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Volumn 18, Issue 12, 2002, Pages 1562-1566

The presence of signal peptide significantly affects transmembrane topology prediction

Author keywords

[No Author keywords available]

Indexed keywords

SIGNAL PEPTIDE;

EID: 0036947980     PISSN: 13674803     EISSN: 13674811     Source Type: Journal    
DOI: 10.1093/bioinformatics/18.12.1562     Document Type: Article
Times cited : (46)

References (27)
  • 1
    • 0030837927 scopus 로고    scopus 로고
    • Are there dominant membrane protein families with a given number of helices?
    • Arkin,I.T. et al. (1997) Are there dominant membrane protein families with a given number of helices? Proteins: Struct. Funct. Genet., 28, 465-466.
    • (1997) Proteins: Struct. Funct. Genet. , vol.28 , pp. 465-466
    • Arkin, I.T.1
  • 2
    • 0033957834 scopus 로고    scopus 로고
    • The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000
    • Bairoch,A. and Apweiler,R. (2000) The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000. Nucleic Acids Res, 28, 45-48.
    • (2000) Nucleic Acids Res. , vol.28 , pp. 45-48
    • Bairoch, A.1    Apweiler, R.2
  • 3
    • 0016753216 scopus 로고
    • Transfer of proteins across membranes. I. Presence of proteolytically processed and unprocessed nascent immunoglobulin light chains on membrane-bound ribosomes of murine myeloma
    • Blobel,G. and Bobberstein,B. (1975) Transfer of proteins across membranes. I. Presence of proteolytically processed and unprocessed nascent immunoglobulin light chains on membrane-bound ribosomes of murine myeloma. J. Cell Biol., 67, 835-851.
    • (1975) J. Cell Biol. , vol.67 , pp. 835-851
    • Blobel, G.1    Bobberstein, B.2
  • 4
    • 0028248239 scopus 로고
    • Cleavable signal peptides are rarely found in bacterial cytoplasmic membrane proteins
    • (Review)
    • Broome-Smith,J.K. et al. (1994) Cleavable signal peptides are rarely found in bacterial cytoplasmic membrane proteins (Review). Mol. Membr. Biol., 11, 3-8.
    • (1994) Mol. Membr. Biol. , vol.11 , pp. 3-8
    • Broome-Smith, J.K.1
  • 5
    • 0028568176 scopus 로고
    • TopPred II: An improved software for membrane protein structure predictions
    • Claros,M.G. and von Heijne,G. (1994) TopPred II: an improved software for membrane protein structure predictions. Comput. Appl. Biosci., 10, 685-686.
    • (1994) Comput. Appl. Biosci. , vol.10 , pp. 685-686
    • Claros, M.G.1    von Heijne, G.2
  • 6
    • 0030759333 scopus 로고    scopus 로고
    • Prediction of transmembrane alpha-helices in prokaryotic membrane proteins: The dense alignment surface method
    • Cserzo,M. et al. (1997) Prediction of transmembrane alpha-helices in prokaryotic membrane proteins: the dense alignment surface method. Protein Eng., 10, 673-676.
    • (1997) Protein Eng. , vol.10 , pp. 673-676
    • Cserzo, M.1
  • 7
    • 0023046815 scopus 로고
    • A new method for predicting signal sequence cleavage sites
    • von Heijne,G. (1986) A new method for predicting signal sequence cleavage sites. Nucleic Acids Res., 14, 4683-4690.
    • (1986) Nucleic Acids Res. , vol.14 , pp. 4683-4690
    • von Heijne, G.1
  • 8
    • 0031826040 scopus 로고    scopus 로고
    • SOSUI: Classification and secondary structure prediction system for membrane proteins
    • Hirokawa,T. et al. (1998) SOSUI. classification and secondary structure prediction system for membrane proteins. Bioinformatics, 14, 378-379.
    • (1998) Bioinformatics , vol.14 , pp. 378-379
    • Hirokawa, T.1
  • 9
    • 0000207681 scopus 로고
