Protein Databases

• 3Dee - Database of Protein Domain Definitions
• ASTRAL Home Page
• CAMPASS
• CATH database of structural domains
• CSD - The Cambridge Structural Database System
• DDBJ homepage
• DIP - Database of Interacting Proteins
• EBI - MACROMOLECULAR STRUCTURE DATABASE
• EMBL - Webin Sequence Database
• European Bioinformatics Institute
• ExPASy - PROSITE
• ExPASy - SWISS-PROT and TrEMBL
• ExPASy Molecular Biology Server
• MMDB page - NCBI Structure
• MSD - Macromolecular Sequence Database
• NCBI - Entrez
• NCBI - UniGene
• NCBI HomePage
• Nucl. Acids. Res. -- Baxevanis 30
• Nucl. Acids. Res. -- Burks
• PDBsum
• PhRMA Genomics A Global Resource
• Protein Data Bank (RCSB主站)
• Protein Information Resource
• RCSB - Research Collaboratory for Structural Bioinformatics
• SCOP Structural Classification of Proteins (Berkeley)
• SCOP Structural Classification of Proteins (NTHU)

 

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Macromolecular Structure/Sequence Databases

• 3D-GENOMICS Main Page
• BAliBASE benchmark alignments
• Blocks WWW Server
• CDD - NCBI Conserved Domain Database
• DSSP - Protein structure
• ExPASy - ENZYME
• FSSP - Fold classification based on Structure-Structure alignment of Proteins
• GenomeNet WWW server
• HMMER using HMM (Hidden Markov Model)
• HMMSTR-ROSETTA Server
• HOMSTRAD
• HSSP database
• InterPro in EBI Databases
• IUBMB Nomenclature Home Page
• IUPAC - Amino Acids and Peptides Home Page
• IUPHAR - Receptor database
• KEGG - Kyoto Encyclopedia of Genes and Genomes
• MDB - Metalloprotein Site Database & Browser
• PDB At A Glance
• PDB_SELECT Representative list of PDB chain identifiers
• Pfam Home page (Saint Louis)
• Pfam Pfam Home Page
• PRINTS
• ProtoMap - automatic hierarchical classification of proteins
• SENTRA
• Sequence Unique database used by WHAT IF
• SMART - Simple Modular Architecture Research Tool
• Stockholm format
• The ProDom protein domain database

 

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Bioinformatic Tools

Molecular Simulation

• AMBER manuals
• Insight II - Accelrys
• MODELLER - Andrej Sali Lab
• SYBYL - The Tripos Bookshelf v. 6.9

 

Evaluation of Molecular Structure

• Biotech Validation Suite for Protein Structures
• Naccess homepage
• PROCHECK - protein structure checks
• SFCHECK

 

Tools of Sequence Analysis

• HMMER sequence analysis
• University of Dundee - Geoff Barton Bioinformatics and Computational Biology Research Group

   

• 3D-PSSM Protein Fold Recognition Server
• BCM Search Launcher
• Bioinformatics and Molecular Biology Tools
• CE Home Page - Combinatorial Extension
• Clustalw in EBI
• EBI Tools
• EMBL Dali server for 3-D protein structure database searches
• EMBnet Norway The EMBOSS package
• ExPASy Molecular Biology Server
• GCG.com
• MBI DOE in UCLA - Services
• MIT Scansite Menu
• NCBI BLAST Home Page
• NIH Center for Molecular Modeling
• Pedro's BioMolecular Research Tools
• POST - 陽明大學生物資訊學工具網
• PredictProtein structure prediction and sequence analysis
• Protein Topology home page
• SDSC Biology Workbench
• SMART - Simple Modular Architecture Research Tool
• SRS
• SSAP Server
• Structure Prediction Servers, BioInfo.PL
• SWBIC - Downloadable Software
• SWISS-MODEL
• The Brutlag Bioinformatics Group
• The Protein Sidechain Webpage (dunbrack)
• The Swiss Institute of Bioinformatics
• The WHAT IF Web Interface
• 國家衛生研究院巨分子序列分析服務

 

