GPCR-OKB Disclaimer

The G Protein Coupled Receptor -
Oligomerization Knowledge Base Project

If checked, GPCR-OKB will search for Oligomers.

Please specify the name of the oligomer of interest made up of the names of the protomers that form its constituent parts. The "Oligomer" option is checked by default.

Example: If you would like to retrieve information about an oligomer of the dopamine D2 receptor, you can either write "dopamine" or "D2".

If you select the "With Phenotypic Changes" option, you will limit your search to only oligomers with demonstrated phenotypic changes.

If you select the "With Proposed Interfaces" option, you can retrieve available information about predicted interfaces of dimerization/oligomerization.

If you select the "With In Vivo Evidence" option, you will limit your search to Oligomers for which at least one of the following 3 criteria are satisfied: 1) Evidence for physical association in native tissue or primary cells; 2) Identification of specific functional property in native tissue; 3) Use of knockout animals or RNAi technology. These criteria are NC-IUPHAR recommendations to recognize a bona fide functional GPCR oligomer, and were reported in detail in Pin J-P, et al., International Union of Basic and Clinical Pharmacology. LXVII. Recommendations for the Recognition and Nomenclature of G Protein-Coupled Receptor Heteromultimers. Pharmacological Reviews 2007, 59(1):1-9.

If you select the "Evidence for Physiological Relevance" option, you will limit your search to Oligomers for which at least two of the following 3 criteria are satisfied: 1) Evidence for physical association in native tissue or primary cells; 2) Identification of specific functional property in native tissue; 3) Use of knockout animals or RNAi technology. These criteria are NC-IUPHAR recommendations to recognize a bona fide functional GPCR oligomer, and were reported in detail in Pin J-P, et al., International Union of Basic and Clinical Pharmacology. LXVII. Recommendations for the Recognition and Nomenclature of G Protein-Coupled Receptor Heteromultimers. Pharmacological Reviews 2007, 59(1):1-9.

Find Oligomers
          With Phenotypic Changes
          With Proposed Interfaces
          With In Vivo Evidence
          With Evidence for Physiological Relevance

If checked, GPCR-OKB will search for Protomers (i.e., constituent subunits of an Oligomer).

Please specify the name of any receptor protomer in the oligomer.

Example: If you would like to retrieve information about dopamine D2 receptor, you can either write "D2" or "dopamine".

Find Protomers

If checked, GPCR-OKB will search for Methods.

Please specify a method type used for the discovery and/or characterization of GPCR oligomers.

Example: If you would like to retrieve information about all oligomers identified by FRET studies, please write "FRET".

Find Methods

Boolean Operators
and	Specifies this term MUST be in the search results - this is the default operator
or	Specifies this term MAY be in the search results
not	Specifies this term MUST-NOT be in the search results

Search Term Modifiers
*	(Wildcard) Can be placed at the front and/or at the end of a search term to find partial term matches
~	(Regular Expression) Can be placed at the front of a search term to search using a regular expression

Special Notes
GPCR-OKB searches are always case-insensitive Any boolean operators provided should be preceding and connected to the term they operate on, for example use +cat not + cat (the extra space between + and cat will not work as desired) GPCR-OKB does not support phrasal or proximity searches

Examples
m1 or m2	Search for items containing the terms m1 or m2
m1 m2	Searches m1 and m2, as "and" is the default search operator
protein not m1 not m2	Search for items with the term protein but not the terms m1 or m2
rotei m2	Search for items which have a term that contains the string 'rotei' and the term m2
adenos* not *a	Search for items which have a term that starts with the string 'adenos' but no terms that end with the string 'a'

Frequently Asked Questions (F.A.Q.)

How do I use GPCR-OKB ?
The Locating data page discusses different ways to search for information in GPCR-OKB. Additional help is provided when the icon appears. Clicking on this icon will open a popup window containing detailed descriptions and practical examples.
How can I cite GPCR-OKB ?
Please cite the following article when referring to GPCR-OKB:
Skrabanek L, Murcia M, Bouvier M, Devi L, George SR, Lohse MJ, Milligan G, Neubig R, Palczewski K, Parmentier M, Pin JP, Vriend G, Javitch JA, Campagne F, Filizola M. "Requirements and ontology for a G protein-coupled receptor oligomerization knowledge base." BMC Bioinformatics. 2007 May 30;8:177.
How can I get a machine readable version of GPCR-OKB data ?
The GPCR-OKB data is stored in a Subversion repository in XML files. To get download these data, including the associated schema files, you can check it out directly from the Subversion URL
https://pbtech-vc.med.cornell.edu/public/svn/icb/data/gpcr-okb-data
You can use the username guest and for a password please provide your email address.
What web browsers are supported by this application ?
To give the best user experience, GPCR-OKB targets modern platforms and browsers. We suggest using Firefox 3+, Google Chrome, Safari 4+, or Internet Explorer 8+. Older browsers, including Internet Explorer before version 8, often do not comply with established HTML, CSS, and Javascript standards and are therefore not recommended and may have problems with our website.
Can I give you feedback ?
You most certainly can. Our database improvement strongly depends on users' opinion. Comments/suggestions should be sent to gpcr-okbokb@med.cornell.edu

References:

Requirements and ontology for a G protein-coupled receptor oligomerization knowledge base. BMC Bioinformatics. 2007 May 30;8:177. Skrabanek L, Murcia M, Bouvier M, Devi L, George SR, Lohse MJ, Milligan G, Neubig R, Palczewski K, Parmentier M, Pin JP, Vriend G, Javitch JA, Campagne F, Filizola M.

GPCR-OKB: The G Protein Coupled Receptor Oligomer Knowledge Base. Bioinformatics. 2010 May 25. Khelashvili G, Dorff K, Shan J, Camacho-Artacho M, Skrabanek L, Vroling B, Bouvier M, Devi LA, George SR, Javitch JA, Lohse MJ, Milligan G, Neubig RR, Palczewski K, Parmentier M, Pin JP, Vriend G, Campagne F, Filizola M. doi:10.1093/bioinformatics/btq264

The G Protein Coupled Receptor -Oligomerization Knowledge Base Project

Frequently Asked Questions (F.A.Q.)

The G Protein Coupled Receptor -
Oligomerization Knowledge Base Project