Web Links
This collection of Web Links was recognized as the"Best of Biochemistry" by Science Magazine, May 2000.
Plugins:
| A number of the functionalities of this site depend upon the use of plugins for the web browser. Both the Shockwave Flash player (for animations) and the Chime program (for manipulation of molecules in three dimensions) provide the immersive experience that helps bring biochemistry to life. You can learn more about these programs by clicking on the following links. |
The Chime Support site
http://www.mdli.com./support/chime/default.html
Biochemical tutorials in Chime
http://www.umass.edu/microbio/rasmol/tutbymol.htm#grisham
A collection of Chime images
http://info.bio.cmu.edu/Courses/BiochemMols/SelExMain.htm
Flash: After you have installed Flash you may enjoy going here.
http://www.shockwave.com/bin/shockwave/main/frame_set.jsp
Some additional viewer links are:
The Rasmol Home Page: Molecular visualization freeware.
http://www.umass.edu/microbio/rasmol/
WebLab Viewer: Molecular simulation software.
http://www.msi.com:80/weblab/
FoldIt: A freeware molecular modeling program for the Mac.
http://www-timc.imag.fr/Jean-Claude.Jesior/
Cn3D: A helper application to view 3D structures from the Entrez retrieval service.
http://www.ncbi.nlm.nih.gov/Structure/CN3D/cn3d.html
Chemical Structures:
The Klotho biochemical compound database
http://www.ibc.wustl.edu/klotho/
Chemical structures and formulas from NIH
http://ntp-db.niehs.nih.gov/Main_Pages/pub-Structures.html
A collection of molecular models in PDB format
http://www.sci.ouc.bc.ca/chem/molecule/molecule.html
A library of 3D molecular structures
http://www.nyu.edu/pages/mathmol/library/library.htm
General Web Links:
Links to Biochemical Literature
Scientific American: Complete articles and more.
http://www.sciam.com/index.html
J. Biol. Chem.: Home page of the Journal of Biological Chemistry.
http://www.jbc.org/
Nature Magazine: Home page of an important series of biochemistry journals.
http://www.nature.com/
Science Online: The weekly journal of the American Association for the Advancement of Science.
http://www.sciencemag.org/
Biochemical Journals listing: An extensive database of links to biochemical journals.
http://www.public.iastate.edu/~pedro/rt_journals.html
Medical Biochemistry
BioMedNet: An Internet community for biological and medical researchers.
http://www.biomednet.com/
HotMolecBase: Biological factors that play a key role in diseases.
http://bioinformatics.weizmann.ac.il/hotmolecbase/
Medical Biochemistry: A link to the resources of the University of Kansas Medical Center.
http://www.kumc.edu/research/medicine/biochemistry/bioc800/opening.html
More medical biochemistry: From the Terre Haute Center for Medical Education.
http://web.indstate.edu:80/thcme/mwking/
Medical Biochemistry Review: From the Temple University School of Medicine.
http://www.temple.edu/medbiochem/medical_review.html
NetBiochem: An extensive collection of topics in medical biochemistry.
http://www-medlib.med.utah.edu/NetBiochem/NetWelco.htm
Communicable Disease Surveillance and Response: From the World Health Organization.
http://www.who.int/emc/index.html
OMIM (Online Mendelian Inheritance in Man): Human genes and genetic disorders.
http://www.ncbi.nlm.nih.gov/Omim/
PubMed: The National Library of Science search service for Medline.
http://www.ncbi.nlm.nih.gov/PubMed/
Essays on the History of Biochemistry
Profile of Oswald Avery
http://www.profiles.nlm.nih.gov/CC/
An interview with James Watson
http://www.accessexcellence.org/AB/CC/watson.html
An interview with Francis Crick
http://www.accessexcellence.org/AE/AEC/CC/crick.html
A copy of the classic Watson and Crick paper
http://biocrs.biomed.brown.edu/Books/Chapters/Ch 8/DH-Paper.html
Women in Science
http://www.sdsc.edu/ScienceWomen/
Barbara McClintock Memorial: Essay on transposable elements
http://www.nobel.se/essays/green/index.html
Impact of Nobel Prizes: How Nobel Prizes influence science at a major medical school.
