.L., and Cuticchia, A.J. 2001. TM Finder: a prediction program for transmembrane protein segments using a combination of hydrophobicity and nonpolar phase helicity scales. Protein Sci. 10(1): 212-219. doi:10.1110/ps.30301. PMID:11266608.
-
(2001)
Protein Sci.
, vol.10
, Issue.1
, pp. 212-219
-
-
Deber, C.M.1
Wang, C.2
Liu, L.P.3
Prior, A.S.4
Agrawal, S.5
Muskat, B.L.6
Cuticchia, A.J.7
-
7
-
-
34249799922
-
Cation-pi interactions involving aromatic amino acids
-
discussion 1516S-1517S
-
Dougherty, D.A. 2007. Cation-pi interactions involving aromatic amino acids. J. Nutr. 137(6 Suppl. 1): 1504S-1508S; discussion 1516S-1517S.
-
(2007)
J. Nutr.
, vol.137
, Issue.6 SUPPL. 1
-
-
Dougherty, D.A.1
-
8
-
-
35748979116
-
TMpro web server and web service: Transmembrane helix prediction through amino acid property analysis
-
doi:10.1093/bioinformatics/btm398. PMID:17724062
-
Ganapathiraju, M., Jursa, C.J., Karimi, H.A., and Klein-Seetharaman, J. 2007. TMpro web server and web service: transmembrane helix prediction through amino acid property analysis. Bioinformatics, 23(20): 2795-2796. doi:10.1093/bioinformatics/btm398. PMID:17724062.
-
(2007)
Bioinformatics
, vol.23
, Issue.20
, pp. 2795-2796
-
-
Ganapathiraju, M.1
Jursa, C.J.2
Karimi, H.A.3
Klein-Seetharaman, J.4
-
9
-
-
0036179679
-
Myelin proteolipid protein - The first 50 years
-
doi:10.1016/S1357-2725(01)00136-4. PMID:11849988
-
Greer, J.M., and Lees, M.B. 2002. Myelin proteolipid protein - the first 50 years. Int. J. Biochem. Cell Biol. 34(3): 211-215. doi:10.1016/S1357-2725(01) 00136-4. PMID:11849988.
-
(2002)
Int. J. Biochem. Cell Biol.
, vol.34
, Issue.3
, pp. 211-215
-
-
Greer, J.M.1
Lees, M.B.2
-
10
-
-
0031826040
-
SOSUI: Classification and secondary structure prediction system for membrane proteins
-
doi:10.1093/bioinformatics/14.4.378. PMID:9632836
-
Hirokawa, T., Boon-Chieng, S., and Mitaku, S. 1998. SOSUI: classification and secondary structure prediction system for membrane proteins. Bioinformatics, 14(4): 378-379. doi:10.1093/bioinformatics/14.4.378. PMID:9632836.
-
(1998)
Bioinformatics
, vol.14
, Issue.4
, pp. 378-379
-
-
Hirokawa, T.1
Boon-Chieng, S.2
Mitaku, S.3
-
11
-
-
0000207681
-
TMbase-A database of membrane spanning proteins segments
-
Hofmann, K., and Stoffel, W. 1993. TMbase-A database of membrane spanning proteins segments. Biol. Chem. Hoppe Seyler, 374: 166.
-
(1993)
Biol. Chem. Hoppe Seyler
, vol.374
, pp. 166
-
-
Hofmann, K.1
Stoffel, W.2
-
12
-
-
34047151404
-
Improving the accuracy of transmembrane protein topology prediction using evolutionary information
-
doi:10.1093/bioinformatics/btl677. PMID:17237066
-
Jones, D.T. 2007. Improving the accuracy of transmembrane protein topology prediction using evolutionary information. Bioinformatics, 23(5): 538-544. doi:10.1093/bioinformatics/btl677. PMID:17237066.