    • 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, 347, 166.
    • (1993) Biol. Chem. Hoppe-Seyler , vol.347 , pp. 166
    • Hofmann, K.1    Stoffel, W.2
  • 10
    • 0036132818 scopus 로고    scopus 로고
    • Transmembrane topology prediction methods: A re-assessment and improvement by a consensus method using a dataset of experimentally-characterized transmembrane topologies
    • Ikeda,M. et al. (2002) Transmembrane topology prediction methods: A re-assessment and improvement by a consensus method using a dataset of experimentally-characterized transmembrane topologies. In Silico Biol., 2, 19-33.
    • (2002) Silico Biol. , vol.2 , pp. 19-33
    • Ikeda, M.1
  • 11
    • 0032570779 scopus 로고    scopus 로고
    • Do transmembrane protein superfolds exist?
    • Jones,D.T. (1998) Do transmembrane protein superfolds exist? FEBS Lett., 423, 281-285.
    • (1998) FEBS Lett. , vol.423 , pp. 281-285
    • Jones, D.T.1
  • 12
    • 0028211273 scopus 로고
    • A model recognition approach to the prediction of all-helical membrane protein structure and topology
    • Jones,D.T. et al. (1994) A model recognition approach to the prediction of all-helical membrane protein structure and topology. Biochemistry, 33, 3038-3049.
    • (1994) Biochemistry , vol.33 , pp. 3038-3049
    • Jones, D.T.1
  • 13
    • 0033945491 scopus 로고    scopus 로고
    • Tandem clusters of membrane proteins in complete genome sequences
    • Kihara,D. and Kanehisa,M. (2000) Tandem clusters of membrane proteins in complete genome sequences. Genome Res., 10, 731-743.
    • (2000) Genome Res. , vol.10 , pp. 731-743
    • Kihara, D.1    Kanehisa, M.2
  • 14
    • 0031793227 scopus 로고    scopus 로고
    • Prediction of membrane proteins based on classification of transmembrane segments
    • Kihara,D. et al. (1998) Prediction of membrane proteins based on classification of transmembrane segments. Protein Eng., 11, 961-970.
    • (1998) Protein Eng. , vol.11 , pp. 961-970
    • Kihara, D.1
  • 15
    • 0021847027 scopus 로고
    • The detection and classification of membrane-spanning proteins
    • Klein,P. et al. (1985) The detection and classification of membrane-spanning proteins. Biocimica et Biophysica Acta, 815, 468-476.
    • (1985) Biocimica Et Biophysica Acta , vol.815 , pp. 468-476
    • Klein, P.1
  • 16
    • 0035910270 scopus 로고    scopus 로고
    • Predicting transmembrane protein topology with a hidden Markov model: Application to complete genomes
    • Krogh,A. et al. (2001) Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J. Mol. Biol., 305, 567-580.
    • (2001) J. Mol. Biol. , vol.305 , pp. 567-580
    • Krogh, A.1
  • 17
    • 0002011452 scopus 로고    scopus 로고
    • A Method for Discriminating a Signal Peptide and a Putative 1st Transmembrane Segment
    • Proceedings of the 2001 International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences - METMBS '01. Valafar,F (ed.), CSREA Press, USA
    • Lao,D.M. and Shimizu,T. (2001) A Method for Discriminating a Signal Peptide and a Putative 1st Transmembrane Segment. Proceedings of the 2001 International Conference on Mathematics and Engineering Techniques in Medicine and Biological Sciences - METMBS '01. Valafar,F (ed.), CSREA Press, USA, pp.119-125.
    • (2001) , pp. 119-125
    • Lao, D.M.1    Shimizu, T.2
  • 18
    • 0034044314 scopus 로고    scopus 로고
    • The PSIPRED protein structure prediction server
    • McGuffin,L.J. et al. (2000) The PSIPRED protein structure prediction server. Bioinformatics, 16, 404-405.
    • (2000) Bioinformatics , vol.16 , pp. 404-405
    • McGuffin, L.J.1
