Published in Proteins on February 01, 1996
PrediSi: prediction of signal peptides and their cleavage positions. Nucleic Acids Res (2004) 3.93
A comprehensive assessment of N-terminal signal peptides prediction methods. BMC Bioinformatics (2009) 2.85
Transmembrane helix predictions revisited. Protein Sci (2002) 2.28
Competition between Sec- and TAT-dependent protein translocation in Escherichia coli. EMBO J (1999) 1.95
The chemistry and enzymology of the type I signal peptidases. Protein Sci (1997) 1.90
Characterization and prediction of protein nucleolar localization sequences. Nucleic Acids Res (2010) 1.40
Sequence-based feature prediction and annotation of proteins. Genome Biol (2009) 1.28
SPdb--a signal peptide database. BMC Bioinformatics (2005) 1.23
Secreted protein prediction system combining CJ-SPHMM, TMHMM, and PSORT. Mamm Genome (2003) 1.19
Flanking signal and mature peptide residues influence signal peptide cleavage. BMC Bioinformatics (2008) 1.10
The net charge of the first 18 residues of the mature sequence affects protein translocation across the cytoplasmic membrane of gram-negative bacteria. J Bacteriol (2000) 0.99
Cloning, functional expression, and characterization of the raffinose oligosaccharide chain elongation enzyme, galactan:galactan galactosyltransferase, from common bugle leaves. Plant Physiol (2004) 0.82
EuLoc: a web-server for accurately predict protein subcellular localization in eukaryotes by incorporating various features of sequence segments into the general form of Chou's PseAAC. J Comput Aided Mol Des (2013) 0.81
Characterization of a novel intracellularly activated gene from Salmonella enterica serovar typhi. Infect Immun (2002) 0.80
Computational comparative study of tuberculosis proteomes using a model learned from signal peptide structures. PLoS One (2012) 0.78
Predicting transmembrane protein topology with a hidden Markov model: application to complete genomes. J Mol Biol (2001) 66.87
Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites. Protein Eng (1997) 38.38
A new method for predicting signal sequence cleavage sites. Nucleic Acids Res (1986) 37.19
Patterns of amino acids near signal-sequence cleavage sites. Eur J Biochem (1983) 26.68
Predicting subcellular localization of proteins based on their N-terminal amino acid sequence. J Mol Biol (2000) 22.77
Signal sequences. The limits of variation. J Mol Biol (1985) 21.24
Sequence and structure-based prediction of eukaryotic protein phosphorylation sites. J Mol Biol (1999) 15.63
A hidden Markov model for predicting transmembrane helices in protein sequences. Proc Int Conf Intell Syst Mol Biol (1998) 14.18
Multiple alignment using simulated annealing: branch point definition in human mRNA splicing. Nucleic Acids Res (1992) 12.08
Assessing the accuracy of prediction algorithms for classification: an overview. Bioinformatics (2000) 11.75
How signal sequences maintain cleavage specificity. J Mol Biol (1984) 11.03
TopPred II: an improved software for membrane protein structure predictions. Comput Appl Biosci (1994) 10.03
ChloroP, a neural network-based method for predicting chloroplast transit peptides and their cleavage sites. Protein Sci (1999) 9.82
Prediction of transmembrane alpha-helices in prokaryotic membrane proteins: the dense alignment surface method. Protein Eng (1997) 8.25
Prediction of human mRNA donor and acceptor sites from the DNA sequence. J Mol Biol (1991) 7.93
Genome-wide analysis of integral membrane proteins from eubacterial, archaean, and eukaryotic organisms. Protein Sci (1998) 7.88
A neural network method for identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites. Int J Neural Syst (1999) 7.40
Mitochondrial targeting sequences may form amphiphilic helices. EMBO J (1986) 7.11
Machine learning approaches for the prediction of signal peptides and other protein sorting signals. Protein Eng (1999) 6.72
Splice site prediction in Arabidopsis thaliana pre-mRNA by combining local and global sequence information. Nucleic Acids Res (1996) 6.13
A DNA structural atlas for Escherichia coli. J Mol Biol (2000) 5.72
