Release 28.0, 11th August 2010

Previous release notes

New features include:

  • This release includes an update to HAMAP (180510) and the integration of 114 new methods from the HAMAP, Gene3D and PRINTS databases.

  • Please Note: Pfam release 24.0 matches were calculated using HMMER3. The majority of the updated signatures were stable; however some had significant increases or decreases in the numbers of proteins they matched (+/- 30% change), which changed the taxonomy and/or biology based on protein matches. We are reviewing these entries, checking that the InterPro entry annotation is still valid and reflects the taxonomy and biology of the proteins matched by the Pfam signatures. Those Pfam signatures which have not yet been through this review process were therefore temporarily removed from InterPro and will be re-integrated into the InterPro database during 2010. If you have any questions about this, please contact us via support.

Contents and coverage of InterPro 28.0

InterPro protein matches are now calculated for all UniProtKB and UniParc proteins. The following statistics are for all UniProtKB proteins. InterPro release 28.0 contains 20837 entries, representing:

Active site 89
Binding site 64
Conserved site 586
Domain 5608
Family 13023
PTM 16
Region 1188
Repeat 263

Last entry: IPR022869

32320 publications in PUBMED are referenced from InterPro.

Member database information

Signature Database Version Signatures* Integrated Signatures**
GENE3D 3.0.0 2147 1025
HAMAP 180510 1656 733
PANTHER 6.1 30128 2260
PIRSF 2.72 3221 2751
PRINTS 40.0 2000 1962
PROSITE patterns 20.52 1308 1292
PROSITE profiles 20.52 860 837
Pfam 24.0 11912 11431
PfamB 24.0 142303 0
ProDom 2006.1 1894 1008
SMART 6.0 809 804
SUPERFAMILY 1.69 1538 1094
TIGRFAMs 9.0 3808 3795

* Some signatures may not have matches to UniProtKB proteins.

** Not all signatures of a member database may be integrated at the time of an InterPro release.

Sequence Database Version Count count of proteins matching
any signature integrated signatures
UniProtKB 2010_09 12155553 10328217 (85.0%) 9563347 (78.7%)
UniProtKB/TrEMBL 2010_09 11636205 9824016 (84.4%) 9068650 (77.9%)
UniProtKB/Swiss-Prot 2010_09 519348 504201 (97.1%) 494697 (95.3%)

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