You can now see the Crystal Contacts to the asymmetric unit, and the Unit Cell, each with one click (Tools tab). Crystal contacts may affect conformation, temperature (B factor), and stabilize protruding moieties. Examples of each are given in the Help panel.
Slab has been enhanced with a checkbox that shows the rear of the molecule (so only the front is cut away). Now you can see the inside of a cavity or channel. Example PDB codes are linked to the Slab Help panel.
In the Molecule Information Tab, hydrogen atoms are counted, and an estimate is made of whether all hydrogens are present, or only hydrogens on polar atoms.
Secondary structure now reports the percentage of amino acids in helices and strands.
Atoms with alternate locations, when they occur, are now reported in the Molecule Information Tab, with a tool to find them. Examples: 3hyd, 1bsz.
The Hide and Find tools are now available in all four tabs (at the bottom). Thanks to Frieda Reichsman for this suggestion.
A more complete list is here:
http://firstglance.jmol.org/versions.htm
If you have suggestions for improvements, please do let me know!
There are undoubtedly bugs. Please report anything that looks dubious, being sure to include the PDB code you were using.
Eric
P.S. I have not undertaken a JSmol version yet.
Eric Martz, Professor Emeritus, Dept Microbiology
U Mass, Amherst -- http://Martz.MolviZ.Org
Top Five 3D MolVis Technologies http://Top5.MolviZ.Org
FirstGlance, used by Nature - http://firstglance.jmol.org
3D Wiki with Scene-Authoring Tools http://Proteopedia.Org
Biochem 3D Education Resources http://MolviZ.org
ConSurf - Find Conserved Patches in Proteins: http://consurf.tau.ac.il
Atlas of Macromolecules: http://atlas.molviz.org
Interactive Molecules in Public Spaces http://MolecularPlayground.Org
Workshops: http://workshops.molviz.org
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