Related Resources

The links below are online references for additional resources in the field of molecular structure of biological materials. These range from professional societies that maintain links to areas that any reader can explore in this field. Many of the linked sites provide resources for further study, as well as downloadable resources that can be used for classroom teaching.

MIT Society for Biomaterials - Student Resources

CHARMM is a program for macromolecular dynamics and mechanics.

CHARMM c28a2 Documentation

CHARMM Example Input Files

CHARMM Tutori@l - This tutorial provides a theoretical introduction to molecular dynamics simulations and practical examples using the CHARMM program.

Brooks Research Group at University of Michigan is focused on the application of statistical mechanics, quantum chemistry and computational methods to chemically and physically oriented problems in biology.

University of Illinois - Theoretical and Computational Biophysics Group - VMD is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting.

University of Illinois - Theoretical Biophysics Group - VMD User’s Guide describes how to run and use the molecular visualization and analysis program.

Online Databases

Biotech Life Sciences Dictionary

Martindale’s Calculators On-Line Center: Science A-Z

National Center for Biotechnology Information (NCBI) creates public databases, conducts research in computational biology, develops software tools for analyzing genome data, and disseminates biomedical information.

PubMed Central is the U.S. National Library of Medicine’s digital archive of life sciences journal literature.

Medline is the National Library of Medicine’s bibliographic database covering the fields of medicine, nursing, dentistry, veterinary medicine, the health care system, and the preclinical sciences.

Protein Data Bank is a worldwide repository for the processing and distribution of 3-D biological macromolecular structure data.

The Restriction Enzyme Database from NEB.

Yale University Center for Structural Biology houses X-ray equipment and computational resources for macromolecular structure determination.

Online Journals

American Society for Microbiology Journals - The Society’s 11 journals cover the spectrum of microbiology, from molecular and cellular biology to biomedical research and technology.

Biochemistry publishes the results of original research that contribute significantly to the understanding of the mechanism of biological phenomena in terms of molecular structure and/or function.

Biophysical Journal publishes research of biophysicists developing new methods for addressing the mechanisms of biological processes at every level and across many fields.

Cell publishes reports of novel results in any area of experimental biology.

Chemical & Engineering News is a weekly magazine published by the American Chemical Society.

Chronicle of Higher Education is a news source for college and university faculty members and administrators.

EMBO Journal - The European Molecular Biology Organization promotes biosciences in Europe.

FASEB Journal - Publication of the Federation of American Societies for Experimental Biology.

FEBS Letters

Genetics is a periodical record of investigations bearing on heredity and variation.

Journal of Bacteriology advances and disseminates fundamental knowledge of bacteria and other microorganisms.

Journal of Biological Chemistry

Journal of Cell Biology

Journal of Molecular Biology

Molecular Biology of the Cell

Molecular Cell Biology @


The New York Times

PNAS - Proceedings of the National Academy of Sciences.

PROTEINS: Structure, Function and Genetics

Protein Science. A publication of the Protein Society.

Science Magazine - A publication of the American Association for the Advancement of Science.

Science News Online


Cold Spring Harbor Laboratory Meetings and Courses - The flagship of this program is the annual Symposium on Quantitative Biology.


The DNA Microarray Web site - Basics on DNA microarray technology, and a list of academic and industrial links.

LabVelocity - Products and services for scientists.

MIT Biopolymers Laboratory is a shared instrumentation service laboratory, funded by the Howard Hughes Medical Institute and the MIT Center for Cancer Research.

Societies and Foundations

Biophysical Society encourages development and dissemination of knowledge in biophysics.

Federation of American Societies for Experimental Biology (FASEB). The mission of FASEB is to enhance the ability of biomedical and life scientists to improve, through their research, the health, well-being, and productivity of all people.

Protein Society’s mission is to promote international interactions among investigators in order to explore all aspects of protein molecules.

American Society for Cell Biology (ASCB) provides for the exchange of scientific knowledge in the area of cell biology.

American Society for Microbiology (ASM) is the oldest and largest single life science membership organization in the world.

Cold Spring Harbor Laboratory has research programs focusing on cancer, neurobiology, plant genetics, genomics and bioinformatics, and a broad educational mission.

Course Info

As Taught In
Fall 2005
Learning Resource Types
Lecture Notes
Presentation Assignments with Examples
Written Assignments with Examples