-
(2007)
Bioinformatics
, vol.23
, Issue.5
, pp. 538-544
-
-
Jones, D.T.1
-
13
-
-
0036557845
-
Basic charge clusters and predictions of membrane protein topology
-
PMID:12086524
-
Juretić, D., Zoranić, L., and Zucić, D. 2002. Basic charge clusters and predictions of membrane protein topology. J. Chem. Inf. Comput. Sci. 42(3): 620-632. PMID:12086524.
-
(2002)
J. Chem. Inf. Comput. Sci.
, vol.42
, Issue.3
, pp. 620-632
-
-
Juretić, D.1
Zoranić, L.2
Zucić, D.3
-
14
-
-
0034284386
-
How proteins adapt to a membrane-water interface
-
doi:10.1016/S0968-0004(00)01626-1. PMID:10973056
-
Killian, J.A., and von Heijne, G. 2000. How proteins adapt to a membrane-water interface. Trends Biochem. Sci. 25(9): 429-434. doi:10.1016/S0968-0004(00)01626-1. PMID:10973056.
-
(2000)
Trends Biochem. Sci.
, vol.25
, Issue.9
, pp. 429-434
-
-
Killian, J.A.1
Von Heijne, G.2
-
15
-
-
35548971929
-
Effect of sequence hydrophobicity and bilayer width upon the minimum length required for the formation of transmembrane helices in membranes
-
doi:10.1016/j.jmb.2007.09.037. PMID:17950311
-
Krishnakumar, S.S., and London, E. 2007. Effect of sequence hydrophobicity and bilayer width upon the minimum length required for the formation of transmembrane helices in membranes. J. Mol. Biol. 374(3): 671-687. doi:10.1016/j.jmb.2007.09.037. PMID:17950311.
-
(2007)
J. Mol. Biol.
, vol.374
, Issue.3
, pp. 671-687
-
-
Krishnakumar, S.S.1
London, E.2
-
16
-
-
0035910270
-
Predicting transmembrane protein topology with a hidden Markov model: Application to complete genomes
-
doi:10.1006/jmbi.2000.4315. PMID:11152613
-
Krogh, A., Larsson, B., von Heijne, G., and Sonnhammer, E.L. 2001. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol. 305(3): 567-580. doi:10.1006/jmbi.2000.4315. PMID:11152613.
-
(2001)
J. Mol. Biol.
, vol.305
, Issue.3
, pp. 567-580
-
-
Krogh, A.1
Larsson, B.2
Von Heijne, G.3
Sonnhammer, E.L.4
-
17
-
-
0027499143
-
Non-random distribution of amino acids in the transmembrane segments of human type I single span membrane proteins
-
doi:10.1006/jmbi.1993.1066. PMID:8433362
-
Landolt-Marticorena, C., Williams, K.A., Deber, C.M., and Reithmeier, R.A. 1993. Non-random distribution of amino acids in the transmembrane segments of human type I single span membrane proteins. J. Mol. Biol. 229(3): 602-608. doi:10.1006/jmbi.1993.1066. PMID:8433362.
-
(1993)
J. Mol. Biol.
, vol.229
, Issue.3
, pp. 602-608
-
-
Landolt-Marticorena, C.1
Williams, K.A.2
Deber, C.M.3
Reithmeier, R.A.4
-
18
-
-
0031926765
-
Guidelines for membrane protein engineering derived from de novo designed model peptides
-
doi:10.1002/(SICI)1097-0282(1998) 47:1〈41::AID-BIP6〉3.0.CO;2-X. PMID:9692326
-
Liu, L.P., and Deber, C.M. 1998. Guidelines for membrane protein engineering derived from de novo designed model peptides. Biopolymers, 47(1): 41-62. doi:10.1002/(SICI)1097-0282(1998) 47:1〈41::AID-BIP6〉3.0.CO;2-X. PMID:9692326.