http://www.nobel.se/essays/impact/index.html
Walter and Eliza Hall Institute: Historical essay on the underpinnings of modern immunology.
http://www.nobel.se/essays/wehi/index.html
Online Books, Quizzes, and General Biochemistry Resources
Essays on the process of scientific discovery
http://biocrs.biomed.brown.edu/Books/Essays/Essays.html
Molecular Epidemiology: Health and the Human Genome Project
http://www.pitt.edu/~super1/lecture/lec0131/001.htm
An introduction to X-Ray Crystallography
http://www-structure.llnl.gov/Xray/101index.html
Multi-talented Database Searcher
searchlight.cdlib.org/cgi-bin/searchlight
Molecular Phylogeny
evolution.genetics.washington.edu/phylip/software.html
Science Comes Alive Series: Images of biomolecules from the San Diego Supercomputer Center
http://www.sdsc.edu/ScienceAlive/sciencealive.html
Molecular biology links from Harvard University
http://mcb.harvard.edu/BioLinks.html
Discovery Channel Online
http://www.discovery.com/online.html
Biology Links: Internet resources in biology from the U.S. Geological Survey.
http://info.er.usgs.gov/network/science/biology/index.html
Beyond Bio-101: A report from the Howard Hughes Medical Institute on undergraduate biology education.
http://www.hhmi.org/BeyondBio101/
Yahoo Science: Links, animations, databases, and more.
http://dir.yahoo.com/Science/Chemistry/Biochemistry/
World Lecture Hall: A collection of biochemistry resources from a number of U.S. universities.
http://www.utexas.edu/world/lecture/bch/
Virology on the World Wide Web
http://www.tulane.edu/~dmsander/garryfavweb.html
BioChemNet: A large resource collection for biology and chemistry education.
http://schmidel.com/bionet/biotech.htm
Molecular Biology Protocols: From the Northwest Fisheries Sciences Center.
http://research.nwfsc.noaa.gov/protocols.html
Biology Hypertextbook: A Web approach to cell and molecular biology from MIT.
http://esg-www.mit.edu:8001/esgbio/7001main.html
Access Excellence: An extensive resource site for bioscience teachers and students.
http://www.accessexcellence.org/index.html
The Biology Project
http://www.biology.arizona.edu/default.html
Molecular Biology Quiz: Sequence structure and molecular biology databases.
http://www.medkem.gu.se/edu/
Molecular Biology Swiss-Quiz: An interactive site for answering questions from a database.
http://www.expasy.ch/swiss-quiz/
Biocomputing: Networking and using the Internet in an organized fashion for molecular biology.
http://merlin.mbcr.bcm.tmc.edu:8001/bcdusa/Curric/Netwkg2/ch2.html
On-Line Biology Book: A full-featured text in general biology.
http://gened.emc.maricopa.edu/bio/bio181/BIOBK/BioBookTOC.html
Biomolecular Self-Assembly: A major report on this area from the U.S. National Academy of Sciences.
