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Links tagged with 'protein sorting signals'

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Found 15 links

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DePIETool Content

http://biocore.unl.edu/primer/primerPI.html

DNA > Tools For the Bench
Protein > Interactions, Pathways, Enzymes

Design Primers for Protein Interaction Experiments (DePIE) is a web-based primer design tool for protein interaction experiments.

NAR Web Server Issue 2003
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tagsdna primers nucleic acid databases nucleic acid denaturation polymerase chain reaction protein databases protein sorting signals proteins sequence analysis tertiary protein structure two-hybrid system techniques yeasts

DILIMOTTool Content

http://dilimot.embl.de/

Protein > Domains and Motifs
Protein > Interactions, Pathways, Enzymes

Discovery of Linear Motifs (DILIMOT) is a server for finding short (3-8 amino acids) over-represented peptide patterns in a set of proteins.

NAR Web Server Issue 2006
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tagsamino acid motifs amino acid sequence animals binding sites genome humans microtubule-associated proteins molecular models molecular sequence data peptides protein binding protein kinases protein sequence analysis protein sorting signals proteins tertiary protein structure

EffectiveDatabase Content

http://effectors.org

Protein > Databases

Effective is a database of predicted bacterial secreted proteins, implementing two complementary prediction strategies for protein secretion: the identification of eukaryotic-like protein domains and the recognition of signal peptides in amino acid sequences. The Effective web portal provides user-friendly tools for browsing and retrieving comprehensive precalculated predictions for whole bacterial genomes as well as for the interactive prediction of effectors in user-provided protein sequences.

NAR Database Issue 2011
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tagsbacterial genome bacterial proteins protein databases protein sorting signals tertiary protein structure

LOCtargetTool Content

http://www.rostlab.org/services/LOCtarget/

Protein > Annotation and Function

LOCtarget is a tool for predicting, and a database of pre-computed predictions for, sub-cellular localization of eukaryotic and prokaryotic proteins. Several methods are employed to make the predictions, including text analysis of SWISS-PROT keywords, nuclear localization signals, and the use of neural networks.

NAR Web Server Issue 2004
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tagsamino acid sequence homology eukaryotic cells genetic databases genomics neural networks (computer) nuclear localization signals prokaryotic cells protein sequence analysis protein sorting signals proteins

MemPypeTool Content

http://mu2py.biocomp.unibo.it/mempype

Computer Related > Workflows
Protein > Localization and Targeting

MemPype is a Python-based pipeline that integrates several tools for the prediction of topology and subcellular localization of Eukaryotic membrane proteins.

NAR Web Server Issue 2011
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tagsamino acid sequence homology gpi-linked proteins membrane proteins molecular sequence annotation protein sorting signals tertiary protein structure

PhobiusTool Content

http://phobius.sbc.su.se/

Protein > 2-D Structure Prediction
Protein > Localization and Targeting

Phobius is a combined transmembrane topology and signal peptide predictor. The server also allows for constrained and homology-enriched predictions.

This content is being maintained by lukall.

NAR Web Server Issue 2007
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tagsalgorithms artificial intelligence computational biology computer simulation cytoplasm markov chains membrane proteins molecular models probability programming languages protein conformation protein databases protein sorting signals proteomics secondary protein structure statistical models theoretical models

PONGOTool Content

http://pongo.biocomp.unibo.it/

Protein > 2-D Structure Prediction
Protein > Localization and Targeting

PONGO allows users to compare topology predictions of membrane proteins made by four different predictors (MEMSAT, TMHMM, ENSEMBLE, and PRODIV). It also displays a signal peptide prediction determined with SPEP.

NAR Web Server Issue 2006
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tagsalgorithms artificial intelligence automated pattern recognition humans lipoproteins membrane proteins neural networks (computer) protein conformation protein sequence analysis protein sorting signals reproducibility of results sensitivity and specificity sequence alignment

PrediSiTool Content

http://www.predisi.de/

Protein > Annotation and Function
Protein > Localization and Targeting

PrediSi (Prediction of Signal Peptides) takes one or more amino acid sequences as input and predicts the likelihood that they are signal peptides as well as their cleavage positions. It can be used to analyse whole proteome datasets.