-
(1998)
Biopolymers
, vol.47
, Issue.1
, pp. 41-62
-
-
Liu, L.P.1
Deber, C.M.2
-
19
-
-
0030249090
-
Predicted and trifluoroethanol-induced alpha-helicity of polypeptides
-
doi:10.1002/(SICI)1097-0282(199609)39:3〈367::AID-BIP8〉3.0. CO;2-M. PMID: 8756516
-
Luidens, M.K., Figge, J., Breese, K., and Vajda, S. 1996. Predicted and trifluoroethanol-induced alpha-helicity of polypeptides. Biopolymers, 39(3): 367-376. doi:10.1002/(SICI)1097-0282(199609)39:3〈367::AID-BIP8〉3.0. CO;2-M. PMID: 8756516.
-
(1996)
Biopolymers
, vol.39
, Issue.3
, pp. 367-376
-
-
Luidens, M.K.1
Figge, J.2
Breese, K.3
Vajda, S.4
-
20
-
-
40649090353
-
Concentration-independent estimation of protein secondary structure by circular dichroism: A comparison of methods
-
doi:10.1016/j.ab.2008.01.024. PMID:18294952
-
McPhie, P. 2008. Concentration-independent estimation of protein secondary structure by circular dichroism: a comparison of methods. Anal. Biochem. 375(2): 379-381. doi:10.1016/j.ab.2008.01.024. PMID:18294952.
-
(2008)
Anal. Biochem.
, vol.375
, Issue.2
, pp. 379-381
-
-
McPhie, P.1
-
21
-
-
0035979356
-
Membrane-anchoring interactions of M13 major coat protein
-
doi:10.1021/bi002956s. PMID:11467942
-
Meijer, A.B., Spruijt, R.B., Wolfs, C.J., and Hemminga, M.A. 2001. Membrane-anchoring interactions of M13 major coat protein. Biochemistry, 40(30): 8815-8820. doi:10.1021/bi002956s. PMID:11467942.
-
(2001)
Biochemistry
, vol.40
, Issue.30
, pp. 8815-8820
-
-
Meijer, A.B.1
Spruijt, R.B.2
Wolfs, C.J.3
Hemminga, M.A.4
-
22
-
-
0035909077
-
Retention of native-like oligomerization states in transmembrane segment peptides: Application to the Escherichia coli aspartate receptor
-
doi:10.1021/bi010642e. PMID:11551208
-
Melnyk, R.A., Partridge, A.W., and Deber, C.M. 2001. Retention of native-like oligomerization states in transmembrane segment peptides: application to the Escherichia coli aspartate receptor. Biochemistry, 40(37): 11106-11113. doi:10.1021/bi010642e. PMID:11551208.
-
(2001)
Biochemistry
, vol.40
, Issue.37
, pp. 11106-11113
-
-
Melnyk, R.A.1
Partridge, A.W.2
Deber, C.M.3
-
23
-
-
1542344441
-
Polar residue tagging of transmembrane peptides
-
doi:10.1002/bip.10595. PMID:14991677
-
Melnyk, R.A., Partridge, A.W., Yip, J., Wu, Y., Goto, N.K., and Deber, C.M. 2003. Polar residue tagging of transmembrane peptides. Biopolymers, 71(6): 675-685. doi:10.1002/bip.10595. PMID:14991677.
-
(2003)
Biopolymers
, vol.71
, Issue.6
, pp. 675-685
-
-
Melnyk, R.A.1
Partridge, A.W.2
Yip, J.3
Wu, Y.4
Goto, N.K.5
Deber, C.M.6
-
24
-
-
1242352964
-
Side chains at the membrane-water interface modulate the signaling state of a transmembrane receptor
-
doi:10.1021/bi0360206. PMID:14967017
-
Miller, A.S., and Falke, J.J. 2004. Side chains at the membrane-water interface modulate the signaling state of a transmembrane receptor. Biochemistry, 43(7): 1763-1770. doi:10.1021/bi0360206. PMID:14967017.
-
(2004)
Biochemistry
, vol.43
, Issue.7
, pp. 1763-1770
-
-
Miller, A.S.1
Falke, J.J.2
-
25
-
-
0033790343
-
Helical membrane protein folding, stability, and evolution
-
doi:10.1146/annurev.biochem.69.1.881. PMID: 10966478
-
Popot, J.L., and Engelman, D.M. 2000. Helical membrane protein folding, stability, and evolution. Annu. Rev. Biochem. 69(1): 881-922. doi:10.1146/annurev.biochem.69.1.881. PMID: 10966478.
