Lab 3: DNA Motif and Protein Domain Discovery
| geneontologymotifsdomainslab2013new.doc |
Example of a protein domain structure
a) protein domain structure of the protein dynamin
Note: mutations are listed on the structure itself.
See if you can find this info for your disease gene
b) guanylate binding domain structure
Start with a tutorial:
http://www.ebi.ac.uk/training/online/course/introduction-protein-classification-ebi
Protein
*PFAM:http://pfam.sanger.ac.uk/
*SMART: http://smart.embl-heidelberg.de/
*PROSITE: http://www.expasy.ch/prosite/
ProDOM: http://prodom.prabi.fr/prodom/current/html/form.php?CG=3
PRINTS: http://www.bioinf.manchester.ac.uk/dbbrowser/PRINTS/PRINTS.html
DNA
MEME: http://meme.sdsc.edu/meme/intro.html
Multi-Use Sites:
Gene Infinity: http://www.geneinfinity.org/index.html?dp=1
This is a cool site. You can find a lot of databases to dissect info about your DNA/protein sequences
Lab 3.5: Gene Ontology
Tutorial for Gene Ontology:
http://www.ebi.ac.uk/training/online/course/go-quick-tour
GO consortium: http://www.geneontology.org/
*AMIGO: http://amigo.geneontology.org/cgi-bin/amigo/go.cgi
*QUICKGO: http://www.ebi.ac.uk/ego/
All Biological Ontology Databases:http://www.ebi.ac.uk/Databases/ontology.html
