Functional Analysis: Difference between revisions
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Pal D and Eisenberg D. (2005). Inference of protein function from protein structure. | Pal D and Eisenberg D. (2005). Inference of protein function from protein structure. | ||
Structure 13, 121-130. [http://www.doe-mbi.ucla.edu/Services/ProKnow/proknow.pdf] | Structure 13, 121-130. [http://www.doe-mbi.ucla.edu/Services/ProKnow/proknow.pdf] | ||
*Profunc [http://www.ebi.ac.uk/thornton-srv/databases/ProFunc/] | |||
Laskowski R A, Watson J D, Thornton J M (2005). ProFunc: a server for predicting protein function from 3D structure. Nucleic Acids Res., 33, W89-W93. [http://nar.oxfordjournals.org/cgi/reprint/33/suppl_2/W89?ijkey=0EJWHewQp1zaEeJ&keytype=ref] | |||
== Using mouse sequence: == | == Using mouse sequence: == | ||
Revision as of 06:12, 22 May 2007
New avenues in protein function prediction http://www.proteinscience.org/cgi/content/full/15/6/1527
Sequence -> Function
- Detecting Protein Function and Protein-Protein Interactions from Genome Sequences
Edward M. Marcotte, Matteo Pellegrini, Ho-Leung Ng, Danny W. Rice, Todd O. Yeates, and David Eisenberg (30 July 1999) Science 285 (5428), 751. [DOI: 10.1126/science.285.5428.751] [1]
Structure -> Function
- Proknow
Pal D and Eisenberg D. (2005). Inference of protein function from protein structure. Structure 13, 121-130. [2]
- Profunc [3]
Laskowski R A, Watson J D, Thornton J M (2005). ProFunc: a server for predicting protein function from 3D structure. Nucleic Acids Res., 33, W89-W93. [4]
Using mouse sequence:
Mammalian Orthology http://www.informatics.jax.org/searches/homology_report.cgi?_Marker_key=92352 -- Genes
Mammalian Orthology http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=homologene&dopt=HomoloGene&list_uids=17580 --Proteins
String returned no results.
Pfam didn't work...http://www.sanger.ac.uk/cgi-bin/Pfam/getblast?id=2103981H86007039eB664
Interpro returned no results.
CDART http://www.ncbi.nlm.nih.gov/Structure/lexington/lexington.cgi?cmd=rps - when given a protein query sequence, CDART displays the functional domains that make up the protein and lists proteins with similar domain architectures. Returns no results for mouse sequence.