-
(2000)
Annu. Rev. Biochem.
, vol.69
, Issue.1
, pp. 881-922
-
-
Popot, J.L.1
Engelman, D.M.2
-
26
-
-
0026132370
-
Major Myelin proteolipid: The 4-alphα-helix topology
-
doi:10.1007/BF01868534. PMID:1711121
-
Popot, J.L., Dinh, D.P., and Dautigny, A. 1991. Major Myelin proteolipid: the 4-alphα-helix topology. J. Membr. Biol. 120(3): 233-246. doi:10.1007/BF01868534. PMID:1711121.
-
(1991)
J. Membr. Biol.
, vol.120
, Issue.3
, pp. 233-246
-
-
Popot, J.L.1
Dinh, D.P.2
Dautigny, A.3
-
27
-
-
33744965940
-
Evidence for assembly of small multidrug resistance proteins by a "two-faced" transmembrane helix
-
doi:10.1074/jbc.M600434200. PMID:16574656
-
Rath, A., Melnyk, R.A., and Deber, C.M. 2006. Evidence for assembly of small multidrug resistance proteins by a "two-faced" transmembrane helix. J. Biol. Chem. 281(22): 15546-15553. doi:10.1074/jbc.M600434200. PMID:16574656.
-
(2006)
J. Biol. Chem.
, vol.281
, Issue.22
, pp. 15546-15553
-
-
Rath, A.1
Melnyk, R.A.2
Deber, C.M.3
-
28
-
-
34247476788
-
Peptides as transmembrane segments: Decrypting the determinants for helix-helix interactions in membrane proteins
-
doi:10.1002/bip.20668. PMID:17206630
-
Rath, A., Johnson, R.M., and Deber, C.M. 2007. Peptides as transmembrane segments: decrypting the determinants for helix-helix interactions in membrane proteins. Biopolymers, 88(2): 217-232. doi:10.1002/bip.20668. PMID:17206630.
-
(2007)
Biopolymers
, vol.88
, Issue.2
, pp. 217-232
-
-
Rath, A.1
Johnson, R.M.2
Deber, C.M.3
-
29
-
-
65249114173
-
Peptide models of membrane protein folding
-
doi:10.1021/bi900184j. PMID:19278229
-
Rath, A., Tulumello, D.V., and Deber, C.M. 2009a. Peptide models of membrane protein folding. Biochemistry, 48(14): 3036-3045. doi:10.1021/ bi900184j. PMID:19278229.
-
(2009)
Biochemistry
, vol.48
, Issue.14
, pp. 3036-3045
-
-
Rath, A.1
Tulumello, D.V.2
Deber, C.M.3
-
30
-
-
60549094781
-
Detergent binding explains anomalous SDS-PAGE migration of membrane proteins
-
doi:10.1073/pnas.0813167106. PMID: 19181854
-
Rath, A., Glibowicka, M., Nadeau, V.G., Chen, G., and Deber, C.M. 2009b. Detergent binding explains anomalous SDS-PAGE migration of membrane proteins. Proc. Natl. Acad. Sci. U.S.A. 106(6): 1760-1765. doi:10.1073/pnas.0813167106. PMID: 19181854.
-
(2009)
Proc. Natl. Acad. Sci. U.S.A.
, vol.106
, Issue.6
, pp. 1760-1765
-
-
Rath, A.1
Glibowicka, M.2
Nadeau, V.G.3
Chen, G.4
Deber, C.M.5
-
31
-
-
0030038634
-
Topology prediction for helical transmembrane proteins at 86% accuracy-Topology prediction at 86% accuracy
-
doi:10.1002/pro.5560050824. PMID:8844859
-
Rost, B., Fariselli, P., and Casadio, R. 1996. Topology prediction for helical transmembrane proteins at 86% accuracy-Topology prediction at 86% accuracy. Protein Sci. 5(8): 1704-1718. doi:10.1002/pro.5560050824. PMID:8844859.