Sequence determinants of cytosolic N-terminal protein processing. Eur J Biochem (1986) 5.59
Displaying the information contents of structural RNA alignments: the structure logos. Comput Appl Biosci (1997) 5.51
A conserved cleavage-site motif in chloroplast transit peptides. FEBS Lett (1990) 4.25
Sequence differences between glycosylated and non-glycosylated Asn-X-Thr/Ser acceptor sites: implications for protein engineering. Protein Eng (1990) 4.17
How proteins adapt to a membrane-water interface. Trends Biochem Sci (2000) 3.76
NetOglyc: prediction of mucin type O-glycosylation sites based on sequence context and surface accessibility. Glycoconj J (1998) 3.19
Trans-membrane translocation of proteins. The direct transfer model. Eur J Biochem (1979) 3.13
Determination of the distance between the oligosaccharyltransferase active site and the endoplasmic reticulum membrane. J Biol Chem (1993) 3.02
Sensitive quantitative predictions of peptide-MHC binding by a 'Query by Committee' artificial neural network approach. Tissue Antigens (2003) 2.93
On the total number of genes and their length distribution in complete microbial genomes. Trends Genet (2001) 2.80
Predicting the topology of eukaryotic membrane proteins. Eur J Biochem (1993) 2.73
YidC, the Escherichia coli homologue of mitochondrial Oxa1p, is a component of the Sec translocase. EMBO J (2000) 2.70
PhosphoBase, a database of phosphorylation sites: release 2.0. Nucleic Acids Res (1999) 2.61
Prediction of human protein function according to Gene Ontology categories. Bioinformatics (2003) 2.54
Membrane proteins: the amino acid composition of membrane-penetrating segments. Eur J Biochem (1981) 2.52
Analysis of the distribution of charged residues in the N-terminal region of signal sequences: implications for protein export in prokaryotic and eukaryotic cells. EMBO J (1984) 2.43
Cleavage-site motifs in mitochondrial targeting peptides. Protein Eng (1990) 2.38
The Escherichia coli SRP and SecB targeting pathways converge at the translocon. EMBO J (1998) 2.35
A receptor component of the chloroplast protein translocation machinery. Science (1994) 2.34
Green fluorescent protein as an indicator to monitor membrane protein overexpression in Escherichia coli. FEBS Lett (2001) 2.28
Fine-tuning the topology of a polytopic membrane protein: role of positively and negatively charged amino acids. Cell (1990) 2.24
env sequences of simian immunodeficiency viruses from chimpanzees in Cameroon are strongly related to those of human immunodeficiency virus group N from the same geographic area. J Virol (2000) 2.17
Cleavage site analysis in picornaviral polyproteins: discovering cellular targets by neural networks. Protein Sci (1996) 2.12
Protein distance constraints predicted by neural networks and probability density functions. Protein Eng (1997) 2.07
Prediction of human protein function from post-translational modifications and localization features. J Mol Biol (2002) 2.05
On the hydrophobic nature of signal sequences. Eur J Biochem (1981) 2.01
Competition between Sec- and TAT-dependent protein translocation in Escherichia coli. EMBO J (1999) 1.95
The biology of eukaryotic promoter prediction--a review. Comput Chem (1999) 1.93
Prediction of organellar targeting signals. Biochim Biophys Acta (2001) 1.93
Structures of N-terminally acetylated proteins. Eur J Biochem (1985) 1.92
Assembly of a cytoplasmic membrane protein in Escherichia coli is dependent on the signal recognition particle. FEBS Lett (1996) 1.89
Topology, subcellular localization, and sequence diversity of the Mlo family in plants. J Biol Chem (1999) 1.88
Nascent membrane and presecretory proteins synthesized in Escherichia coli associate with signal recognition particle and trigger factor. Mol Microbiol (1997) 1.85
Net N-C charge imbalance may be important for signal sequence function in bacteria. J Mol Biol (1986) 1.85
Topological rules for membrane protein assembly in eukaryotic cells. J Biol Chem (1997) 1.83
Amino acid distributions around O-linked glycosylation sites. Biochem J (1991) 1.82
Exploiting the past and the future in protein secondary structure prediction. Bioinformatics (1999) 1.82