  • 19
    • 0034495418 scopus 로고    scopus 로고
    • A collection of well characterised integral membrane proteins
    • Möller,S. et al. (2000) A collection of well characterised integral membrane proteins. Bioinformatics, 16, 1159-1160.
    • (2000) Bioinformatics , vol.16 , pp. 1159-1160
    • Möller, S.1
  • 20
    • 0033909566 scopus 로고    scopus 로고
    • Protein sorting signals and prediction of subcellular localization
    • Nakai,K. (2000) Protein sorting signals and prediction of subcellular localization. Adv. Protein Chem., 54, 277-344.
    • (2000) Adv. Protein Chem. , vol.54 , pp. 277-344
    • Nakai, K.1
  • 21
    • 0032989348 scopus 로고    scopus 로고
    • A novel method for predicting transmembrane segments in proteins based on a statistical analysis of the SwissProt database: The PRED-TMR algorithm
    • Pasquier,C. et al. (1999) A novel method for predicting transmembrane segments in proteins based on a statistical analysis of the SwissProt database: the PRED-TMR algorithm. Protein Eng., 12, 381-385.
    • (1999) Protein Eng. , vol.12 , pp. 381-385
    • Pasquier, C.1
  • 22
    • 53249092142 scopus 로고    scopus 로고
    • Prediction of membrane protein topology utilizing multiple sequence alignments
    • Persson,B. and Argos,R (1997) Prediction of membrane protein topology utilizing multiple sequence alignments. J. Protein Chem., 16, 453-457.
    • (1997) J. Protein Chem. , vol.16 , pp. 453-457
    • Persson, B.1    Argos, R.2
  • 23
    • 0001617290 scopus 로고
    • Construction of a membrane protein database and an evaluation of several prediction methods of transmembrane segments
    • Miyano,S., Akutsu,T., Imai,H., Gotoh,O. and Takagi,T. (eds), Universal Academy Press, Tokyo
    • Shimizu,T. and Nakai,K. (1994) Construction of a membrane protein database and an evaluation of several prediction methods of transmembrane segments. Proc. Genome Informatics Workshop 1994. Miyano,S., Akutsu,T., Imai,H., Gotoh,O. and Takagi,T. (eds), Universal Academy Press, Tokyo, pp. 148-149.
    • (1994) Proc. Genome Informatics Workshop 1994 , pp. 148-149
    • Shimizu, T.1    Nakai, K.2
  • 24
    • 0034213573 scopus 로고    scopus 로고
    • Do more complex organisms have a greater proportion of membrane proteins in their genomes?
    • Stevens,T.J. and Arkin,I.T. (2000) Do more complex organisms have a greater proportion of membrane proteins in their genomes? Proteins: Struct. Funct. Genet., 39, 417-420.
    • (2000) Proteins: Struct. Funct. Genet. , vol.39 , pp. 417-420
    • Stevens, T.J.1    Arkin, I.T.2
  • 25
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson,J.D. et al. (1994) CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res., 22, 4673-4680.
    • (1994) Nucleic Acids Res. , vol.22 , pp. 4673-4680
    • Thompson, J.D.1
  • 26
    • 0034786532 scopus 로고    scopus 로고
    • The HMMTOP transmembrane topology prediction server
    • Tusnady,G.E. and Simon,I. (2001) The HMMTOP transmembrane topology prediction server. Bioinformatics, 17, 849-850.
    • (2001) Bioinformatics , vol.17 , pp. 849-850
    • Tusnady, G.E.1    Simon, I.2
  • 27
    • 0031954925 scopus 로고    scopus 로고
    • Genome-wide analysis of integral membrane proteins from eubacterial, archaean, and eukaryotic organisms
    • Wallin,E. and von Heijne,G. (1998) Genome-wide analysis of integral membrane proteins from eubacterial, archaean, and eukaryotic organisms. Protein Sci., 7, 1029-1038.
    • (1998) Protein Sci. , vol.7 , pp. 1029-1038
    • Wallin, E.1    von Heijne, G.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.