problem with chop

[Richard Friedman]

Dear Rost group,

I want to demonstrate Chop for my class.
I have input the sequence of the human src protein,
which I believe was correctly split into domains in
the past, but I got no division into domains on this run (with
default parameters).

Here is the sequence:

>SRC_HUMAN ID SRC_HUMAN STANDARD; PRT; 535 AA.
GSNKSKPKDASQRRRSLEPAENVHGAGGGAFPASQTPSKPASADGHRGPSAAFAPAAAEP
KLFGGFNSSDTVTSPQRAGPLAGGVTTFVALYDYESRTETDLSFKKGERLQIVNNTEGDW
WLAHSLSTGQTGYIPSNYVAPSDSIQAEEWYFGKITRRESERLLLNAENPRGTFLVRESE
TTKGAYCLSVSDFDNAKGLNVKHYKIRKLDSGGFYITSRTQFNSLQQLVAYYSKHADGLC
HRLTTVCPTSKPQTQGLAKDAWEIPRESLRLEVKLGQGCFGEVWMGTWNGTTRVAIKTLK
PGTMSPEAFLQEAQVMKKLRHEKLVQLYAVVSEEPIYIVTEYMSKGSLLDFLKGETGKYL
RLPQLVDMAAQIASGMAYVERMNYVHRDLRAANILVGENLVCKVADFGLARLIEDNEYTA
RQGAKFPIKWTAPEAALYGRFTIKSDVWSFGILLTELTTKGRVPYPGMVNREVLDQVERG
YRMPCPPECPESLHDLMCQCWRKEPEERPTFEYLQAFLEDYFTSTEPQYQPGENL

And here is the excerpt from the predictProtein server.

CHOP Proteins into structural domain-like fragments (Liu J.,Rost B)

Result of CHOP prediction (Jinfeng Liu & Burkhard Rost)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Jinfeng Liu & Burkhard Rost
Proteins. (2004) in press
________________________________________________________

Query : predict_h30976
Length: 535

END of results for file predict_h30976

Please advise.

Thanks and best wishes,
Rich
------------------------------------------------------------
Richard A. Friedman, PhD
Associate Research Scientist
Herbert Irving Comprehensive Cancer Center
Oncoinformatics Core
Lecturer
Department of Biomedical Informatics
Box 95, Room 130BB or P&S 1-420C
Columbia University Medical Center
630 W. 168th St.
New York, NY 10032
(212)305-6901 (5-6901) (voice)
frie...@cancercenter.columbia.edu
http://cancercenter.columbia.edu/~friedman/

In memoriam, John Stewart Williamson

[cui10]

 

sorry,I can not help u.

 

  best regards.

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[jinfe...@gmail.com]

Dear Richard,

The problem has now been fixed. Please resubmit your sequence through
http://rostlab.org/services/chop/submit.html
and let me know if you experience further problems.

Best,
Jinfeng

On Apr 8, 11:32 am, Richard Friedman

> fried...@cancercenter.columbia.eduhttp://cancercenter.columbia.edu/~friedman/

[Dr.HetalPanchal]

Hello ! Sir

 

I will try my best to check the mater and let you know within few days

 

Thanking you,

 

Regards

 

Hetal

 

--
Dr.Hetalkumar Panchal
Lecturer in Bioinformatics
Department of Computer Sciences
Sardar Patel University.
Vallabh Vidyanagar.
Gujarat

[ashen liu]

Hello ! Hetal

 

I am very suprise and happy  to enjoy your help! But I am afraid you

 

have made a mistake, I am  ashen.liu, not  Jinfeng Liu .You have sent

 

the E-Mail to me which should sent to Jinfeng Liu .

 

Thanking you for your kind!

 

Regards

 

ashen

 

"Dr.HetalPanchal" <swami...@gmail.com> 写道：

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