O-GLYCBASE version 4.0: a revised database of O-glycosylated proteins. Nucleic Acids Res (1999) 1.81
Prediction of O-glycosylation of mammalian proteins: specificity patterns of UDP-GalNAc:polypeptide N-acetylgalactosaminyltransferase. Biochem J (1995) 1.81
Anionic phospholipids are determinants of membrane protein topology. EMBO J (1997) 1.77
Molecular mechanism of membrane protein integration into the endoplasmic reticulum. Cell (1997) 1.70
Generating genome-scale candidate gene lists for pharmacogenomics. Clin Pharmacol Ther (2009) 1.66
Prediction of protein secondary structure at 80% accuracy. Proteins (2000) 1.65
Kissing loops hide premature termination codons in pre-mRNA of selenoprotein genes and in genes containing programmed ribosomal frameshifts. RNA (1997) 1.64
Differential use of the signal recognition particle translocase targeting pathway for inner membrane protein assembly in Escherichia coli. Proc Natl Acad Sci U S A (1998) 1.62
Cleaning the GenBank Arabidopsis thaliana data set. Nucleic Acids Res (1996) 1.62
Topological "frustration" in multispanning E. coli inner membrane proteins. Cell (1994) 1.59
G+C-rich tract in 5' end of human introns. J Mol Biol (1992) 1.57
Consensus predictions of membrane protein topology. FEBS Lett (2000) 1.55
Membrane protein topology: effects of delta mu H+ on the translocation of charged residues explain the 'positive inside' rule. EMBO J (1994) 1.53
Statistical analysis of protein kinase specificity determinants. FEBS Lett (1998) 1.53
SARS CTL vaccine candidates; HLA supertype-, genome-wide scanning and biochemical validation. Tissue Antigens (2004) 1.52
Translation rate modification by preferential codon usage: intragenic position effects. J Theor Biol (1987) 1.51
A nascent secretory protein may traverse the ribosome/endoplasmic reticulum translocase complex as an extended chain. J Biol Chem (1996) 1.51
Protein secondary structure and homology by neural networks. The alpha-helices in rhodopsin. FEBS Lett (1988) 1.50
The aromatic residues Trp and Phe have different effects on the positioning of a transmembrane helix in the microsomal membrane. Biochemistry (1999) 1.49
Towards a comparative anatomy of N-terminal topogenic protein sequences. J Mol Biol (1986) 1.46
DNA structure in human RNA polymerase II promoters. J Mol Biol (1998) 1.46
Chloroplast transit peptides from the green alga Chlamydomonas reinhardtii share features with both mitochondrial and higher plant chloroplast presequences. FEBS Lett (1990) 1.45
A 30-residue-long "export initiation domain" adjacent to the signal sequence is critical for protein translocation across the inner membrane of Escherichia coli. Proc Natl Acad Sci U S A (1991) 1.43
The distribution of charged amino acids in mitochondrial inner-membrane proteins suggests different modes of membrane integration for nuclearly and mitochondrially encoded proteins. Eur J Biochem (1992) 1.42
Sec dependent and sec independent assembly of E. coli inner membrane proteins: the topological rules depend on chain length. EMBO J (1993) 1.41
Analysis of the secondary structure of the human immunodeficiency virus (HIV) proteins p17, gp120, and gp41 by computer modeling based on neural network methods. J Acquir Immune Defic Syndr (1990) 1.41
Feature-extraction from endopeptidase cleavage sites in mitochondrial targeting peptides. Proteins (1998) 1.41
The 'positive-inside rule' applies to thylakoid membrane proteins. FEBS Lett (1991) 1.40
The COOH-terminal ends of internal signal and signal-anchor sequences are positioned differently in the ER translocase. J Cell Biol (1994) 1.39
Architecture of helix bundle membrane proteins: an analysis of cytochrome c oxidase from bovine mitochondria. Protein Sci (1997) 1.38
MatrixPlot: visualizing sequence constraints. Bioinformatics (1999) 1.38
Naturally occurring nucleosome positioning signals in human exons and introns. J Mol Biol (1996) 1.38
Genome organisation and chromatin structure in Escherichia coli. Biochimie (2001) 1.37
Determination of the border between the transmembrane and cytoplasmic domains of human integrin subunits. J Biol Chem (1999) 1.37