ARC Centre of Excellence for Plant Energy Biology

Pre-release edition

Rice DB imports InterPro protein families, domains and functional sites from MSU's official InterProScan results. From the European Bioinformatics Institute website:

InterPro is an integrated database of predictive protein signatures used for the classification and automatic annotation of proteins and genomes. InterPro classifies sequences at superfamily, family and subfamily levels, predicting the occurrence of functional domains, repeats and important sites.

In addition to InterPro's protein signature database, InterProScan integrates automated classification systems. In particular methods involving hidden Markov models (HMMs) via HMMER are included in Rice DB's InterPro import, for example Pfam. See ftp://ftp.ebi.ac.uk/pub/software/unix/iprscan/README.html

Usage When Searching Rice DB Usage Viewing Rice DB Results
  • Search for InterPro IDs matched to Rice loci.
  • Search for InterPro names.
  • Show InterPro IDs and names (aka descriptions): many-to-many relationship with rice loci.
Example: IPR017441
Example: show InterPro for LOC_Os01g01030.1
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System Information

Transcript of last update

Took 47 seconds, 362 millis starting Sat, 23 Jun 2012 15:00:26 GMT:
Using /var/folders/75/983jwhw537q11ck7b_b0zwf80000gn/T/RiceDB/InterPro_
Using db.local/downloaded/InterPro_
Using all.interpro Mon Oct 31 00:00:00 WST 2011
Loading InterPro descriptions from MSU
Updating IDMAP
Calculating stats
Making full text index