http://www.nas.edu/bpa/reports/bmm/bmm.html#MembraneProteins
Fun Stuff
Gel Science
http://www.solgel.com/
Fun Science Links
www.amasci.com
Microbe Library
http://www.microbelibrary.org/
An interactive listing of Undergraduate Research Projects
http://www.firstmarket.com/fitzroy/
Weird Virology
http://www.tulane.edu/~dmsander/WeirdVirology.html
Weird Science
http://www.tulane.edu/~dmsander/WeirdScience.html
Textbook Chapter Web Links:
Chapter 1: Molecular Components of Cells
Chemistry Hypermedia Project
http://www.chem.vt.edu/chem-ed/vt-chem-ed.html
Problem sets and tutorials in molecular biology
http://www.biology.arizona.edu/cell_bio/cell_bio.html
General aspects of virus structures and life cycle
http://www.wsu.edu:8080/~hurlbert/pages/Chap11.html
Chapter 2: Water, pH, Ionic Equilibria
Molecular dynamics simulation of liquid water
http://chem-www.mps.ohio-state.edu/~lars/liquid.html
Acids and bases problem set
http://www.biology.arizona.edu/biochemistry/problem_sets/ph/ph.htm
Clinical correlates of pH levels
http://www.biology.arizona.edu/biochemistry/problem_sets/medph/medph.html
Chapter 3: Thermodynamics of Biological Systems
Biochemical electrochemistry
http://www.compusmart.ab.ca/plambeck/che/p265/p06263.htm
Stochiometry and kinetics
http://www.ae.iastate.edu/Ae573_ast475/Bioenergetics_Notes.htm
Chapter 4: Amino Acids
A variety of properties of amino acids
http://prowl.rockefeller.edu/aainfo/contents.htm
Amino acids and peptide bonds
http://www.iacr.bbsrc.ac.uk/notebook/courses/guide/aa.htm
Amino acid frequencies in particular protein chains
http://asparagin.cenargen.embrapa.br/SCORPION/
Amino Acid Repository
http://www.imb-jena.de/IMAGE_AA.html
General Amino Acid Information
http://www.eng.uci.edu/~hslee/aminoacid.html
Online quizz on amino acids
http://info.bio.cmu.edu/Courses/BiochemMols/PQuiz/PQInst.html
Chime structures of all the amino acids
http://www.clunet.edu/BioDev/omm/aa/aa.htm
Colorful photos of amino acids
http://micro.magnet.fsu.edu/micro/gallery/aminoacid/aminoacid.html
Amino acids: Structures and properties
http://www.chemie.fu-berlin.de/chemistry/bio/amino-acids.html
Chapter 5: Biological Functions and Primary Structure
Strategies for protein purification: A virtual lab
http://www.tlsu.leeds.ac.uk/courses/bioc2060/proteinlab102/proteinlab.html
Protein similarities
http://www.sdsc.edu/GatherScatter/GSsummer96/bourne.html
Proteomics Server of the Swiss Institute of Bioinformatics
http://expasy.hcuge.ch/
Strategies for protein sequencing
http://esg-www.mit.edu:8001/esgbio/lm/proteins/sequencing/strategies.html
Protomap: Classifications of protein sequences
http://www.protomap.cs.huji.ac.il/
Chapter 6: Proteins, Secondary, Tertiary, Quaternary Structure
Rapid prototyping of molecular models
http://www.npaci.edu/online/v3.8/z402.html
A database of pairwise aligned 3D structures
http://cl.sdsc.edu/ce/ache.pdf
Morphology of protein-protein interfaces
http://www.scripps.edu/pub/goodsell/interface/
Optimal path method for 3D structure similarities
http://cl.sdsc.edu/ce.html
Alpha-helix and beta-pleated sheets
http://www.bio.cmu.edu/Courses/BiochemMols/BuildBlocks/ProtG.html
Protein architecture
http://www.bio.cmu.edu/Courses/BiochemMols/ProtG/ProtGMain.htm
X-ray crystallography
http://www.imb-jena.de/www_sbx/manfred/teach/page1.html
Circular dichroism
http://osu.orst.edu/dept/biochem/varselec.html
