WEB ANIMATIONS AND INFORMATION

Need Shockwave Flash Media Player to view PRATT AND CORNELY:  Essential Biochemistry animations. 

Click here to download. 

Cell Structure

http://www.sci.sdsu.edu/TFrey/MitoMovie.htm  (Mitochondria)

http://www.sci.sdsu.edu/class/bio590/movies/cell_motility1.html (Cell Motility)

http://www.bioanim.com/CellTissueHumanBody6/index.html (Cell Structure Overview)

Chirality

http://cwx.prenhall.com/petrucci/medialib/media_portfolio/text_images/083_Chirality.MOV   

LExapro antidepressant animation

http://www.lexapro.com/about_lexapro/how_works.aspx

Try out this Atari game to help you learn the amino acids:

http://www.wiley.com/legacy/college/boyer/0470003790/animations/acideroids/acideroids.htm

Transient hydrogen bonding of water

http://www.stolaf.edu/people/giannini/flashanimat/water/water.swf

Buffers:  Weak Acids and water

http://www.stolaf.edu/people/giannini/flashanimat/water/weakacid.swf

http://www.chembio.uoguelph.ca/educmat/chm19104/chemtoons/chemtoons.htm

http://www.mhhe.com/physsci/chemistry/essentialchemistry/flash/buffer12.swf
 

Amino acids, Peptides, Primary & Secondary Structure, and Chirality:

http://cwx.prenhall.com/petrucci/medialib/media_portfolio/text_images/086_ProteinsAmino.MOV

CHIME Models of Hemoglobin and Sickle Hemoglobin

http://www.umass.edu/microbio/chime/hemoglob/index.htm 

Electron microscopy picture of Fibrils: 

Click on sickle cell hemoglobin on left

http://gingi.uchicago.edu/ 

Secondary Structural Elements

Right-Handed Alpha Helix

http://www.cem.msu.edu/~parrill/movies/right.mov

If you orient your right thumb along the long axis of a right-handed alpha helix, your fingers should wrap around your thumb in the same manner as the helix does from the base of your thumb to your fingernail.  Try to locate the intermolecular attractions which stabilize this structure.

Anti-Parallel Beta Sheet

 http://www.cem.msu.edu/~parrill/movies/sheet.mov

A beta-sheet consists of chains going in either the opposite direction (anti-parallel) or the same direction (parallel) which form hydrogen bonds between the chains.

 

Conversion of Beta Sheet from anti-parallel to parallel

http://www.cem.msu.edu/~parrill/movies/parallel.mov

This movie converts a small segment of the anti-parallel beta sheet from the previous movie into a parallel beta sheet. Try to see if you can identify a difference in the intermolecular attractions which might make the anti-parallel beta sheet more common in biological systems.


 

Protein Organization:  Primary to Quaternary Structure

http://www.stolaf.edu/people/giannini/flashanimat/proteins/protein structure.swf
 

http://www.learner.org/channel/courses/biology/archive/animations/hires/a_proteo1_h.html

 

Motif examples:

http://www.biochem.arizona.edu/classes/bioc462/462a/NOTES/Protein_Structure/motif_txt.htm

o       Helix – loop – helix

§         Called the E-F hand

§         Calcium binding motif

§         Bound to three Asp side chains

                   http://bmbiris.bmb.uga.edu/8010/moremen/weblinks/efhand/efhand.html

 

Protein Folding Interactive Animation:

http://www.wiley.com/legacy/college/boyer/0470003790/animations/animations.htm

 

Protein Techniques:

http://www.wiley.com/college/fob/anim/index.html

 

Gel Filtration Chromatography:


http://www6.gelifesciences.com/aptrix/upp00919.nsf/4a0f132842ea4d354a25685d0011fa04/50c849d0d5b16ba0c1256e92003e865b/$FILE/GE_Gel Filtration.swf
 


Ion-Exchange Chromatography:


http://www6.gelifesciences.com/aptrix/upp00919.nsf/4a0f132842ea4d354a25685d0011fa04/4a555d526b88731ac1256e92003e865c/$FILE/GE_Ion%20Exchange.swf
 


Affinity Chromatography:


http://www6.gelifesciences.com/aptrix/upp00919.nsf/4a0f132842ea4d354a25685d0011fa04/ad018c9e293f99bec1256e92003e865a/$FILE/GE_Affinity.swf

 

SDS-PAGE:


http://bcs.whfreeman.com/biochem5/cat_040/ch04/ch04xd02.htm
 

 

Enzyme Action:

 

Binding Models:

Interactive Animation:  Enzyme Specificity and Binding Models

http://www.boyerbiochem.com

 

Enzyme Kinetics:

 Enzyme Kinetics Tutorial from Pratt and Cornely Essential Biochemistry

 Enzyme Inhibition Tutorial from Pratt and Cornely Essential Biochemistry

 Hexokinase Conformational Change upon Glucose Binding

 More animations:

http://www.wiley.com/college/fob/anim/#chap3

Chapter 12

  • Fig. 12-2 -- The Progress Curves for a Simple Enzyme-catalyzed Reaction

  • Fig. 12-3 -- A Plot of Initial Velocity versus Substrate Concentration for a Simple                       Enzymatic Reaction

  • Fig. 12-4 -- A Double-reciprocal (Lineweaver-Burk) Plot

  • Fig. 12-7 -- A Lineweaver-Burk Plot for Competitive Inhibition

  • Fig. 12-8 -- A Lineweaver-Burk Plot for Uncompetitive Inhibition

 

Carbohydrates:

 

Lipids and Membranes:

 

 

Membrane Transport:

           - Look at animations of Diffusion, Uniport, Antiport, Symport and ATPase

 

CELLULAR METABOLISM

http://www.biocarta.com/pathfiles/h_glycolysisPathway.asp

 

  • Fig. 19-5 -- A Model for Plasma Triacylglycerol and Cholesterol Transport in Humans

  • Fig. 19-9 -- The Oxidation Pathway of Fatty Acyl-CoA
     
  • Fig. 19-19 -- A Comparison of Fatty Acid Oxidation and Fatty Acid Biosynthesis
     
  • Fig. 19-22 -- The Reaction Sequence for the Biosynthesis of Fatty Acids
  • Fig. 19-37 -- LDL Receptor-mediated Endocytosis in Mammalian Cells
     
  • LIPID ANIMATIONS from PRATT AND CORNELY:  Essential Biochemistry

                 Lipoproteins

                 Fatty Acid Metabolism