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Proteins


[Info] [Journals] [Software] [Databases] [Institutions]

Proteins:

Information resources on the chemistry and biochemistry of proteins: lecture notes, databases, journals, research etc.

See also: cross-references to related topics on the left side.

To suggest a link please use our registration form.


  • Amino acids
    More resources, ChemLin (D) [d, e]


  • Membrane Proteins of Known Three-Dimensional Structure
    Stephen White Laboratory (USA) [e]


  • Principles of Protein Structure, Comparative Protein Modelling and Visualisation
    Online-Kurs, Expasy (CH) [e]


  • Protein Kinase Resource, PKR
    ... is a web accessible compendium of information on the protein kinase family of enzymes (JP) [e]


  • Protein Structure and Function
    An overview (USA) [e]


  • Protein Topology
    Protein structural topology and protein topology cartoons (UK) [e]


  • PSA Protein Structure Prediction Server
    BMERC's PSA Server (USA) [e]


  • The Principles of Protein Structure
    (UK) [e]


  • Biochemistry journals
    More resources, ChemLin (D) [D, e]


  • Current Protein and Peptide Science
    Journal, Bentham [e]


  • Current Proteomics
    Journal, Bentham [e]


  • EMBO Journal Online
    European Molecular Biology Organization [e]


  • Peptides
    Journal, Elsevier (NL) [e]


  • PNAS
    Proceedings of the National Academy of Sciences (USA) [e]


  • Protein and Peptide Letters
    Journal, Bentham [e]


  • Protein Engineering Design and Selection
    Journal, Oxford University Press (UK) [e]


  • Protein Expression and Purification
    Journal, Elsevier (NL) [e]


  • Protein Science
    Journal, The Protein Society (USA) [e]


  • Proteins: Structure, Function, and Bioinformatics
    Journal, Wiley-Interscience [e]


  • Proteomics
    Journal, Wiley-Interscience [e]


  • PROW
    International WWW Resource / Journal on Human Proteins, NCBI (USA) [e]


  • Regulatory Peptides
    Journal, Elsevier (NL) [e]


  • EMBOSS
    ... is a package of high-quality FREE Open Source software for sequence analysis (UK) [e]


  • ENDscript
    An interface grouping seven types of programs: BLAST; MULTALIN and CLUSTALW; DSSP; CNS; ESPript; BOBSCRIPT and MOLSCRIPT; PHYLODENDRON (F) [e]


  • ESPript
    Easy Sequencing in Postscript. A utility to generate a pretty PostScript output from aligned sequences (F) [e]


  • ExPASy Tools
    (CH) [e]


  • MolScript
    ... is a program for displaying molecular 3D structures, such as proteins, in both schematic and detailed representations (SE) [e]


  • PSORT
    ... is a computer program for the prediction of protein localization sites in cells (JP) [e]


  • RasMol
    Molecular Visualization Freeware (USA) [e]


  • 3-D Protein Structure
    Databases and Tools for 3-D Protein Structure Comparison and Alignment (USA) [e]


  • AARS
    Aminoacyl-tRNA Synthetase Database (PL) [e]


  • ABCdb
    Archaeal and Bacterial ABC transporter database (F) [e]


  • ASPD
    Artificial Selected Proteins/Peptides Database. a curated database on selected from randomized pools proteins and peptides (RU) [e]


  • BioMagResBank
    BMRB. A Repository for Date from NMR Spectroscopy on Proteins, Peptides and Nucleic Acids (USA) [e]


  • BLAST
    Basic Local Alignment Search Tool (USA) [e]


  • BMCD
    Biological Macromolecule Crystallization Database and the NASA Archive for Protein Crystal Growth Data (USA) [e]


  • BMRB
    BioMagResBank. A Repository for Date from NMR Spectroscopy on Proteins, Peptides and Nucleic Acids (USA) [e]


  • Brenda
    The Comprehensive Enzyme Information System (D) [e]


  • Cambridge Crystallographic Data Centre
    CCDC (UK) [e]


  • CATH
    ... is a novel hierarchical classification of protein domain structures, which clusters proteins at four major levels, Class(C), Architecture(A), Topology(T) and Homologous superfamily (H) (UK) [e]


  • CDD
    A Conserved Domain Database and Search Service (USA) [e]


  • ClustalW
    ... is a general purpose multiple sequence alignment program for DNA or proteins (UK) [e]