Green fluorescent protein Chime tutorial
http://www.biochem.mcw.edu/science_ed/Pages/gfp/exercise_1/chime/index.htm
Molecular origami
http://www.tc.cornell.edu/er/sci93/dis22origami/dis22origami.html
Evolution of chaperones
http://www.uni-erlangen.de/pharmakologie/arbeit/fitforli.htm
Principles of protein structure
http://www.cryst.bbk.ac.uk/PPS2/course/index.html
Large molecule problem set
http://www.biology.arizona.edu/biochemistry/problem_sets/large_molecules/large_molecules_problems.html
Hyperactive molecules
http://www.ch.ic.ac.uk/chemical_mime.html
Hyperactive molecules: Part 2
http://www.ch.ic.ac.uk/hm_second.html
Studying protein molecules with Chime
http://cti.itc.Virginia.EDU/~cmg/Demo/molecule.html
Chapter 7: Carbohydrates
Cellobiohydrolase animations
http://www.csc.fi/lul/chem/movies/cbh1/cbh1_movies.html
Worldwide links to carbohydrates
http://www.public.iastate.edu/~pedro/carbhyd/carbhyd.html
Carbohydrate practice problems
http://www.cem.msu.edu/~cem252/sp97/ch18/ch18practice.html
Carbohydrates in PDB format
http://www.molvent.com/download/sugars2.html
Sugars in 3D
http://www.nyu.edu/pages/mathmol/library/sugars/
Protein glycosylation
http://www.uni-mainz.de/~frosc000/STRU2.html
Chapter 8: Lipids
Lipids in 3D
http://www.nyu.edu/pages/mathmol/library/lipids/
Chapter 9: Membranes and Cell Surfaces
An essay on mitochondrial DNA
http://biocrs.biomed.brown.edu/Books/Essays/MitochondrialDNA.html
Lipid bilayer membranes
http://www.umass.edu/microbio/rasmol/bilayers.htm
Membrane 3D model
http://www.bio.cmu.edu/Courses/BiochemMols/BuildBlocks/Membrane.html
Rasmol scripts for lipids and membranes
http://www.umass.edu/microbio/rasmol/scrip_mz.htm#bil
Phospholipids in cell membranes
http://www.cbc.umn.edu/~mwd/cell_www/chapter2/membrane.html
Chapter 10: Membrane Transport
Algal Toxins
http://www.redtide.whoi.edu/hab/default.html
Shellfish Toxins
http://grimwade.biochem.unimelb.edu.au/cone/index1.html
Psychoactive drugs
PDSP.cwru.edu/PDSP.asp
How E.coli binds to Intestinal cells
http://www.hhmi.org/news/finlay2.html
Gap junctions
http://www.sdsc.edu/journals/jmb/1998/perkins/
Ion channel
http://scv.bu.edu/SCV/vizgal/ion/ion.html
Membrane transport mechanisms
http://esg-www.mit.edu:8001/esgbio/cb/membranes/transport.html
Membrane transport book
http://www.oup-usa.org/docs/0195207734.html
Membrane transport graphics
http://www.wellesley.edu/Chemistry/chem227/lipids/transport.htm
Chapter 11: Nucleotides and Nucleic Acids
An introduction to X-Ray Crystallography
http://www-structure.llnl.gov/Xray/101index.html
Nucleotides in 3D
http://www.nyu.edu/pages/mathmol/library/dna/
More nucleotides in 3D
http://info.bio.cmu.edu/Courses/BiochemMols/BuildBlocks/Nucs.html
Nucleotide structures
http://esg-www.mit.edu:8001/esgbio/lm/nucleicacids/nucleicacids.html
Chapter 12: Structure of Nucleic Acids
A superb animated primer on DNA, genes and heredity
http://vector.cshl.org/dnaftb/
Profile of Oswald Avery
http://www.profiles.nlm.nih.gov/CC/
An interview with James Watson
http://www.accessexcellence.org/AB/CC/watson.html
An interview with Francis Crick
http://www.accessexcellence.org/AE/AEC/CC/crick.html
A copy of the classic Watson and Crick paper
http://biocrs.biomed.brown.edu/Books/Chapters/Ch 8/DH-Paper.html
Ooops! Left and Right Handed DNA
http://www.lecb.ncifcrf.gov/~toms/LeftHanded.DNA.html
