Predicting Protein Subcellular Localisation From Amino Acid Sequence Information
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[1] Thomas L. Madden,et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. , 1997, Nucleic acids research.
[2] P. Gans,et al. A coil-helix instead of a helix-coil motif can be induced in a chloroplast transit peptide from Chlamydomonas reinhardtii. , 1999, European journal of biochemistry.
[3] A. Krogh,et al. Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. , 2001, Journal of molecular biology.
[4] E. Schleiff,et al. Positively charged residues, the helical conformation and the structural flexibility of the leader sequence of pALDH are important for recognition by hTom20 , 1999, FEBS letters.
[5] M. Kanehisa,et al. A knowledge base for predicting protein localization sites in eukaryotic cells , 1992, Genomics.
[6] G. von Heijne,et al. Topogenic signals in integral membrane proteins. , 1988, European journal of biochemistry.
[7] T. Sicheritz-Pontén,et al. The genome sequence of Rickettsia prowazekii and the origin of mitochondria , 1998, Nature.
[8] H. Tabak,et al. Import of proteins into peroxisomes. , 1999, Biochimica et biophysica acta.
[9] G von Heijne,et al. Analysis and prediction of mitochondrial targeting peptides. , 2001, Methods in cell biology.
[10] Rolf Apweiler,et al. Evaluation of methods for the prediction of membrane spanning regions , 2001, Bioinform..
[11] Y. Abe. [Structural basis of presequence recognition by the mitochondrial protein import receptor Tom20]. , 2001, Fukuoka igaku zasshi = Hukuoka acta medica.
[12] T. Rapoport,et al. Protein Translocation: Tunnel Vision , 1998, Cell.
[13] N. Pfanner,et al. The sorting signal of cytochrome b2 promotes early divergence from the general mitochondrial import pathway and restricts the unfoldase activity of matrix Hsp70. , 1995, The EMBO journal.
[14] William D. Richardson,et al. A short amino acid sequence able to specify nuclear location , 1984, Cell.
[15] H. Ikezawa,et al. Glycosylphosphatidylinositol (GPI)-anchored proteins. , 2002, Biological & pharmaceutical bulletin.
[16] P. Gans,et al. NMR structures of ferredoxin chloroplastic transit peptide from Chlamydomonas reinhardtii promoted by trifluoroethanol in aqueous solution , 1994, FEBS letters.
[17] M. Sakaguchi,et al. Eukaryotic protein secretion. , 1997, Current opinion in biotechnology.
[18] G. Schulz. β-Barrel membrane proteins , 2000 .
[19] B. Rost,et al. Finding nuclear localization signals , 2000, EMBO reports.
[20] W. Hol,et al. Structures of type 2 peroxisomal targeting signals in two trypanosomatid aldolases. , 2000, Journal of molecular biology.
[21] S. Brunak,et al. SHORT COMMUNICATION Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites , 1997 .
[22] G von Heijne,et al. Forced transmembrane orientation of hydrophilic polypeptide segments in multispanning membrane proteins. , 1998, Molecular cell.
[23] W. Doolittle,et al. On the prokaryotic nature of red algal chloroplasts. , 1975, Proceedings of the National Academy of Sciences of the United States of America.
[24] L. Busconi,et al. Membrane localization of a rice calcium-dependent protein kinase (CDPK) is mediated by myristoylation and palmitoylation. , 2000, The Plant journal : for cell and molecular biology.
[25] R. Zeller,et al. A GR-motif functions in nuclear accumulation of the large FGF-2 isoforms and interferes with mitogenic signalling , 1998, Oncogene.
[26] A. Mant,et al. Multiple pathways for the targeting of thylakoid proteins in chloroplasts , 1998, Plant Molecular Biology.
[27] F. Kalousek,et al. Mitochondrial intermediate peptidase. , 1995, Methods in enzymology.
[28] J. Soll,et al. Toc, tic, and chloroplast protein import. , 2001, Biochimica et biophysica acta.
[29] P Bork,et al. Wanted: subcellular localization of proteins based on sequence. , 1998, Trends in cell biology.
[30] E. Glaser,et al. Interaction of plant mitochondrial and chloroplast signal peptides with the Hsp70 molecular chaperone. , 2002, Trends in plant science.
[31] G von Heijne,et al. Species‐specific variation in signal peptide design Implications for protein secretion in foreign hosts , 1989, FEBS letters.
[32] K. Nakai. Protein sorting signals and prediction of subcellular localization. , 2000, Advances in protein chemistry.
[33] Thomas L. Madden,et al. Improving the accuracy of PSI-BLAST protein database searches with composition-based statistics and other refinements. , 2001, Nucleic acids research.
[34] M. Gonzalo Claros,et al. MitoProt, a Macintosh application for studying mitochondrial proteins , 1995, Comput. Appl. Biosci..
[35] C. Christophe-Hobertus,et al. Nuclear targeting of proteins: how many different signals? , 2000, Cellular signalling.
