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FORCASP • View topic - T0498 and T0499
Page 1 of 2

T0498 and T0499

PostPosted: Tue Sep 09, 2008 6:49 pm
by guest
I knew that there is a 2007 PNAS paper talking about two proteins similar to T0498 and T0499.
It is amazing that there are still four servers (from three different groups) that can guess T0498's fold correctly.

Re: T0498 and T0499

PostPosted: Fri Sep 12, 2008 6:27 am
by guest

Re: T0498 and T0499

PostPosted: Sat Sep 13, 2008 1:16 am
by Guest
Structures of these two proteins have been clearly plotted in this
paper which provide plenty of information to model both proteins.
This may be unfair for those predictors who did not read this paper.
Therefore, these two targets should be removed from the final evaluation.

I am wondering whether there are other targets like this...

Re: T0498 and T0499

PostPosted: Sat Sep 13, 2008 4:19 am
by Guest

Re: T0498 and T0499

PostPosted: Sat Sep 13, 2008 5:48 am
by guest

Re: T0498 and T0499

PostPosted: Sat Sep 13, 2008 8:04 am
by Guest

Re: T0498 and T0499

PostPosted: Mon Sep 15, 2008 12:23 am
by Guest
The structures of T0498/T0499 have actually been released (2jws/2jwu, with 2/4 residues
different). The structure of T0498 is exactly the same as the first structure in Figure 2 of
the paper and T0499 as the second.

At the current stage, I do not think (hope I am wrong) there is any algorithm that can
fold T0498 correctly without reading the paper or having other information (given the
fact that there are a number of 'wrong' templates with 60% of sequence identity to this
target). It is fine to put them in CASP. But if the structural pictures are published before
casp and not all the predictors have read the paper during their prediction, it will result
in unfairness here. I suggest T0498 should be dropped off but T0499 may be kept because
at this level of homology and accuracy, the picture does not help anyway.

Re: T0498 and T0499

PostPosted: Mon Sep 15, 2008 5:16 am
by Guest

Re: T0498 and T0499

PostPosted: Mon Sep 15, 2008 8:19 am
by Guest

Re: T0498 and T0499

PostPosted: Sun Oct 12, 2008 11:52 am
by Guest
Another paper about these two proteins has been published in PNAS:
http://www.pnas.org/content/105/38/14412.abstract

Both papers were edited by David Baker.