Biology: Bioinformatics: Online Services: Protein Analysis

the entire directory   only this category Advanced Search
	Home: Biology: Bioinformatics: Online Services: Protein Analysis LINKS: SWISS-PROT + TrEMBL http://www.ebi.ac.uk/swissprot/ The SWISS-PROT database contains high-quality annotation, is non-redundant and cross-referenced to many other databases. SWISS-PROT is accompanied by TrEMBL, a computer-annotated supplement, which contains the translations of all coding sequences (CDS) present in the EMBL Nucleotide Sequence Database, which are not yet integrated into SWISS-PROT. Quaternary Structure Prediction http://mericity.com/ An experimental bioinformatics server. Classifies protein sequences as homodimers or non-homodimers. Applications: metabolic reconstruction, protein structure and function assignment, and drug-design. Swiss-Pdb Viewer http://www.expasy.ch/spdbv/ User-friendly interface allowing analysis of several proteins at once, including superimposition to deduce structural alignments, and compare active sites. From GlaxoWellcome Experimental Research, Geneva, Switzerland. Proteomics Analysis: Z3 and LabOnWeb's Z3OnWeb http://www.2dgels.com Proteomic analysis for analyzing 2D-Gel images. Use Compugen's Z3 or Z3OnWeb utitlities for automatic spot detection and registration (=alignment) of protein gel images to match the spots. Swiss-Model http://www.expasy.ch/swissmod/SWISS-MODEL.html Automated comparative protein modelling server to make protein modelling accessible to biochemists and molecular biologists worldwide - from GlaxoWellcome Experimental Research, Geneva, Switzerland. The Protein Information Resource http://pir.georgetown.edu In collaboration with the Munich Information Center for Protein Sequences (MIPS) and the Japanese International Protein Sequence Database (JIPID) maintains the PIR-International Protein Sequence Database --- a comprehensive, annotated, and non-redundant set of protein sequence databases in which entries are classified into family groups and alignments of each group are available. InterPro - The Integrated Resource of Protein Domains and Functional Sites. http://www.ebi.ac.uk/interpro/ A database built from Pfam, PRINTS and PROSITE. Proteomics Tools http://www.expasy.ch/tools/ Online software for protein analysis from the Swiss Institute of Bioinformatics (SIB). Combinatorial Extension of Polypeptides http://cl.sdsc.edu/ce.html Method for finding 3-D similarities in protein structures from the UCSD Supercomputer Center. Munich Information Center for Protein Sequences (MIPS) http://mips.gsf.de/ Bioinformatics research group offering organism specific information (Yeast, Cress) as well as search tools for public databases. Entelechon Backtranslation tool http://www.entelechon.com/eng/backtranslation.html Online backtranslation tool for translating a protein sequence into a DNA sequence. The codon usage can be downloaded from a database and adjusted manually for each amino acid, if required. Java applet. Protonet http://www.protonet.cs.huji.ac.il Provides automatic hierarchical classification of proteins sequences. PredictProtein Server http://cubic.bioc.columbia.edu/predictprotein/ Most widely used server for analysing protein sequences, searching protein databases, and predicting protein structure - from Columbia Univ. Molecular Biology Tools Online http://mbt.biobitfield.com/ Includes WebOligoMelt (Annealing temperature of oligonucleotides), Virtual Ribosome (translate nucleotide sequences into peptides), and SeqScanGraph (graph melting temperature along nucleotide chain). EMBL Bioinformatic Harvester http://harvester.embl.de Collection of human (swall) proteins, crossreferences to major prediction servers. Supported predictions from: smart, string, blast, swall, mapview, sosui, ipsort and ncbi conserved domains. ProtFun http://www.cbs.dtu.dk/services/ProtFun/ Ab initio predictions of protein function from protein sequence. The method works by integrating various predicted post-translational and localizational aspects of the proteins submitted. 3D-JIGSAW http://www.bmm.icnet.uk/~3djigsaw/ Automated comparative (homology) protein modelling, including an interactive mode which highlights known domains and allows users to select and align templates. 3D-PSSM Fold Recognition http://www.sbg.bio.ic.ac.uk/~3dpssm/ Combines sequence and structural information for predicting the structure and/or function of your protein sequence, and can detect remote homologies beyond PSI-Blast. PDB Ligand Environment http://www.ebi.ac.uk/msd-srv/msdsite Ligand search engine to EBI Macromolecule Structure Database. Provides PDB ID codes with further visualization and statistics charts. Protein Structure Prediction Server (PSIPRED) http://bioinf.cs.ucl.ac.uk/psipred/ 3D protein structure prediction from amino acid sequence. Includes MEMSAT for transmembrane topology prediction, GenTHREADER and mGenTHREADER for fold recognition. Jpred http://www.compbio.dundee.ac.uk/~www-jpred/ Secondary protein structure prediction from amino acid sequence; based on a consensus from several methods including DSC, PHD, NNSSP, PREDATOR, ZPRED, and MULPRED. JAligner http://jaligner.sourceforge.net/ Open source Java implementation of the dynamic programming algorithm Smith-Waterman for biological local pairwise sequence alignment.

Open forum for all scientific topics!
Excellent source of information to study.
This forum is place to talk with interesting people