NAR Web Server Issue 2004
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tagsbacterial proteins eukaryotic cells peptides protein sequence analysis protein sorting signals proteome reproducibility of results

ProTeusDatabase Content

http://www.proteus.cs.huji.ac.il/index.php

Protein > Annotation and Function
Protein > Domains and Motifs

ProTeus (Protein Terminus) is an archive of functional signatures in protein termini

NAR Web Server Issue 2005
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tagsoligopeptides protein databases protein sequence analysis protein sorting signals

PROTEUS2Tool Content

http://wishart.biology.ualberta.ca/proteus2

Protein > Do-it-all Tools for Protein

PROTEUS2 is a web server for comprehensive protein structure prediction and structure-based annotation. The analysis pipeline includes signal identification, trans-membrane helix prediction, trans-membrane beta-strand prediction, secondary structure prediction and homology modeling for user inputs of single or multiple sequences.

NAR Web Server Issue 2008
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tagsalgorithms membrane proteins molecular models protein sequence analysis protein sorting signals protein structural homology secondary protein structure

PSORT.orgTool Content

http://www.psort.org/

Protein > Localization and Targeting

PSORT.org provides links to the PSORT family of web-based programs for subcellular localization prediction, including PSORTb and WoLF PSORT, well as other datasets and resources relevant to localization prediction.

NAR Web Server Issue 2003
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tagsalgorithms amino acid sequence bacterial outer membrane proteins bacterial proteins bayes theorem binding sites cell membrane computational biology cytoplasm decision trees escherichia coli evaluation studies as topic expert systems factual databases fungal proteins gram-negative bacteria humans lipoproteins membrane proteins molecular sequence data neural networks (computer) protein databases protein precursors protein sequence analysis protein sorting signals proteins reproducibility of results saccharomyces cerevisiae secondary protein structure sequence alignment subcellular fractions

SVMtmTool Content

http://ccb.imb.uq.edu.au/svmtm/svmtm_predictor.shtml

Protein > 2-D Structure Prediction
Protein > Localization and Targeting

Support Vector Machine Transmembrane (SVMtm) predicts transmembrane helices when given protein sequences in FASTA format.

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tagsalgorithms amino acid sequence membrane proteins molecular models neural networks (computer) protein databases protein sequence analysis protein sorting signals reproducibility of results

The Mendel SiteTool Content

http://mendel.imp.ac.at/

Protein > Biochemical Features
Protein > Domains and Motifs
Protein > Localization and Targeting

The Mendel Site contains a collection of tools for predicting lipid postranslational modifications and localization signals in protein sequences.

NAR Web Server Issue 2003
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tagsacyltransferases amino acid motifs animals eukaryotic cells fungal proteins glycine glycosylphosphatidylinositols lipid metabolism molecular sequence data myristic acids peroxisomes plant proteins post-translational protein processing protein sequence analysis protein sorting signals proteins protozoan proteins viral proteins

TRAMPLETool Content

http://gpcr.biocomp.unibo.it/biodec/

Protein > 2-D Structure Prediction
Protein > Localization and Targeting

TRAMPLE is a tool for the prediction of transmembrane helices, transmembrane strands, secondary structure, and signal peptides.

NAR Web Server Issue 2005
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tagsalgorithms amino acid sequence amino acid sequence homology animals bacterial outer membrane proteins biological models chemical models computer security computer simulation database management systems double-blind method escherichia coli evaluation studies as topic factual databases forecasting haemophilus influenzae humans markov chains membrane proteins molecular models molecular sequence data neural networks (computer) porins protein folding protein sequence analysis protein sorting signals reproducibility of results rhodopseudomonas secondary protein structure sequence alignment software design statistical models

WoLF PSORTTool Content

http://wolfpsort.org/

Protein > Localization and Targeting

WoLF PSORT is an extension of the PSORT II program for protein subcellular location prediction.

NAR Web Server Issue 2007
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tagsarabidopsis computational biology humans membrane proteins programming languages protein databases protein sequence analysis protein sorting signals proteins reproducibility of results secondary protein structure statistical models