CAPRI more info here -- a blind docking prediction competition which is similar to CASP for structure prediction, has opened for the round 11. In the next two and half weeks, there will be one target to be predicted. For the first time we will create blind docking models using BOINC distributed computing and the job names all start from "CAPRI_11". Thanks for everyone's support and your contribution will increase our chance greatly to identify the correct answer.

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This project may get an early bump now that Einstein is down for the near future.

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So why does the graphic for the WU currently running say that the native conformation is unknown but still show a native structure?

I haven't received many of these units - most don't start with "CAPRI_11."

Still testing them on Ralph

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Still testing them on Ralph

They've made it to Rosetta, though. The WU I mwntioned below starts with "CAPRI_11"

Still testing them on Ralph

They've made it to Rosetta, though. The WU I mwntioned below starts with "CAPRI_11"

Right, I read the main page message as meaning they were going to be used on Rosetta now. I've received a few but most of my work units don't start with "CAPRI_11."

In short, that is not a real native structure, just a randomly chosen referece point we put in.

Unlike the structure prediction where the model is built up from a plain sequence, the docking prediction starts from two independent structures and tries to find the best way by which the two proteins can interact with each other. For this blind docking prediction, we randomly orient two proteins together and just use it as a reference point ( or "pseudo-native" structure). Of course, the RMSD value here does not mean anything and we eventually will select our predicted models by energy and cluster size.

So why does the graphic for the WU currently running say that the native conformation is unknown but still show a native structure?

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It is on Rosetta@Home now, but is being added to the queue slowly as they share the queue with other WUs.

Still testing them on Ralph

They've made it to Rosetta, though. The WU I mwntioned below starts with "CAPRI_11"

Right, I read the main page message as meaning they were going to be used on Rosetta now. I've received a few but most of my work units don't start with "CAPRI_11."

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Thanks Chu. I was worried that something had gone wrong with the batch. I'm glad to hear that everything is running according to plan.

Received my first Capri 11 workunit today :-)

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For this blind docking prediction, we randomly orient two proteins together and just use it as a reference point ( or "pseudo-native" structure). Of course, the RMSD value here does not mean anything and we eventually will select our predicted models by energy and cluster size.

Just to be redundant I suppose, this means that the RMSD for the WUs that start with "CAPRI_11" in the Active Work Units graphs dont mean anything either, right?

Correct.

For this blind docking prediction, we randomly orient two proteins together and just use it as a reference point ( or "pseudo-native" structure). Of course, the RMSD value here does not mean anything and we eventually will select our predicted models by energy and cluster size.

Just to be redundant I suppose, this means that the RMSD for the WUs that start with "CAPRI_11" in the Active Work Units graphs dont mean anything either, right?

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I got 1 CAPRI 11 WU. Wow! exciting stuff!

Who ended up winning this "competition"?

It is at the closing stage now and usually one month or two after the submission deadline, we will hear the result from the evaluators. We will post it here as soon as we are notified.

I got 1 CAPRI 11 WU. Wow! exciting stuff!

Who ended up winning this "competition"?

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i didn't get any CAPRI 11 WUs :(

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i didn't get any CAPRI 11 WUs :(

You didn't miss anything.