Prediction of o-GalNAc (mucin type) glycosylation sites in mammalian proteins
We recommend that the first time users should load the WSDL file above
to SoapUI and investigate the Web Service operations in that environment.
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functional/load/compliance testing of Web Services over HTTP. It can be
downloaded free of charge from http://www.soapui.org/
Examples of client side scripts using the service
# download the required scripts
perl netoglyc.pl [-sp] < example.fsa
This Web Service implements NetOGlyc 3.1d.ws0. It predicts mucin type GalNAc
O-glycosylation sites in mammalian proteins. The method is described in
detail in the following article:
"Prediction, conservation analysis and structural characterization
of mammalian mucin-type O-glycosylation sites".
K. Julenius, A. Moelgaard, R. Gupta and S. Brunak.
Glycobiology, 15:153-164, 2005.
Alongside this Web Service the NetOGlyc method is also implemented as
a traditional paste-and-click WWW server at:
The traditional server offers more detailed output (graphics), extended
functionality and comprehensive documentation. It is suitable for close
investigation of few proteins; this service is recommended for high
NetOglyc is also available as a stand-alone software package to install
and run at the user's site, with the same functionality. For academic
users there is a download page at:
Other users are requested to write to firstname.lastname@example.org for details.
WEB SERVICE OPERATION
This Web Service is fully asynchronous; the usage is split into the
following three operations:
Input: The following parameters and data:
* 'signalp' run the signal peptide predictor 'signalp' on the
input sequences (no value, just presence/absence).
Information on the SignalP method can be found at:
* 'sequencedata' mulitple elements of type 'sequence':
* 'sequence' answers to one sequence:
* 'id' unique identifier for the sequence;
* 'comment' optional comment;
* 'seq' protein sequence. The sequence must be written
using the one letter amino acid code:
`acdefghiklmnpqrstvwy' or `ACDEFGHIKLMNPQRSTVWY'.
Other letters will be converted to `X' and treated
as unknown amino acids. Other symbols,
such as whitespace and numbers, will be ignored.
Output: Unique job identifier
Input: Unique job identifier
Output: 'jobstatus' - the status of the job
Possible values are QUEUED, ACTIVE, FINISHED, WAITING,
REJECTED, UNKNOWN JOBID or QUEUE DOWN
Input: Unique job identifier of a FINISHED job
Output: * 'annsource'
'method' name of the method, here always 'NetOGlyc';
'version' version of the method: here always '3.1d ws0';
'ann' annotations - one element per input sequence;
'sequence' standard sequence object;
'id' sequence identifier;
'feature' here always "O-glyc";
'pos' always present, indicates the position of the residue in the sequence;
'key'='G-score' G-score: general prediction score;
'value' G-score value;
'key'='I-score' I-score: isolated site prediction score (threonine residues only);
'value' I-score value;
'comment' appears only when the residue is predicted as glycosylated, contains
the letter 'T' or 'S'. It also contains 'signal peptide?' if a
residue in a predicted signal peptide is predicted as glycosylated.
A residue is predicted as glycosylated when the G-score for
that residue is >0.5. For threonines an additional score is
used: if the G-score is <0.5 but the I-score >0.5 and there
are no predicted neighbouring sites (distance <10 residues)
the residue is also predicted as glycosylated.
Questions concerning the scientific aspects of the NetOGlyc method should
go to Ramneek Gupta, email@example.com; technical questions concerning
the Web Service should go to Edita Bartaseviciute, firstname.lastname@example.org or
Kristoffer Rapacki, email@example.com.