DNA Chime tutorial
http://www.mc.maricopa.edu/users/ayres/org_molecules/chime1.htm
Chapter 13: Recombinant DNA
Cloning: Dolly Company Used Woman’s DNA
http://news.bbc.co.uk/hi/english/uk/scotland/newsid_816000/816791.stm
Goat/Sheep Hybrid
http://news.bbc.co.uk/hi/english/sci/tech/newsid_813000/813466.stm
Pig Clone to Human Transplant
http://news.bbc.co.uk/hi/english/sci/tech/newsid_677000/677637.stm
The human genome and eugenics
http://www.pbs.org/wnet/innovation/show1/html/2sb-eugenics.html
Recombinant DNA technology problem set
http://www.biology.arizona.edu/molecular_bio/problem_sets/Recombinant_DNA_Technology/recombinant_dna.html
NIH Office of Recombinant DNA Activities
http://www.nih.gov/od/oba/
Protocols for Recombinant DNA
http://www.genome.ou.edu/protocol_book/protocol_index.html
Historical events in recombinant DNA
http://www.ndsu.nodak.edu/instruct/mcclean/plsc431/debate/debate3.htm
A bacterial genetics and recombinant DNA quiz
http://biog-101-104.bio.cornell.edu/BioG101_104/tutorials/recomb_DNA.html
Chapter 14: Enzyme Kinetics
Enzymes problem set
http://www.biology.arizona.edu/biochemistry/problem_sets/energy_enzymes_catalysis/energy_enzymes_catalysis.html
Enzyme kinetics book
http://ir2lcb.cnrs-mrs.fr/~athel/fek.htm
Model of enzyme kinetics
http://dept.physics.upenn.edu/courses/gladney/mathphys/subsection4_1_6.html
Lab tutorials for enzyme kinetics
http://wunmr.wustl.edu/EduDev/LabTutorials/
Enzyme inhibition
http://www.bio.mtu.edu/campbell/401lec13p1.html
Chapter 15: Enzyme Specificity and Regulation
Hemoglobin
http://www.bio.cmu.edu/Courses/BiochemMols/BuildBlocks/Hb.html
Enzyme handbook
http://www.springer-ny.com/catalog/np/jan96np/DATA/3-540-60295-X.html
How enzymes work
http://www.wsu.edu/~hurlbert/pages/Chap7.html
Enzyme labs using Jello
http://www.woodrow.org/teachers/bi/1991/enzymes.html
Enzyme specificity
http://tidepool.st.usm.edu/crswr/enzspecificity.html
Chapter 16: Mechanisms of Enzyme Action
HIV and key enzymes
http://www.sdsc.edu/GatherScatter/GSsummer96/larsen.html
Lysozyme
http://www.bio.cmu.edu/Courses/BiochemMols/BuildBlocks/lysozyme.html
Cystatin B
http://bioinformatics.weizmann.ac.il/hotmolecbase/entries/cysb.htm
The Body: AIDS and Information Resource
http://www.thebody.com/index.shtml
Chapter 17: Molecular Motors
Cell movement
http://yakko.bme.virginia.edu/cm/cell_mov.html
Actin molecular dynamics
http://yakko.bme.virginia.edu/cm/test.html
Molecular motors book
http://www.portlandpress.co.uk/books/isbn/1855781034.htm
Kinesin
http://www.blocks.fhcrc.org/%7Ekinesin/
Molecular motors behavior
http://perso.curie.fr/Frank.Julicher/mmfitc/
Chapter 18: Metabolism: An Overview
Metabolic pathways
http://www.gwu.edu/~mpb/
Interactive metabolic reconstruction
http://wit.mcs.anl.gov/WIT2/
Metabolism problem set
http://www.biology.arizona.edu/biochemistry/problem_sets/metabolism/metabolism.html
Fat and carbohydrate metabolism in liver
http://www.bmb.leeds.ac.uk/illingworth/medics1/liver.htm#GPAT
Chapter 19: Glycolysis
Lactose Intolerance
http://members.aol.com/docdarren/med/lactose.html
Glycolysis in 3D
http://www.gwu.edu/~mpb/glycolysis3d.htm
Introduction to glycolysis
http://www.jonmaber.demon.co.uk/glyintro/
Glycolysis and medical biochemistry
http://web.indstate.edu/thcme/mwking/glycolysis.html
Overview of glycolysis
http://biotech.icmb.utexas.edu/glycolysis/glycohome.html