[36] Rolf Apweiler,et al. The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000 , 2000, Nucleic Acids Res..
[37] P. Thier,et al. The origin of red algae and the evolution of chloroplasts , 2022 .
[38] C. Robinson,et al. Transport of proteins into chloroplasts. The thylakoidal processing peptidase is a signal-type peptidase with stringent substrate requirements at the -3 and -1 positions. , 1991, The Journal of biological chemistry.
[39] S. Subramani,et al. A novel, cleavable peroxisomal targeting signal at the amino‐terminus of the rat 3‐ketoacyl‐CoA thiolase. , 1991, The EMBO journal.
[40] Satoru Miyano,et al. Extensive feature detection of N-terminal protein sorting signals , 2002, Bioinform..
[41] G von Heijne,et al. Transcending the impenetrable: how proteins come to terms with membranes. , 1988, Biochimica et biophysica acta.
[42] J. Deisenhofer,et al. Crystal structures of mitochondrial processing peptidase reveal the mode for specific cleavage of import signal sequences. , 2001, Structure.
[43] G. von Heijne. The signal peptide. , 1990, The Journal of membrane biology.
[44] K. Cline,et al. Post-translational protein translocation into thylakoids by the Sec and DeltapH-dependent pathways. , 2001, Biochimica et biophysica acta.
[45] J. Schneider-Mergener,et al. Distribution of Binding Sequences for the Mitochondrial Import Receptors Tom20, Tom22, and Tom70 in a Presequence-carrying Preprotein and a Non-cleavable Preprotein* , 1999, The Journal of Biological Chemistry.
[46] G. von Heijne,et al. Chloroplast transit peptides the perfect random coil? , 1991, FEBS letters.
[47] Manuel G. Claros,et al. TopPred II: an improved software for membrane protein structure predictions , 1994, Comput. Appl. Biosci..
[48] J. Soll,et al. Protein translocation into and across the chloroplastic envelope membranes , 1998, Plant Molecular Biology.
[49] J. Hendrick,et al. Two mitochondrial matrix proteases act sequentially in the processing of mammalian matrix enzymes. , 1988, Proceedings of the National Academy of Sciences of the United States of America.
[50] G. Schulz. beta-Barrel membrane proteins. , 2000, Current opinion in structural biology.
[51] G von Heijne,et al. Signal sequences. The limits of variation. , 1985, Journal of molecular biology.
[52] Amos Bairoch,et al. A Generalized Profile Syntax for Biomolecular Sequence Motifs and its Function in Automatic Sequence Interpretation , 1994, ISMB.
[53] G von Heijne,et al. Patterns of amino acids near signal-sequence cleavage sites. , 1983, European journal of biochemistry.
[54] T. D. Schneider,et al. Sequence logos: a new way to display consensus sequences. , 1990, Nucleic acids research.
[55] W. Doolittle,et al. Reconstructing/Deconstructing the Earliest Eukaryotes How Comparative Genomics Can Help , 2001, Cell.
[56] Peter Roepstorff,et al. Central Functions of the Lumenal and Peripheral Thylakoid Proteome of Arabidopsis Determined by Experimentation and Genome-Wide Prediction Article, publication date, and citation information can be found at www.plantcell.org/cgi/doi/10.1105/tpc.010304. , 2002, The Plant Cell Online.
[57] R. Hallberg,et al. Cytochromes c 1 and b 2 are sorted to the intermembrane space of yeast mitochondria by a stop-transfer mechanism , 1992, Cell.
[58] G. von Heijne,et al. Domain structure of mitochondrial and chloroplast targeting peptides. , 1989, European journal of biochemistry.
[59] J U Bowie,et al. Helix packing in membrane proteins. , 1997, Journal of molecular biology.
[60] M. Silva-Filho,et al. Dual targeting properties of the N-terminal signal sequence of Arabidopsis thaliana THI1 protein to mitochondria and chloroplasts , 2001, Plant Molecular Biology.
[61] Paul Horton,et al. Better Prediction of Protein Cellular Localization Sites with the it k Nearest Neighbors Classifier , 1997, ISMB.
[62] M. Gerstein,et al. A Bayesian system integrating expression data with sequence patterns for localizing proteins: comprehensive application to the yeast genome. , 2000, Journal of molecular biology.
[63] A. Driessen,et al. The Sec system. , 1998, Current opinion in microbiology.
[64] G. Dreyfuss,et al. A Novel Receptor-Mediated Nuclear Protein Import Pathway , 1996, Cell.
[65] R. Ellis,et al. Transport of proteins into chloroplasts. Partial purification of a chloroplast protease involved in the processing of important precursor polypeptides. , 1984, European journal of biochemistry.
[66] G. Schneider,et al. Feature‐extraction from endopeptidase cleavage sites in mitochondrial targeting peptides , 1998 .
[67] Mark C. Field,et al. Acylation-dependent Protein Export inLeishmania * , 2000, The Journal of Biological Chemistry.
[68] U. Hobohm,et al. Selection of representative protein data sets , 1992, Protein science : a publication of the Protein Society.