  • CSDBase
    An Interactive Database for Cold Shock Domain (CSD) Containing Proteins and the Bacterial Cold Shock Response (D) [e]


  • Dali server
    Network service for comparing protein structures in 3D (UK) [e]


  • DExH/D protein database
    ... is an attempt to gather information about the DExH/D protein family with particular emphasis on the biochemical and functional characteristics of these proteins () [e]


  • DIP
    Database of Interacting Proteins (USA) [e]


  • DSSP database
    ... is a database of secondary structure assignments (and much more) for all protein entries in the Protein Data Bank (PDB) (NL) [e]


  • EMBL Nucleotide Sequence Database
    (UK) [e]


  • EMBL-Align Multiple Sequence Alignment Database
    Sequence alignment data (UK) [e]


  • ENZYME
    Enzyme nomenclature database (CH) [e]


  • ExPASy Molecular Biology Server
    Expert Protein Analysis System (CH) [e]


  • EXProt
    ... a database for proteins with an experimentally verified function (NL) [e]


  • Fasta3
    Fasta similarity searching against protein databases (UK) [e]


  • GPCRDB
    Information system for G protein-coupled receptors (GPCRs) (CH) [e]


  • HEART-2DPAGE
    The Human Myocardial Two-Dimensional Electrophoresis Protein Database (D) [e]


  • Hits
    ... is a database devoted to protein domains. It is also a collection of tools for the investigation of the relationships between protein sequences and motifs described on them (CH) [e]


  • Huge
    A Database of Human Unidentified Gene-Encoded Large Proteins Analyzed by Kazusa cDNA Project (JP) [e]


  • IMGT
    International ImMunoGeneTics database (F) [e]


  • IMGT/HLA Sequence Database
    ... provides a specialist databases for sequences of the human major histocompatibility complex (HLA) and includes the official sequences for the WHO HLA Nomenclature Committee For Factors of the HLA System (UK) [e]


  • InBase
    The New England Biolabs Intein Database (USA) [e]


  • InterPro
    ... is a database of protein families, domains and functional sites in which identifiable features found in known proteins can be applied to unknown protein sequences (UK) [e]


  • Isostar
    A Knowledge Base of Intermolecular Interactions (USA) [e]


  • Kabat
    Database of Sequences of Proteins of Immunological Interest (USA) [e]


  • LIGAND
    Database of Chemical Compounds and Reactions in Biological Pathways (JP) [e]


  • Ligand Gated Ion Channel Database
    ... currently contains 402 entries of ligand-activated ion channel subunits (30 sequences waiting to be processed and incorporated) (F) [e]


  • MDB
    Metalloprotein Site Database & Browser (USA) [e]


  • MEROPS database
    ... is an information resource for peptidases (also termed proteases, proteinases and proteolytic enzymes) and the proteins that inhibit them (UK) [e]


  • MetaFam
    Database of protein family information (USA) [e]


  • Metalloprotein Site Database & Browser
    MDB (USA) [e]


  • MINT
    ... is a database designed to store functional interactions between biological molecules (proteins, RNA, DNA) (USA) [e]


  • Mirage
    Molecular Informatics Resource for the Analysis of Gene Expression [e]


  • ModBase
    A database of three-dimensional protein models calculated by comparative modeling (USA) [e]


  • MPsrch
    Protein Database Query. EMBL (UK) [e]


  • MultAlin
    Multiple sequence alignment (F) [e]


  • MutaProt
    Comparison of PDB files which differ by point mutations (IL) [e]


  • NDB
    The Nucleic Acid Database; a repository of three-dimensional structural information about nucleic acids (USA) [e]


  • NuReBase
    Nuclear Receptor dataBase (F) [e]


  • Obsolete PDB entries
    (USA) [e]


  • PDB
    Protein Data Bank. The single worldwide repository for the processing and distribution of 3-D biological macromolecular structure data (USA) [e]


  • Peptaibol Database
    This site aims to provide a fully searchable database for the sequences of peptaibols. It deals primarily with naturally occuring peptides, generally these have a fungal origin (UK) [e]


  • Pfam
    The Pfam database of protein domains and HMMs (USA) [e]


  • PhosphoBase
    A database of phosphorylation sites (DK) [e]


  • PIR
    PIR-International Protein Sequence Database (USA) [e]


  • PKR
    Protein Kinase Resource (USA) [e]


  • PlantsP
    Functional Genomics of Plant Phosphorylation (USA) [e]


