CAPRI communitywide experiment on the comparative evaluation of protein-protein docking for structure prediction
Hosted by the Protein Data Bank in Europe (PDBe) Group
Members of both the CASP and CAPRI communities will be invited to model the interfaces of protein hetero-complexes, homo-multimers and domain-domain
interactions in appropriate CASP12 targets.
Description of the CASP12 experiment can be found at: http://predictioncenter.org/casp12/index.cgi
As in 2014, the number or type of targets that will be made available for this round are currently unknown, as targets are being submitted to CASP piecemeal
during the entire duration of the CASP12 session. Decision on targets designated for CAPRI docking and scoring predictions (only a subset of the CASP12
targets prediction is expected to represent appropriate CAPRI targets) will be made by CAPRI MC members (Shoshana Wodak, Sameer Velankar, and Marc Lensink).
Information on these targets and submission deadlines (for servers, dockers and scorer) will be provided on the CAPRI website.
Registration: CAPRI participants wishing to take part in this CAPRI prediction round are invited to register for the entire round in advance. CAPRI registration
for Round 37 will be open starting May 4, and the first targets will be announced on Mon May 9. We also encourage CAPRI participants to register with the
CASP12 session, which is already open. When registering with CASP, participants should click the radio button "Do you want to receive an e-mail when a target
is designated as CAPRI?" In this case they will be receiving an automatic message each time a new CAPRI target is designated.
Upon receiving this message participants should consult the CAPRI site for additional target information and for the timelines for submission of server models,
docking models, uploading of models and the scoring submissions. Participants registered for Round 37 with CAPRI should submit models only to the CAPRI website.
Not to both!
All the submitted models of homo- and hetero- complexes will be evaluated by the CAPRI evaluation team, as usual. The possibility of applying additional
evaluation procedures by the CASP independent team will be examined at a meeting mid June in Rome, to which the CAPRI assessment team will be invited. These
additional procedures are likely to apply only to the prediction of domain-domain interactions in multi-domain proteins. Any suggestions from the CASP
assessment team for additional evaluation measures to be applied to predicted complexes, will first be examined by the CAPRI MC in consultations with the
CAPRI community, before they are accepted as part of the official CAPRI assessment procedure.
To download the target coordinates you must agree to the
following conditions at the time of download.
To Register please email
Shashana Wodak - shoshana.wodak AT gmail.com, Sameer Velankar - sameer AT ebi.ac.uk
Team Leader Name:
Staff Position At your Institute:
If a Team is submitting
For each member please send Name: & email:
Protein-protein interactions and other interactions between macromolecules are essential to all aspects of biology and medical sciences, and a number of methods have been developed to predict them. CAPRI is a community wide experiment designed to assess those that are based on structure. If we know the 3D structure of two components of a complex and build a model of their assembly, how reliable and accurate is that model likely to be?
CAPRI is a blind prediction experiment managed by capri management . Its targets are unpublished crystal or NMR structures of complexes, communicated on a confidential basis by their authors to the CAPRI management. Participant predictor groups are given the atomic coordinates of two proteins that make biologically relevant interactions. They model the target complex with the help of the coordinates and other publicly available data (sequence, mutations etc~), and submit sets of ten models for assessment on the CAPRI Web site. In addition, the predictors are invited to upload larger sets that are communicated to scorer groups who evaluate and rank them, and make a separate ten-model submission. After the prediction round is completed, the CAPRI assessors compare the submissions to the experimental structure, et evaluate the models on criteria that depend on the geometry and biological relevance of the predicted interactions.
Since CAPRI began in 2001, the experiment has had two to four prediction rounds each year, with one or a few targets per round. Each round is announced a week in advance, it lasts 3-6 weeks, and the results are known in the following weeks. To be on the mailing list, please send a message to Sameer Velankar.
Structural biologists and scientists actively engaged in the study macromolecular interactions are invited to participate:
by offering targets -more information
by registering prediction rounds as predictors and/or scorers
Please read and observe the rules of the experiment and the confidentiality agreement that all CAPRI participants must sign.
Information on targets of past CAPRI rounds is available here
Capri Target Publications
CAPRI Special issues and Evaluation Meetings:
- Fifth CAPRI Evaluation Meeting, Utrecht, The Netherlands, April 17-19, 2013
- Fourth CAPRI Evaluation Meeting, Barcelona, Spain, December 9-11, 2009
Special issue : Proteins: Structure, Function, and Bioinformatics, Volume 78, Issue 15, 2010.
- Third CAPRI Evaluation Meeting, Toronto, Canada, April 20–21, 2007
Special issue : Proteins: Structure, Function, and Bioinformatics, Volume 69, Issue 4, 2007.
- Second CAPRI Evaluation Meeting, Gaeta, Italy, December 8-10, 2004.
Special issue : Proteins: Structure, Function, and Bioinformatics, Volume 60, Issue 2, 2005.
- First CAPRI Evaluation Meeting, La Londe des Maures, France, September 19-21, 2002.
Special issue : Proteins: Structure, Function, and Bioinformatics, Volume 52, Issue 1, 2003.
Welcome to CAPRI: A Critical Assessment of PRedicted Interactions Jol Janin, Proteins: Structure, Function, and Genetics Volume 47, Issue 3, 2002. Pages: 257 ( Local Copy: Call For Targets )
Meeting Report. Modeling of protein interactions in genomes Sandor Vajda, Ilya A. Vakser, Michael J.E. Sternberg, Joel Janin, Proteins: Structure, Function, and Genetics Volume 47, Issue 4, 2002. Pages: 444-446 ( Local Copy: Meeting Report )
Assessing predictions of protein-protein interaction: The CAPRI Experiment. J Janin (2005) Protein Sci. 14:278-283.
The Third CAPRI Assessment Meeting, Toronto, Canada, April 20-21, 2007. J. Janin, SJ Wodak (2007) Structure 15, 755-759.
Email Problems or Queries to Sameer Velankar