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The following bioinformatics resources use FirstGlance in Jmol
to display specific molecules. Most simply link
to http://firstglance.jmol.org, thereby avoiding the need to install
FirstGlance on their own servers. Those designated
Mirror Sites
have installed FirstGlance
on their own servers.
Journals
- Molecular
Biosystems, a journal from the
Royal Society of Chemistry (London, UK).
Founded in 2005, its focus is
"on the interface between chemistry and the -omic sciences and systems biology".
- Nature Structural and Molecular
Biology, a
monthly journal with editorial headquarters in New York (NY, USA),
reporting
newly solved macromolecular structures.
(According to the
Top 100 Journals Reporting Macromolecular Structures, it
ranks sixth in published quantity of entries in the Protein Data Bank.
FirstGlance in Jmol debuted in the February, 2006 issue accompanied by
We're living in a 3D world.
)
Structural Bioinformatics Servers
- ConSurf Server from
Tel-Aviv University (Israel). Colors 3D protein structures by evolutionary
conservation, facilitating the identification of functional surface
patches.
- Membrane
Protein Data Bank from Ohio State University (Columbus, Ohio, USA).
Powerful search capabilities for integral, peripheral, and anchored membrane
proteins, with stastics including total, unrelated, and families.
- OCA,
a browser-database for protein structure/function
from Bioinformatics and Biological
Computing of the
Weizmann Institute of Science
(Rehovot, Israel).
OCA provides
a powerful search interface to the Protein Data Bank, as well as
PDB Lite for beginners.
OCA provides Mirror Sites for FirstGlance in Jmol
on several continents.
- Orientations of Proteins
in Membranes (OPM) database from the University of Michigan
(Ann Arbor, Michigan, USA).
OPM provides visualization of hydrophobic thicknesses,
and orientations of membrane
proteins with respect to the hydrocarbon core of the lipid bilayer,
by adding planes of pseudo-atoms to the PDB file, representing
the surfaces of the lipid bilayer.
- Probable
Quaternary Structure (PQS) server
of the
European Bioinformatics Institute (Hinxton, UK).
This unique server provides coordinates for specific oligomers,
or monomers (when multiple copies in the crystallographic asymmetric unit
result from crystal contacts).
More.
PQS is offered within FirstGlance,
under More Views...
Adaptations
-
We recommend using a pop-up blocker when visiting this site:
ProteinGlimpse is a Macintosh widget "inspired
by FirstGlance in Jmol".
Feedback to
ESPCI web site