FirstGlance in Jmol
enables you to explore any molecule using menus
and buttons, without learning any commands, and
with nothing to install (Java is optional).
It works immediately with all popular browsers and computer types
including recent iPads and smart phones, and is used for the 3D View
links in the journal
FirstGlance in Jmol offers numerous one-click preset views,
makes it easy to hide portions of the molecule,
find residues by sequence or name,
show all protein disulfide bonds, salt bridges and cation-pi orbital
interactions. Its Contacts.. dialog
shows non-covalent bonds to any
target moiety that you select by clicking, dividing them into seven
categories that you can hide or display with checkboxes.
See evolutionary conservation!
Introduction to Evolutionary Conservation.
ConSurf makes it easy for you to identify
functional regions of proteins. Each amino acid is colored
by evolutionary conservation, thereby revealing conserved or highly
Results may be displayed in
FirstGlance in Jmol or other viewers.
Given a 3D model or
tool finds related protein sequences,
performs multiple sequence alignments,
constructs a phylogenetic tree,
and assigns a conservation level to each amino acid,
Optionally, you can select the sequences and upload your own
multiple sequence alignment, which will be used by ConSurf's
state-of-the-art algorithms, all of which are published in peer-reviewed journals.
Toobers in Science Education: Model Your Favorite
are inexpensive, easy to bend, foam-covered rods that hold the shapes
you give them, over and over again!
They are very useful in illustrating macromolecular structure concepts.
Great for all levels of science from K-12 to undergraduate. We
feature several examples and also short movies to illustrate their use.
Models of Molecules
Colorful, accurate models featuring embedded magnets
to simulate hydrogen bonding, at varying prices—kits for water,
for assembling DNA from nucleotides (image at right), and other molecules. Available for purchase from
several available to local teachers through the Physical
Model Lending Library (Western MA USA only). For information
on how high-precision models are made, see the
Prototyping section of
of Visualization of Biological Macromolecules.
Model Lending Library (Western MA only)
than 10 different models are available for short-term loan (about 10 days)
to teachers in Western Massachusetts, including:
- Anthrax protective antigen heptamer
- Antibody bound to lysozyme antigen
- DNA double helix
- Green fluorescent protein
- The nucleosome
- Transfer RNA
- Water with NaCl, EtOH, Ethane
To reserve models, and for more information, see the
Library for Physical Molecular Models for Western Massachusetts, USA.
Make Publication-Quality Molecular Images and
Rotating Powerpoint Slides Easily!
FirstGlance in Jmol is the easiest way to make high quality images
and presentation-ready animations.
However, FirstGlance does not support customization
of colors and rendering in the molecular view.
Also the images generated by Jmol in FirstGlance are not quite as high quality as those generated
Polyview-3D generates its images and animations at truly publication quality using PyMOL.
Furthermore, it supports full customization of the molecular view.
Giant model of the monomer of nylon from
(Photo used with permission.)
by scientists, artists, and artist-scientists are highlighted in this collection.
Julian Voss-Andreae's Alpha Helix for Linus Pauling
(photo used with permission). The 10-foot (3 m) sculpture was created to honor the memory of
Linus Pauling, who discovered the alpha helix in 1951.
The sculpture is located in front of Linus Pauling's boyhood home in Portland, Oregon.
of Visualization of Biological Macromolecules
of Visualization of Biological Macromolecules answers questions
such as, Where did MDL Chime come from? What about Fred's Folly and Byron's
Bender? See early computer images, physical models including the latest
by computer-driven laser-powered rapid-prototype engineering, and the
latest molecular sculpture.