4 Mar 2011 - Version 11.3.4
GPCR specific PDF reader
- We are proud to release the first version of the
GPCR-specific PDF reader, built using the best parts of the GPCRDB and
the Utopia Documents PDF reader.
Currently supported platforms are Windows (XP and newer) and Mac OS (Leopard and newer).
The following papers are known to beautifully illustrate the possibilities of this software:
- Identification by site-directed mutagenesis of residues involved in ligand recognition and activation of the human A3 adenosine receptor., Gao et al.
- Residues Val254, His256, and Phe259 of the Angiotensin II AT1 Receptor Are Not Involved in Ligand Binding but Participate in Signal Transduction., Han et al.
- Engineering the melanocortin-4 receptor to control constitutive and ligand-mediated G(S) signaling in vivo., Srinivasan et al.
- The crystallographic structure of the human adenosine A2A receptor in a high-affinity antagonist-bound state: implications for GPCR drug screening and design., Jaakola and IJzerman
- Structure and function of an irreversible agonist-��2 adrenoceptor complex., Rosenbaum et al.
- The protein family pages contain a lot more information. Structures and mutations are easily accessible for families.
- Protein sequences are now annotated with mutation data. Residues for which we have mutation information in that protein are colored red, residues that are mutated in family members are colored yellow.
- The helices are indicated in blue on the protein sequence.
- Filter options are added to protein list tables. You can filter these tables to display human proteins only and/or proteins only from SwissProt.
- A search form to search protein structures has been added on the Search page.
- Extra search options for finding mutations have been added.
- Jalview should now also work correctly on 64bit linux machines running FireFox
- Minor snake plot fixes
- Plus the usual bugs and minor improvements...
- A GPR88 family was added.
- The GPR81 and GPR109 families have been places as members of the new 'hydroxycarboxilic acid receptor' family.
12 Jan 2011 - Version 11.1.12
- This update consists mostly of small interface corrections and a number of backend optimalizations.
- Plus the usual bugs and minor improvements...
- Homology models have been greatly improved. We suffered from a combination of small bugs that resulted in some really bad models. Model quality should be greatly improved.
15 Nov 2010 - Version 10.12.1
- We have a structures pages where we try to keep new structural data on GPCRs together.
- Where possible for each protein we provide links to UniProt, Ensembl, GPdb, GPCRRD, GLIDA, NaVa and ChEMBL.
- The usual bugs and minor improvements...
- ENSEMBL sequences are now included. Where possible, ENSEMBL sequences have been mapped to UniProt entries and duplicates are removed.
- A bug in the sequence harvesting code has been resolved and more sequences are now included. We now have about 42.000 receptors. (please look at the contents page for the exact numbers)
- Homology models are present for all class A GPCRs. Models have been created using the sequence profiles for alignments, and WHATIF and YASARA for the actual modeling.
- We have incorporated an alignment analysis page, where alignments can be analyzed with respect to their entropy and variability patterns. Visualizations are offered through multiple integrated plots, together with 3D protein structures. Alignment analysis pages are reached via the protein family pages, clicking on the 'Alignments and analysis' links, and then navigating towards the 'Analysis' page.
1 Sept 2009 - Version 9.9.1
- A whole new interface based on Apache Wicket, allowing for a much more interactive user experience.
- Detailed help for all aspects of the GPCRDB is available,
indicated by this icon:
- Use cases to show you how to perform the most common tasks have been added to our new usage page.
- We have a FAQ! If you feel like stuff is missing, please let us know!
- There is a statistics table on the contents page.
- On the top-right part of every page there is a search field, allowing for fast searching for proteins (look at it's help for usage details).
- Quite a few bugs were removed.
- And loads of minor improvements ...
- Due to (too) strict cutoffs in a large number of olfactory families a lot of olfactory receptors were missed in the previous release. We are happy to embrace them again.
- We now use the NR database from the NCBI to mine GPCRs. This
has resulted in a significant increase in receptors in the database.
The previous release contained somewhere around 6.000 proteins, while we now have about 20.000 receptors. (please look at the contents page for the exact numbers)
- The were quite a few errors in the sequence GPCRDB-numbering (special numbers). A checking mechanism was created to assure that alignment positions conform to a list of reference residues/positions.
- The mutant prediction server is now available. This tool can predict the effects of mutations in class A GPCRs.
- We have built a custom alignment creator service . This allows you to create your own alignment by specifying the families you would like to align and applying certain filters. Detailed help is available.
- You can now BLAST your sequences against the GPCRDB!
6 Oct 2008 - Version 8.10.6
Version 8.10.6 of the GPCRDB is released.
- This release is a major overhaul of the GPCRDB, rewriting everything from scratch. A large number of new profiles were created by Laerte Oliveira, which resulted in more families and proteins.
For update details from older releases, please visit this page