Biomodel: complements for learning biochemistry and molecular biology (front page image)

contact the author by e-mail Contact the author
Personal home page
Main home page (in Spanish)

Biomodel.uah.es
Material in English:

Biomodel-1: The structure of proteins and nucleic acids

enter Biomodel-1
Enter
A tutorial for the structure of proteins (from amino acids to quaternary structures), nucleic acids and complexes among them. Uses 3D interactive molecular models withJSmol

Biomodel-2: Lipid bilayers and the gramicidin channel

enter Biomodel-2
Enter
A presentation showing cholesterol, phosphatidyl choline, and then illustrating the assembly of a hydrated crystalline bilayer model. Then the gramicidin channel is shown in a hydrated bilayer of phosphatidyl ethanolamine. Uses 3D interactive molecular models withJSmol

Biomodel-3: Structural biochemistry for secondary school

enter Biomodel-3
Enter
A self-guided tutorial, complementary to textbooks and lectures, centered on the display of 3D interactive molecular models withJSmol

Biomodel-4: DNA structure tutorial

enter Biomodel-4
Enter
A 4-step tutorial of the double helix featuring molecular models withJSmol Available in English, Spanish, German, French, Portuguese, Romanian, Italian, Polish, Turkish, Chinese, Greek, Thai, Hebrew, Swedish and Indonesian.

Amino acids structure and quiz (for smartphones)

enter
Enter
Designed to fit and be used in a mobile phone (touch, small screen). 3D interactive structures of the 22 amino acids and nucleobases, both as a presentation and as a quiz. Available in English, Spanish, French, Portuguese, Italian and Turkish.

Water

enter
Enter
Hydrogen bonds and the structure of water: structure of liquid water and ice, simulation of 10 water molecules forming a drop, all withJSmol

Virtual labs

enter
Enter
The Cybertory allows to process DNA samples through restriction enzyme digestion and gel electrophoresis, or multiplex STR PCR and electrophoresis. Additionally, there is a range of simulations and virtual experiments with chromatography, electrophoresis and spectrophotometry.

Periodic table

enter
Enter
with atomic, ionic and van der Waals radii, using JSmol

Stereoisomerism in biomolecules

enter
Enter
A collection of exercises for practicing the recognition of structure and stereoisomerism in sugars and amino acids. (Uses JSmol)

Enzymology

enter
Enter
Enzyme kinetics: simulations; graphical plots; fitting experimental data to Michaelis & Menten equation using nonlinear regression.

Immunology

enter
Enter
HIV-1 gp120 envelope glycoprotein complexed with CD4 antigen and an antibody.
(UsingJSmol; a port of the original Chime version by Richard Hunt)

Do-It-Yourself Molecules

enter
Enter
Draw your molecule of choice and get easily a 3D interactive model.

Articles

enter
Enter
A series of articles about education in Biochemistry in the University, published in the Journal of the Spanish Society of Biochemistry and Molecular Biology:
• Molecules for the masses
• Information behind the scenes
• Mine, theirs... ours?
• The evolving library
• More movies, please
• Proteopedia: life in 3D, and teaching too
• Clickers in the classroom
• 21st century teachers for our 21st century students

Jmol development

enter
Enter
A collection of contributions to documentation, tests, demo pages.

Published in Dec.2007:

more info A handbook for learning how to use Jmol in teaching, study and research, and how to develop your own tutorials with it.
Click on the image to get more information