FINDING SUITABLE TEMPLATE

[priya]

Hi all, I have a sequence for which I could not find a suitable template to model. Is there any other method to generate a 3D structure ? i Submitted to 3D-PSSM but could not get an appropriate template. so can anyone tell me how to find a suitable template? regards priya    "Success is a journey, not a destination." – Ralph Arbitelle

[Aadhav Arun]

can anyone say the protein responsible for BLB in rice...me doin project i cant able to find...any please say the name of the protein

[abhijeet kapoor]

Try I-TASSER
http://zhanglab.ccmb.med.umich.edu/I-TASSER/

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Abhijeet Kapoor
Research Assistant
Bioinformatics & Computational Biology
Iowa State University, IA

[lukaskoz]

I-TASSER is one of the most accurate predictior, but I think it would
be worth to run it on as many fold recognition methods as possible
(hhsearch, ffas, phyre - you should use it instead of 3d-pssm, because
phyre is successor to 3d-pssm). This can be done easily using so called
metapredictors. From my own perspective I can recommend Genesilico
metaserver https://genesilico.pl/meta2/ (one submission will send
sequence to dozens of bioinformatics tools (secondary structure,
transmembrane helices, solvent accessiblitty, fold recognition etc.) and
it give you results in unified, easy readable form).

Doing that you have much bigger chance to detect suitable template even
for really hard targets (remote homology).

abhijeet kapoor pisze:

> Try I-TASSER
> http://zhanglab.ccmb.med.umich.edu/I-TASSER/
>
> On Fri, Feb 25, 2011 at 8:39 AM, priya <priy...@yahoo.com
> <mailto:priy...@yahoo.com>> wrote:
>
>
>
>
> Hi all,
>
> I have a sequence for which I could not find a suitable template
> to model. Is there any other method to generate
> a 3D structure ? i Submitted to 3D-PSSM but could not get an
> appropriate template. so can anyone tell me how to find a suitable
> template?
>
> regards
> priya

> <http://help.yahoo.com/l/in/yahoo/mail/yahoomail/context/context-07.html>
>
> "Success is a journey, not a destination." � /Ralph Arbitelle/

>
>
>
>
>
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> You received this message because you are subscribed to the Google
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>
> This group is affiliated with the PredictProtein server -
> http://www.predictprotein.org/.
> PredictProtein is an Internet service for sequence analysis and
> the prediction of protein structure and function from sequence.
> To get PredictProtein news and updates follow us on twitter:

> http://twitter.com/#!/rostlab <http://twitter.com/#%21/rostlab>

>
>
>
>
> --
> Abhijeet Kapoor
> Research Assistant
> Bioinformatics & Computational Biology
> Iowa State University, IA
> --
> You received this message because you are subscribed to the Google
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> To post to this group, send email to Predict...@googlegroups.com
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> For more options, visit this group at
> http://groups.google.com/group/PredictProtein?hl=en
>
> This group is affiliated with the PredictProtein server -
> http://www.predictprotein.org/.
> PredictProtein is an Internet service for sequence analysis and the
> prediction of protein structure and function from sequence.
> To get PredictProtein news and updates follow us on twitter:

> http://twitter.com/#!/rostlab <http://twitter.com/#%21/rostlab>
>
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