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links
facilities
Structural Biology NMR Facility:
The Structural Biology NMR facility comprises a four-channel 600 MHz
Varian Inova instrument. Every structure displayed in the gallery has
been solved based on data acquired using this instrument. A cryoprobe
for the instrument is expected soon and a major expansion of the
facility is being planned. The facility is
staffed by a full-time manager.
UIC Center for Structural Biology:
A super high-field resource comprising state-of-the-art 800 and 900 MHz
spectrometers for structural biologists in the Chicago area.
Keck Biophysics Facility: The Keck
facility hosts a wide array of spectroscopic, imaging, and analytical
instruments for biophysical studies of macromolecules and
macromolecular interactions. Over two dozen instruments are currently
available and the facility is open to investigators from within as well
as outside Northwestern. Virtually every project in the lab takes
advantage of this valuable resource.
Analytical Services Laboratory: The ASL
hosts a wide array of analytical instruments for chemistry and
biochemistry research. We use the facility mostly for mass
spectrometric analysis (ESI-MS and MALDI).
Advanced Photon Source: Northwestern
structural biologists have access to the brightest source in the world
for crystallographic analysis. Located in Argonne, the facility is a
short drive from the Evanston campus.
bioinformatics resources
on the web
databases
- Entrez:
NCBI's integrated information retrieval system and the front-end for
the GenBank database.
- Swiss Prot: Curated database of
protein sequences.
- Prosite: Compilation of protein
families and domains.
- RCSB PDB: RCSB's biomolecular structure
database.
- The Molcular Biology Database Collection:
An compilation of online databases.
- ACEDB: A caenorhabditis elegans
database.
- SGD: Saccharomyces genome database.
- Ensembl: A browser for a variety of
genomes.
- Flybase: A database of the Drosophila
genome.
tools
- MONSTER: A webserver for
analyzing macromolecular complexes developed in our laboratory.
- BLAST: A suite of tools for identifying
homologous sequences.
- CLUSTAL W: A tool for aligning multiple
sequences.
- ScanProsite: A tool for detecting
PROSITE patterns.
- ProfileScan: A tool for detecting
remote homologues.
- Pfam: A tool for detecting remote
homologues.
- ExPaSy: Proteomics server of the Swiss
Institute of Bioinformatics.
- PHYLIP: Phylogenetic analysis suite.
- GENSCAN: A gene prediction tool.
- PredictProtein: Burkhard Rost's PHD
suite for secondary structure prediction and other programs.
- JPred: A yet another tool for secondary
structure prediction.
freeware
- RASMOL: Molecular graphics software for
Macs, PCs, and Unix boxes (tutorial).
- Swiss-PDBViewer: Molecular graphics
software for protein structure analysis and modeling (tutorial).
- RIBBONS: Molecular graphics software
for making pretty images (manual).
- MOLSCRIPT: Molecular graphics software
for making pretty images (manual).
- RASTER3D: Molecular graphics software
for making pretty images - used in conjunction with MOLSCRIPT (manual).
- GRASP: Molecular graphics software for
making pretty images (primer).
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