> Protein

Protein

This category contains links to useful resources for protein sequence and structure analyses. Resources for phylogenetic analyses, prediction of protein features, and analyses of interactions are also found here.

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  • 2-D Structure Prediction (55)

    This sections contains links to several programs which predict protein secondary structure. A link to resources for the evaluation of protein structure prediction is also found here.

  • 3-D Structural Features (97)

    This section includes tools for searching for structural motifs, biochemical features found in protein structures, and functional sub-structures such as binding sites.

  • 3-D Structure Comparison (64)

    Resources for the comparison of sequences at the level of tertiary structure are also found here. This includes tools for superimposing structures and for creating structural alignments.

  • 3-D Structure Prediction (79)

    This section contains links to resources to aid in protein 3D structure prediction.

  • 3-D Structure Retrieval/Viewing (53)

    Links to tools for visualization of 3D structures are found here. This section also contains links to many 3D structure databases.

  • Annotation and Function (55)

    This section contains links to tools for annotating proteins and predicting protein function, localization, and other classifications.

  • Biochemical Features (43)

    The resources in this section include protein identification tools as well as tools which can give you information on the chemical structures and amino acid properties of peptide sequences.

  • Databases (115)

    This section contains databases of protein sequences, properties, targeting, motifs, domains, structures, and protein families.

  • Do-it-all Tools for Protein (15)

    These resources are free, publicly available, multi-purpose tools for protein sequence analysis. This is a good place to start if you're looking for a general sequence analysis package.

  • Domains and Motifs (116)

    This section includes links to tools which can give information about protein domains and/or predict motifs, domains, and patterns in peptide sequences.

  • Interactions, Pathways, Enzymes (124)

    These links include databases for enzyme, metabolic and proteomic pathways. Many of these resources contain dynamic pathway diagrams.

  • Localization and Targeting (37)

    This section contains links to tools related to predicting subcellular localization, the presence of transmembrane regions, and/or targeting including the prediction of signal peptides.

  • Molecular Dynamics and Docking (44)

    This section includes resources for molecular dynamics including tools that can predict the movements of structures and/or conformational changes. Molecular docking servers are also included here.

  • Phylogeny Reconstruction (51)

    This section contains links to tools and databases for phylogeny reconstruction, including taxonomy resources

  • Presentation and Format (14)

    You can find links to several good tools for manipulating the appearance and format of protein sequences, collections of protein sequences, and alignments in this section.

  • Protein Expression (10)

    This section contains links to protein expression data and resources for analysis of data including 2D gels.

  • Proteomics (33)

    This section contains links to general proteomics resources, methods, software, and databases.

  • Sequence Comparison (17)

    The links from this subcategory have been moved. They are now located in Top : Sequence Comparison.

  • Sequence Data (9)

    These are the sites to visit to find the sequence and/or structure records for your protein of interest.

  • Sequence Features (48)

    This section includes links to tools which can predict primary sequence features for the residues of a protein.

  • Sequence Retrieval (28)

    These resources include links to protein sequence retrieval tools including BLAST, EMBOSS, Entrez, and SRS.

    • Tags associated with category 'Protein'

    proteins protein databases protein sequence analysis humans algorithms computational biology molecular models animals protein conformation sequence alignment tertiary protein structure amino acid sequence genetic databases binding sites molecular sequence data protein interaction mapping factual databases amino acid sequence homology secondary protein structure reproducibility of results mutation vibration plant dna formycins proprotein convertases plant proteins quaternary protein structure glycosyltransferases rotation motion pictures as topic motion fungal genome false positive reactions quantitative structure-activity relationship viral matrix proteins biotin papain ribosomes hydroxymethylbilane synthase documentation london microtubule-associated proteins peptide fragments polypyrimidine tract-binding protein calmodulin plant lectins heparitin sulfate ovomucin exotoxins influenza virus hemagglutinin glycoproteins phosphoenolpyruvate sugar phosphotransferase system