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Journals

• ACM Portal ACM Digital Library
• Advanced Drug Delivery Reviews
• Annual Review of Biochemistry
• Annual Review of Biophysics and Biomolecular Structure
• Annual Reviews Groups
• Biochemical Journal
• Biochemistry and Cell Biology
• Biochemistry
• Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics
• Biochimica et Biophysica Acta (BBA)-Protein Structure and Molecular Enzymology
• Bioinformatics
• Biological Chemistry
• BioMed Central Home page
• BiomEditor Scientific Editing
• Biophysical Chemistry
• Biophysics
• Blackwell Publishing - List of Journals
• Cell Online
• Current Opinion in Biotechnology
• Current Opinion in Chemical Biology
• Current Opinion in Structural Biology
• Drug Discovery Today
• Elsevier SDOS
• European Biophysics Journal
• European Journal of Biochemistry
• FEBS Letters
• FEMS Microbiology Reviews
• Folding & Design
• Genes & Development
• Genome Research
• Journal of Biological Chemistry
• Journal of Cell Biology
• Journal of Computational Chemistry
• Journal of Computer-Aided Molecular Design
• Journal of Molecular Biology
• Journal of Molecular Evolution
• Journal of Molecular Graphics and Modelling
• Journal of Molecular Graphics
• Journal of Molecular Modeling
• Journal of Molecular Structure
• Journal of Physical Chemistry
• Journal of Protein Chemistry
• Journal of Structural Biology
• Journal of the American Chemical Society
• Molecular and Cellular Biology
• Natural Product Reports
• Nature Biotechnology
• Nature Cell Biology
• Nature Medicine
• Nature science journals home
• Nature Structural Biology
• NCBI Journal LinkOut Home Page
• Nucleic Acids Research
• Proceedings of the National Academy of Sciences
• Protein Engineering
• Protein Science
• PROTEINS Structure, Function, and Genetics
• Proteomics
• Science Magazine Home
• Structure (SDOS)
• Structure Online
• The EMBO Journal Online
• The FASEB Journal
• The Journal of Bacteriology
• The Journal of Biochemistry
• The Journal of Chemical Physics
• The Lancet
• The New England Journal of Medicine
• Trends in Biochemical Sciences
• Trends in Biotechnology
• Trends in Cell Biology
• Trends in Microbiology
• Wiley InterScience - Journal Finder

 

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國內科研機構

• NCHC Chemistry Website
• 中央研究院 - Home of Academia Sinica
• 國家理論科學中心 National Center for Theoretical Sciences
• 國家衛生研究院 National Health Research Institutes
• 國家高速電腦中心 - NCHC
• 工業技術研究院
• 行政院國家科學委員會 National Science Council
• 財團法人生物技術開發中心

 

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國外科研機構

 

• 美國疾病管制中心Centers for Disease Control and Prevention
• 世界衛生組織World Health Organization
• 美國國家技術資訊局 NTIS Web Site
• 美國國家生物技術中心 NCBI Entrez-PubMed
• 美國國家衛生研究院 National Institutes of Health (NIH)
• 美國農業部 United States Department of Agriculture
• 美國食品藥物管理局 Food and Drug Administration

 

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Laboratories of Structural and Computational Biology

• Church Lab Publications
• Computational Biology at Oak Ridge National Laboratory
• David Eisenberg's Lab
• Dr CP Ponting - MRC Functional Genetics Unit
• James Bowie's Lab
• Lichtarge Lab
• Machine Learning, Homepage of Chris H.Q. Ding
• Macromolecular Crystallography Web Server
• The Baker Laboratory
• The Dunbrack Group
• Theoretical & Computational Biology Group (Cyrus Chothia)
• Theoretical and Computational Biophysics Group
• UCLA-DOE Institute for Genomics and Proteomics
• University of Luebeck, Director Prof. Rolf Hilgenfeld

 

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Bioinformatic Sources

• Appendix A. Software and Databases for Computational Biology on the Internet
• Bioinformatics Links
• Bioinformatics.Org Welcome to the Bioinformatics Organization!
• BioMed-Singapore.com website
• BioMedNet
• BIOSCI-bionet Electronic Newsgroup Network for Biology
• BioTech
• Cambridge Healthtech Institute
• Cancer Index
• Cell and Molecular Biology Online
• DBCAT - 生物資料庫目錄總集
• DoubleTwist - Portal to the Code
• EBI - 2can Bioinformatics Educational Resource
• FBS, A JOURNAL AND VIRTUAL LIBRARY
• Molecular Biology Database List
• NCTU Bioinformatics Center
• Pharmaceutical Research and Manufacturers of America
• PROTEIN DATABASES List
• Protein Pattern and Domain Databases
• The Bioinformatics Resource (TBR)
• BioToolKit
• 交通大學生物科技諮詢網
• 國科會生物技術資訊網
• 清華大學生物資訊中心
• 生物資訊核心實驗室
• 結構及細胞生物諮詢網 InfoLIFE
• 美國國家食品藥物管理局 Food and Drug Administration Home Page
• 美國生物技術產業協會 Biotechnology Industry Organization
• 美國生物科學資訊服務 BIOSIS
• 臺大生物技術研究中心
• 醫藥衛生研究資訊網
• 陽明大學生物資訊中心
• 國家高速電腦中心 Bioinformatics Resources on WWW