Glycolysis and the Kreb's Cycle
http://esg-www.mit.edu:8001/esgbio/glycolysis/dir.html
Chapter 20: The Tricarboxylic Acid Cycle
The TCA cycle in 3D
http://www.gwu.edu/~mpb/citric3d.htm
Overview of the TCA cycle
http://www.accessexcellence.org/AB/GG/citric_Cycle_a.html
2D and 3D representations of the TCA cycle
http://www.gwu.edu/~mpb/citric.htm
TCA cycle inputs, reactions, and control
http://www.chem.wsu.edu/Chem102/102-CitrAcCycOxPhos.html
Graphics of the TCA cycle
http://www.usm.maine.edu/~rhodes/GraphicsGallery/Views09/TCA.html
Chapter 21: Electron Transport and Oxidative Phosphorylation
Oxidative phosphorylation overview
http://www.bmb.leeds.ac.uk/illingworth/oxphos/Index.htm
Enzymes and pathway of oxidative phosphorylation
http://www.gwu.edu/~mpb/oxidativephos.htm
Chapter 22: Photosynthesis
Photosynthesis components in 3D
http://www.nyu.edu/pages/mathmol/library/photo/
Photosynthesis problem set
http://www.biology.arizona.edu/biochemistry/problem_sets/photosynthesis_1/photosynthesis_1.html
Photosynthesis problem set 2
http://www.biology.arizona.edu/biochemistry/problem_sets/photosynthesis_2/photosynthesis_2.html
Glucoamylase
http://www.public.iastate.edu/~pedro/glase/glase.html
Chapter 23: Gluconeogenesis, Glycogen Metabolism,
Pentose Phosphate Pathway
Pentose phosphate pathway in 3D
http://www.gwu.edu/~mpb/pentphos3d.htm
Glycogen synthesis and galactose pathway
http://www.gwu.edu/~mpb/polysacc3d.htm
Glucose-6-phosphate dehydrogenase deficiency
http://rialto.com/g6pd/
Chapter 24: Fatty Acid Catabolism
Activation and transport of fatty acids
http://www.gwu.edu/~mpb/fa-activation3d.htm
Beta oxidation of fatty acids
http://www.gwu.edu/~mpb/betaox-odd3d.htm
Polyunsaturated fatty acid oxidation
http://www.gwu.edu/~mpb/polyunsaturated3d.htm
Fatty acids tutorial
http://www-medlib.med.utah.edu/NetBiochem/FattyAcids/index.html
Chapter 25: Lipid Biosynthesis
Mycobacterial lipids
http://bioscience.org/1997/v2/d/barrow/d387-400.htm
Cholesterol metabolism
http://swnt240.swmed.edu/gradschool/webrib/goldstei.htm
Chapter 26: Nitrogen Acquisition and Amino Acid Metabolism
Urea cycle
http://www.gwu.edu/~mpb/urea3d.htm
Amino acid metabolism
http://web.indstate.edu/thcme/mwking/amino-acid-metabolism.html
Amino acids and functions
http://microscopy.fsu.edu/aminoacids/
Amino acid disorders
http://dem0nmac.mgh.harvard.edu/research/shih.html
Chapter 27: Synthesis and Degradation of Nucleotides
Nucleotide metabolism
http://web.indstate.edu/thcme/mwking/nucleotide-metabolism.html
Nucleotide enzymes
http://www.mrc-lmb.cam.ac.uk/rlw/text/nucleotideenzymes.html
Nucleotides and muscle metabolism
http://www.bmb.leeds.ac.uk/illingworth/muscle/#nucleotides
Chapter 28: Metabolic Integration
Inherited disorders of energy metabolism
http://www.cwru.edu/med/CIDEM/cidem.htm
Extracting energy from glucose
http://muscle.ucsd.edu/musintro/Glucose.html
Inborn errors of metabolism
http://web.indstate.edu/thcme/mwking/inborn.html
Metabolism problem set
http://www.biology.arizona.edu/biochemistry/problem_sets/metabolism/metabolism.html
Chapter 29: DNA Genetic Information, Recombination, and Mutation
The RNA World
www.ibc.wustl.edu/~zuker/rna
RuvA and Holliday junctions
http://www.sdsc.edu/journals/mbb/
Therapeutic immunology
http://www.molbiol.ox.ac.uk/pathology/tig/tacproj.html
Hershey-Chase experiment
