MSU definition for SBASE email server

Rainer Fuchs Fuchs at EMBL-Heidelberg.DE
Fri Dec 10 11:54:08 EST 1993


In article <1993Dec9.100831.22451 at genes.icgeb.trieste.it>,
pongor at genes.icgeb.trieste.it (Sandor Pongor) wrote:

> The SBASE e-mail server accepts a specially formatted mail message
> containing a protein query sequence, and, as a response, it sends the list
> of the most probable domain homologies. A database search is performed 
> against the SBASE library of protein domains using the BLAST algorithm, 
> and the search results, provided with annotations, are returned in a mail 
> message.
> 
> 
> How to use:
> 

Included below is a specification for this new service for use with my MSU
(mail server utility) program. Just include it into SPECFILE.
MSU can be obtained from ftp.embl-heidelberg.de (/pub/software/unix and
/pub/software/vax).

###
# SBASE Mail server
# 10-Dec-1993
###

service-name:   SBASE
service-info:   Protein domain detection
service-addr:   sbase at icgeb.trieste.it
--
help-address:   sbase at icgeb.trieste.it
help-body:      help

//

service-prot-options:
start-token:    BEGIN
seq-format:     FASTA
--
msu-object:
obj-name:       Include annotation
obj-info:       Include complete annotation of domains in output
obj-tag:        ANNOTATIONS
obj-class:      Group
elements:       2
def:            1
items:          YES, NO
--
msu-object:
obj-name:       Scoring matrix
obj-info:       Scoring matrix applied for sequence comparisons
obj-tag:        MATRIX
obj-class:      Group
elements:       5
def:            1
items:          PAM120, PAM250, PAM40, BLOSUM60, BLOSUM80
--
msu-object:
obj-name:       Cutoff score
obj-info:       Cutoff score for displaying homologies
obj-tag:        SCORE PARAMETER
obj-class:      Int
min:            30
max:            100
def:            35

-- 

Rainer Fuchs
EMBL Data Library
Fuchs at EMBL-Heidelberg.DE




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