  • PPMdb
    The aims of the project are to generate a directory of Arabidopsis plasma membrane proteins and to obtain expression and sequence data (BE) [e]


  • PPSEARCH
    EBI (UK) [e]


  • PredictProtein Server
    A service for sequence analysis, and structure prediction, EMBL (D) [e]


  • PRINTS
    A compendium of protein fingerprints (UK) [e]


  • ProDom
    The Protein Domain database (F) [e]


  • Promise
    The Prosthetic groups and Metal Ions in Protein Active Sites Database (UK) [e]


  • Pronet Online
    Protein-protein interaction data (USA) [e]


  • Prosite
    Database of protein families and domains (USA) [e]


  • Protein Data Bank
    PDB. The single worldwide repository for the processing and distribution of 3-D biological macromolecular structure data (USA) [e]


  • Protein Explorer
    (USA) [e]


  • Protein Family Databases
    A collection of protein family information sites (CN) [e]


  • Protein Kinase Resource
    PKR (USA) [e]


  • Protein Mutant Database
    PMD (JP) [e]


  • ProtoMap+
    ... is an automatic hierarchical classification of all SWISSPROT and TrEMBL proteins (USA) [e]


  • ReNaBI
    Sequence Analysis (F) [e]


  • RNase P Database
    ... is a compilation of RNase P sequences, sequence alignments, secondary structures, three-dimensional models, and accessory information (USA) [e]


  • S/MARt DB
    ... collects information about scaffold/matrix attached regions and the nuclear matrix proteins that are supposed be involved in the interaction of these elements with the nuclear matrix. It covers the whole range from yeast to human (D) [e]


  • SBASE
    Protein domain library (IT) [e]


  • SCOP
    Structural Classification of Proteins (UK) [e]


  • SENTRA
    A Database of Sensory Signal Transduction Proteins (USA) [e]


  • SeqAnalRef
    Sequence analysis bibliographic reference database (CH) [e]


  • Sequence Retrieval System
    Network Browser for Databanks in Molecular Biology (D) [e]


  • Sequence, Structure & Function Databases
    123genomics (USA) [e]


  • Structure Finder
    ... is comprised of the search interfaces and the databases developed by the NDB Project (USA) [e]


  • SWISS-2DPAGE
    Two-dimensional polyacrylamide gel electrophoresis database (CH) [e]


  • SWISS-MODEL Repository
    Automatically generated protein models. Search the 3DCrunch Index (CH) [e]


  • SWISS-PROT
    Protein knowledgebase (CH) [e]


  • Telomere Protein Database
    (USA) [e]


  • The Protein Machine
    Translation Machine, Eingabe der DNA-Sequenz (UK) [e]


  • TIGR Databases
    A collection of curated databases containing DNA and protein sequence, gene expression, cellular role, protein family, and taxonomic data for microbes, plants and humans (USA) [e]


  • TMAP multiple sequence alignment form
    A service predicting transmembrane segments in proteins, EMBL (SE) [e]


  • TRANSFAC
    The Transcription Factor Database (D) [e]


  • Vida
    ... contains a complete collection of homologous protein families derived from open reading frames from complete and partial virus genomes (UK) [e]


  • Webcutter
    On-line tool for restriction mapping nucleotide sequences (SE) [e]


  • WPDB
    The Protein Data Bank Through Microsoft Windows. Software zur PDB-Datenbank (USA) [e]


  • Max Planck Research Unit for Enzymology of Protein Folding
    Enzyme-Halle (D) [e]


  • Protein Structure Factory
    PSF (D) [d, e]


  • Therapeutic proteins and target screening
    The IGB has been working for about ten years on projects on the structural elucidation, recombinant production, and design of pharmaceutical proteins; FHG (D) [d, e]


  • UltraStrukturNetzwerk
    (D) [d]


 
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Subject category: Proteins

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The author- or copyrights of the listed Internet pages are held by the respective authors or site operators, who are also responsible for the content of the presentations.

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To add your commercial site to this index use the advertising order form. To suggest a non-profit site (scientific information) use the add-url-form.


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Corresponding Chemistry Books

 

 

Roger L. Lundblad

The Evolution from Protein Chemistry to Proteomics: Basic Science to Clinical Application

CRC, 2005.


Jack Kyte

Structure in Protein Chemistry

Garland Science, 2006.


© 1996 - 2007 ChemLin, AJ, updated on 16.03.2007


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