http://www.accessexcellence.org/AB/GG/hershey.html
Nucleic acids problem set
http://www.biology.arizona.edu/molecular_bio/problem_sets/nucleic_acids/nucleic_acids_1.html
Animated genetics primer
http://vector.cshl.org/
Chapter 30: DNA Replication and Repair
Macromolecular museum
http://www.clunet.edu/BioDev/omm/gallery.htm
DNA replication
http://esg-www.mit.edu:8001/esgbio/dogma/repl.html
Eukaryotic chromosome structure
http://www.ndsu.nodak.edu/instruct/mcclean/plsc431/eukarychrom/eukaryo2.htm
Site listing for DNA replication
http://dir.niehs.nih.gov/dirlmg/repl.html
DNA repair genes
http://www.cancergenetics.org/dnafix.htm
Chapter 31: Transcription and the Regulation of Gene Expression
CAP Structure
http://www.bio.cmu.edu/Courses/BiochemMols/BuildBlocks/CAP.html
Transcription overview
http://esg-www.mit.edu:8001/esgbio/dogma/trx.html
From DNA to RNA
http://www.res.bbsrc.ac.uk/molbio/guide/trans.html
DNA transcription and RNA structure
http://www.fiu.edu/~biology/bch3033/lectures/krd/DNA3.html
Chapter 32: The Genetic Code
Genetic code — interactive
http://www.medkem.gu.se/edu/gencode.html
The genetic code — universal
http://psyche.uthct.edu/shaun/SBlack/geneticd.html
Invention of the genetic code
http://www.amsci.org/amsci/issues/Comsci98/compsci9801.html
The code for various organisms
http://prowl.rockefeller.edu/aainfo/gencode.html
Mitochondrial genetic code
http://www.gen.emory.edu/MITOMAP/human_mito_code.html
Discovery of the genetic code — Marshall Nirenberg
http://www.calstatela.edu/faculty/nthomas/nirenber.htm
Chapter 33: Protein Synthesis and Degradation
DNA, RNA, and protein synthesis
http://photoscience.la.asu.edu/photosyn/courses/BIO_343/lecture/DNA-RNA.html
Protein synthesis: A review
http://gened.emc.maricopa.edu/Bio/BIO181/BIOBK/BioBookPROTSYn.html
Protein degradation
http://www.biochem.emory.edu/protdeg/home.html
Protein degradation and the endoplasmic reticulum
http://www.mdc-berlin.de/research/s86-87.htm
Chapter 34: The Reception and Transmission of Extracellular Information
Ion Channels
http://pb010.anes.ucla.edu/
Cellular Processes in Java
http://www.nrcam.uchc.edu/
Everything you want to know about cytokines
www.copewithcytokines.de
Hormone mimics
www.tmc.tulane.edu/ecme/echome
Asthma and Eosinophil Receptors
http://www.pslgroup.com/dg/9b2e.htm
Nicotinic acetylcholine receptor
http://www.sdsc.edu/GatherScatter/GSspring96/back_cover.html
Protein kinase database
http://cl.sdsc.edu/ce/align_db.html
Protein kinases in disease
http://www.sdsc.edu/Kinases/pkr/pk_medicine.html
Protein kinase database
http://www.sdsc.edu/kinases/pkr/pk_education.html#walk
Serotonin receptor
http://www.tc.cornell.edu/er/sci93/dis34function/dis34function.html
P53 and DNA in VRML
http://www.pc.chemie.tu-darmstadt.de/research/vrml/p53dna/nomut/wall.wrl
Molecular Graphics
| One of the things that computers have been able to do in biochemistry and molecular biology, particularly in recent years with the availability of affordable, powerful desktop systems, is to allow for the visualization of biomolecules and their interactions in ways that truly enhance our appreciation and understanding of biological systems. An important part of these capabilities are the software programs and databases that suport these activities. We have provided below a listing of some tof the web links that researchers use in their everyday work.