-
(1996)
Protein Sci.
, vol.5
, Issue.8
, pp. 1704-1718
-
-
Rost, B.1
Fariselli, P.2
Casadio, R.3
-
32
-
-
48749084114
-
MemBrain: Improving the accuracy of predicting transmembrane helices
-
doi:10.1371/journal.pone.0002399. PMID:18545655
-
Shen, H., Chou, J.J., and Kobe, B. 2008. MemBrain: improving the accuracy of predicting transmembrane helices. PLoS One, 3(6): e2399. doi:10.1371/journal.pone.0002399. PMID:18545655.
-
(2008)
PLoS One
, vol.3
, Issue.6
-
-
Shen, H.1
Chou, J.J.2
Kobe, B.3
-
33
-
-
0022631652
-
Selective extraction of the DM-20 brain proteolipid
-
doi:10.1111/j.1471-4159.1986.tb12962.x. PMID:3940288
-
Skalidis, G., Trifilieff, E., and Luu, B. 1986. Selective extraction of the DM-20 brain proteolipid. J. Neurochem. 46(1): 297-299. doi:10.1111/j.1471- 4159.1986.tb12962.x. PMID:3940288.
-
(1986)
J. Neurochem.
, vol.46
, Issue.1
, pp. 297-299
-
-
Skalidis, G.1
Trifilieff, E.2
Luu, B.3
-
34
-
-
0034786532
-
The HMMTOP transmembrane topology prediction server
-
doi:10.1093/bioinformatics/17.9.849. PMID:11590105
-
Tusnády, G.E., and Simon, I. 2001. The HMMTOP transmembrane topology prediction server. Bioinformatics, 17(9): 849-850. doi:10.1093/ bioinformatics/17.9.849. PMID:11590105.
-
(2001)
Bioinformatics
, vol.17
, Issue.9
, pp. 849-850
-
-
Tusnády, G.E.1
Simon, I.2
-
35
-
-
0035795721
-
Amino acid distributions in integral membrane protein structures
-
doi:10.1016/S0005-2736(01)00299-1. PMID:11334619
-
Ulmschneider, M.B., and Sansom, M.S. 2001. Amino acid distributions in integral membrane protein structures. Biochim. Biophys. Acta, 1512(1): 1-14. doi:10.1016/S0005-2736(01)00299-1. PMID:11334619.
-
(2001)
Biochim. Biophys. Acta
, vol.1512
, Issue.1
, pp. 1-14
-
-
Ulmschneider, M.B.1
Sansom, M.S.2
-
36
-
-
0032987478
-
Membrane protein folding and stability: Physical principles
-
doi:10.1146/annurev.biophys.28.1.319. PMID:10410805
-
White, S.H., and Wimley, W.C. 1999. Membrane protein folding and stability: physical principles. Annu. Rev. Biophys. Biomol. Struct. 28(1): 319-365. doi:10.1146/annurev.biophys.28.1.319. PMID:10410805.
-
(1999)
Annu. Rev. Biophys. Biomol. Struct.
, vol.28
, Issue.1
, pp. 319-365
-
-
White, S.H.1
Wimley, W.C.2
-
37
-
-
0034719140
-
Role of aromatic residues at the lipid-water interface in micelle-bound bacteriophage M13 major coat protein
-
doi:10.1021/bi0016117. PMID:11123944
-
Yuen, C.T., Davidson, A.R., and Deber, C.M. 2000. Role of aromatic residues at the lipid-water interface in micelle-bound bacteriophage M13 major coat protein. Biochemistry, 39(51): 16155-16162. doi:10.1021/bi0016117. PMID:11123944.
-
(2000)
Biochemistry
, vol.39
, Issue.51
, pp. 16155-16162
-
-
Yuen, C.T.1
Davidson, A.R.2
Deber, C.M.3
|