[69] M. Czisch,et al. The structural flexibility of the preferredoxin transit peptide , 1999, FEBS letters.
[70] J Lundström,et al. Pcons: A neural‐network–based consensus predictor that improves fold recognition , 2001, Protein science : a publication of the Protein Society.
[71] D. Eisenberg,et al. Localizing proteins in the cell from their phylogenetic profiles. , 2000, Proceedings of the National Academy of Sciences of the United States of America.
[72] G von Heijne,et al. Differential use of the signal recognition particle translocase targeting pathway for inner membrane protein assembly in Escherichia coli. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[73] M. Fransen,et al. The Difference in Recognition of Terminal Tripeptides as Peroxisomal Targeting Signal 1 between Yeast and Human Is Due to Different Affinities of Their Receptor Pex5p to the Cognate Signal and to Residues Adjacent to It* , 1998, The Journal of Biological Chemistry.
[74] S. Brunak,et al. Predicting subcellular localization of proteins based on their N-terminal amino acid sequence. , 2000, Journal of molecular biology.
[75] N. Pfanner,et al. Versatility of the mitochondrial protein import machinery , 2001, Nature Reviews Molecular Cell Biology.
[76] Piero Fariselli,et al. A sequence-profile-based HMM for predicting and discriminating beta barrel membrane proteins , 2002, ISMB.
[77] R. Laskey,et al. Two interdependent basic domains in nucleoplasmin nuclear targeting sequence: Identification of a class of bipartite nuclear targeting sequence , 1991, Cell.
[78] Anders Krogh,et al. Prediction of Signal Peptides and Signal Anchors by a Hidden Markov Model , 1998, ISMB.
[79] Jeremy M. Berg,et al. Molecular dynamics simulations of biomolecules , 2002, Nature Structural Biology.
[80] G. A. Thompson,et al. Lipid-linked proteins of plants. , 2000, Progress in lipid research.
[81] A. Delcour. Structure and function of pore-forming beta-barrels from bacteria. , 2002, Journal of molecular microbiology and biotechnology.
[82] A. Bolhuis,et al. Protein targeting by the twin-arginine translocation pathway , 2001, Nature Reviews Molecular Cell Biology.
[83] B. Dobberstein,et al. Common Principles of Protein Translocation Across Membranes , 1996, Science.
[84] W. Neupert,et al. Processing of mitochondrial precursor proteins. , 1991, Biomedica biochimica acta.
[85] R. Hegde,et al. Membrane Protein Biogenesis: Regulated Complexity at the Endoplasmic Reticulum , 1997, Cell.
[86] R. Stroud,et al. The signal recognition particle. , 2001, Annual review of biochemistry.
[87] P Vincens,et al. Computational method to predict mitochondrially imported proteins and their targeting sequences. , 1996, European journal of biochemistry.
[88] N. Pante,et al. Viruses, microorganisms and scientists meet the nuclear pore Leysin, VD, Switzerland, February 26–March 1, 1998 , 1999, The EMBO journal.
[89] E V Koonin,et al. How many genes can make a cell: the minimal-gene-set concept. , 2000, Annual review of genomics and human genetics.
[90] B. Bruce,et al. The paradox of plastid transit peptides: conservation of function despite divergence in primary structure. , 2001, Biochimica et biophysica acta.
[91] Zhirong Sun,et al. Support vector machine approach for protein subcellular localization prediction , 2001, Bioinform..
[92] G. Schneider,et al. Feature-extraction from endopeptidase cleavage sites in mitochondrial targeting peptides. , 1998, Proteins.
[93] K Nishikawa,et al. Discrimination of intracellular and extracellular proteins using amino acid composition and residue-pair frequencies. , 1994, Journal of molecular biology.
[94] G. Vonheijne. The signal peptide. , 1990 .
[95] H. Braun,et al. The mitochondrial processing peptidase. , 1997, The international journal of biochemistry & cell biology.
[96] Romé Voulhoux,et al. In vivo dissection of the Tat translocation pathway in Escherichia coli. , 2002, Journal of molecular biology.
[97] T. Rapoport. Transport of proteins across the endoplasmic reticulum membrane. , 1992, Science.
[98] G. Heijne,et al. ChloroP, a neural network‐based method for predicting chloroplast transit peptides and their cleavage sites , 1999, Protein science : a publication of the Protein Society.
[99] T. Hubbard,et al. Using neural networks for prediction of the subcellular location of proteins. , 1998, Nucleic acids research.
[100] R. Ellis,et al. The Transport of Proteins into Chloroplasts , 1986 .
[101] K. Keegstra,et al. Transport of proteins into chloroplasts , 1988, Photosynthesis Research.
[102] K. Akashi,et al. Two birds with one stone: genes that encode products targeted to two or more compartments , 1998, Plant Molecular Biology.
[103] S Subramani,et al. A conserved tripeptide sorts proteins to peroxisomes , 1989, The Journal of cell biology.