We hope that you will find these links both enjoyable and useful to explore. |
Molecular Models Online
http://www.webmolecules.com/index.shtml
Molecular visualization tools and sites
http://www.indiana.edu:80/~cheminfo/mvts.html
RCSB: The home site for all PDB files.
http://www.rcsb.org/pdb/
A comprehensive database of molecular structures
http://www.biomednet.com/db/msd
A biocomputing hypertext coursebook
http://merlin.mbcr.bcm.tmc.edu:8001/bcd/Curric/welcome.html
A molecular graphics art show
http://www.scripps.edu/pub/goodsell/mgs_art/mgs_art.html
A more recent molecular graphics art show
http://www.scripps.edu/pub/goodsell/mgs_art/mgs_art2/index.html
The Protein Data Bank through Microsoft Windows
http://www.sdsc.edu/pb/wpdb/wpdb.htm
Software for biological data representation
http://www.sdsc.edu/pb/Software.html
Home page for a molecular graphics laboratory
http://www.scripps.edu/pub/olson-web/
Hierarchical classification of proteins
http://www.protomap.cs.huji.ac.il/
Biocomputing and molecular modeling
http://www-bio.unizh.ch/
Computational molecular biology at NIH
http://webasaurus.dcrt.nih.gov/molbio/
Online resources for molecular biology
http://webasaurus.dcrt.nih.gov/molbio/servers.html
A collection of biomolecular research tools
http://www.public.iastate.edu/~pedro/research_tools.html
Molecular models for biochemistry
http://info.bio.cmu.edu/Courses/BiochemMols/BCMolecules.html
Image library of biological macromolecules
http://www.imb-jena.de/IMAGE.html
The "Ribbons" software home page
http://www.cmc.uab.edu/ribbons/
PovChem program for molecular graphics
http://grserv.med.jhmi.edu/~paul/Manual.html
The MolMol program for molecular visualization
http://www.mol.biol.ethz.ch/wuthrich/software/molmol/
Molecular biology database compendium
http://www.tulane.edu/~dmsander/biotechniquessites.html
Some biochemistry molecular models
http://moby.ucdavis.edu/HRM/Biochemistry/molecules.htm
A molecular library
http://c4.cabrillo.cc.ca.us/projects/library/
Animated and still biochemistry graphics
http://www-medlib.med.utah.edu/NetBiochem/graphlis.htm
Online macromolecular museum
http://www.clunet.edu/BioDev/omm/gallery.htm
An art gallery of molecular models
http://www2.kenyon.edu/depts/biology/eward/gallery/galleryintro.html
Entrez: Data sets for biochemistry and molecular biology.
http://www3.ncbi.nlm.nih.gov/Entrez/index.html
MolGraph: Molecular modeling program.
http://chemb16.leidenuniv.nl/~armand/
Swiss PDB viewer
http://expasy.expasy.ch/spdbv/
NIH Center for Molecular Modeling
http://cmm.info.nih.gov/modeling/
Virtual reality and biochemistry
http://www.tc.cornell.edu:80/~richard/
Biomolecular Visualization Center
http://amanda.uams.edu/index_text.html
VRML file creator for chemical structures
http://www2.ccc.uni-erlangen.de/services/vrmlcreator/
Rendering techniques for molecular models
http://scsg9.unige.ch/fln/eng/toc.html
The Journal of Molecular Modeling
http://link.springer.de/link/service/journals/00894/index.htm
Using NMR for biomolecular structures
http://www.ocms.ox.ac.uk/idc/structures/
Biomolecular structure and modeling in the United Kingdom
http://www.biochem.ucl.ac.uk/bsm/
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