Software

How to...

Crystallography - tutorials, aids, and guides

Synchrotron Sources

Databases

Dictionaries & Reference Resources

Software (alphabetical)

CCP4 & Program documentation
O

CNS 
O Files, FAQ, Manual, Uppsala Software Factory 
Denzo-scalepak
RasMol 
DALI 
Shake and Bake

DSSP  
Swiss-PdbViewer Home Page
GRASP
Ligplot
X-PLOR Manual, FAQ, Heterogen Library  
MolScript
SHELX
Procheck 3.4
SOLVE 

 

Crystallography - tutorials, aids, and guides

Crystallography 101
Statistics in Crystallography
Glossary of Stats
Hampton Research
Sequence analysis for Heavy Atom search (HATODAS)
MAD theory and literature
Atomic ScatteringFactors

AbsorptionEdges
Interactive Structure Factor Tutorial
Treatment of MAD data

Expressing Se-Met Proteins
Anomalous Scattering
MAD References
Protein Analysis Tools
ExPASy

MW/pI
Blast
ClustalW

Periodic Table

Amino Acid Properties

 

 


 

 

Databases

BMCD: Biological Macromolecule Crystallization Database or use this other site
Cambridge Structure Database (CCDC)
DALI (protein structure comparison)
Database of Interacting Proteins (DIP)
EC Enzyme Database
Heavy-Atom Databank
HIC-Up
ModBase - Database of comparative protein structure models
Molecular Structures Database (free until Sep. 1, 1999)
Nucleic Acid Database
PROMISE (Prostetic groups and metal ions in protein active sites)
RCSB The Protein Data Bank
RELIBase (ligand search in PDB)


Synchrotron Sources

                    Synchrotron List

ALS (Berkeley)
APS (Argonne)
CHESS (Ithaca)
DESY, Hasylab (Hamburg)  
Elettra (Trieste)
EMBL-Hamburg
ESRF (Grenoble)
 
LURE (Orsay)
KEK (Tsukuba)
MAXLab (Lund)
NSLS (Brookhaven)
SPring-8 (Hyogo)
SRS (Daresbury)
SSRL (Stanford)
 

 

Dictionaries and Reference Resources

BIOSYS
Cell Biology
Elements of Style (English grammar)
Genetics (glossary)
HTML special characters
Internet terms (glossary)
Life Science
Mapquest and its Driving directions
Microbiology (glossary)
Patent server (IBM)
Periodic table at the University of British Columbia and at the Los Alamos National Laboratory
Phone directories: Canada and United States
Polycrystal Book Service
Thesaurus
Unix Help
Veterinary bacteriology - Dictionary (French)
Webster online

 

 

How to ...?

...make dictionary files for REFMAC5.1
...make topology and parameter files for CNS
...make torsion files for O
...use refmac5
...build and refine multiple conformations
...take a picture of a SDS-Gel using our EDAS290 system
...prepare reflection files for refinement (data_prep.com)
...use GRASP
...more on GRASP
...make tape backups using tar
...use the R-Axis IIc image plate and X-ray generator
...run a SDS-PAGE on bacterial samples
...run shelxl