Biochemistry resources

Local links

[ Course home pages ] [Biochemistry Dictionary ] [ General Chemistry ]

 

Biochemistry and Bioinformatics links

* PDB Protein Data Bank - protein structure database

* NCBI - National Center for Biotechnology Information (Entrez, PubMed, GenBank, BLAST, and more)

Molecular viewing and graphics:

* Swiss PDB Viewer (home page @ ExPASy) | Swiss PDB Viiewer: Basic tutorial |
* The incomparable O: [ The O files ] [ A-Z of O ]
* PyMOL: [ home page ] [ PyMOL tips ]
* MDL Chime
* RasMol Home Page; 
* MDL Chemscape .
* RasMol Home Page
* spock

enzymology

* IUBMB Nomenclature Home Page
* Enzyme Nomenclature & Supplement 1998
* The MCA Web
* PROLYSIS
* Handbook - 10.6 Enzyme Inhibitors, Activators and Active-Site Titrants (from Molecular Probes)

Proteins and proteomics

@ ExPASy  Experimental Protein Analysis - Molecular Biology Server. Includes SwissProt, Prosite, and an extensive collection of proteomics tools and other links.

The Sanger Center Pfam (Protein families database of alignments and HMMs).

Journals

* ACSWeb from the American Chemical Society
* Annual Reviews
* Biochemistry
* BioMedNet journal list
* Cell Press Online
* Cell Death and Differentiation
* EMBO Journal
* IUCr Crystallography journals
* Journal of Bacteriology
* Journal of Biological Chemistry (JBC)
* Journal of Cell Biology
* Journal of Molecular Biology
* NATURE - Journal of science
* Nucleic Acids Research
* Proceedings of the National Academy of Sciences USA
* Protein Science
* SCIENCE
* Nucleic Acids Research
* Protein Science

Books

* Biochemistry (5th edition) Jeremy M. Berg, John L. Tymoczko, Lubert Stryer (WH Freeman)
* Lubert Stryer Biochemistry (4th edition)

Protein tools

Crystallography

 

Circular dichroism

* Astbury Centre @ Leeds
* Aviv Instruments
* Circular Dichroism at UMDNJ
* Karolinska Institute
* LLNL CD Tutorial
* MacInFac@UNC
* Synchrotron Radiation CD

calorimetry

* Double Deconvolution of Protein Calorimetry Data
* Dr. Stephanie Tristram-Nagle - homepage

protein expression

* Protein expression lab (DOE-MBI @UCLA)

Analytical ultracentifugation

  * Beckman-Coulter (look under centrifugation)

Fluorescence

Protein structure prediction

Critical Assessment of Techniques for Protein Structure Prediction: [ CASP5 ] [ CASP4 ]
Baker lab at UW Dept of Biochemistry

Biochemistry & medicine

* Merck publications: Merck Manual of Diagnosis and Therapy & Merck Manual of Medical Information
* ThCME Medical Biochemistry page

Academic departments

* Dept of Biological Chemistry @ Univ. of Michigan
* Leeds Biochemistry and Molecular Biology
* Nebraska Biochemistry
* Purdue Biochemistry
* UBC Biochemistry and Molecular Biology
* University of Sussex - Biochemistry, Cell and Molecular Biology
* Washington U. Dept. of Biochemistry and Molecular Biophysics

internet tools

* NCBI BLAST Search
* Database and Search Tools (formerly known as Biologists's Control Panel)
* EMBnet.ch
* ExPASy - PROSITE top page
* ExPASy - Compute pI/Mw tool
* ExPASy - SWISS-PROT and TrEMBL
* ExPASy - Biochemical Pathways
* ProDom: protein domain database
* ProWeb
* Brenda, the enzyme database
* BRENDA, the Enzyme Database

research groups

Frankel Lab Home Page
* Natural Toxins Research Initiative (NTRI)
* Computational Biochemistry Research Group @ETH Zurich  

general; info and education

* BioChemLinks (formerly BioChemNet)
* An Introduction to Protein Structure
* Bioenergetics (Oxidative Phosphorylation home page)
* ThCME Medical Biochemistry page

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