On Monday 28th March 2011 the WSPSIBlast service was decommissioned and replaced by the following services:

• PSI-BLAST (REST)
• PSI-BLAST (SOAP)

The service documentation and clients below are historical and provided solely for reference purposes.

BLAST stands for Basic Local Alignment Search Tool.The emphasis of this tool is to find regions of sequence similarity, which will yield functional and evolutionary clues about the structure and function of your novel sequence. Position specific iterative BLAST (PSI-BLAST) refers to a feature of NCBI BLAST 2.0 in which a profile is automatically constructed from the first set of BLAST alignments. PSI-BLAST is similar to NCBI BLAST except that it uses position-specific scoring matrices derived during the search, this tool is used to detect distant evolutionary relationships.

The iterative strategy of PSI-BLAST can be run in two ways:

1. Manual: at each iteration the list of hits found is returned and the hits used to generate the profile the next iteration are selected and submitted to perform the nest iteration.
2. Automatic: the set of hits used to construct the profile is automatically selected based on an E-value threshold. For this mode the search will stop either when the iterations converge (i.e. the same hits are used to build the profile in each iteration) or when a specified maximum number of iterations is reached.

This service provides the manual mode, for the automatic mode see the WSBlastpgp service.

For more information about this tool see:

• EMBL-EBI Tools:
  • PSI-BLAST
  • PSI-BLAST Help
• NCBI:
  • NCBI BLAST Help
  • BLAST Guide

Web service registry entries:

• BioCatalogue
• seekda!

Sample clients are provided for a number of programming languages. For details of how to use these clients, download the client and run the program without any arguments.

For further details see WSPSIBlast Clients.

http://www.ebi.ac.uk/Tools/webservices/wsdl/WSPSIBlast.wsdl

Submits a PSI-Blast job to the service.

Arguments:

• params an instance of the inputParams data structure.
• content data data structures describing the query sequence data.
• preselseqcontent data structures describing the pre-selelcted sequence data.
• checkpointcontent data structures describing the checkpoint data.

Returns: a string containing the job ID (jobid).

Get the status of a job.

Arguments:

• jobid the job identifier of the job to check status of.

Returns: a string indicating the status of the job. Current values are:

• DONE: job has finished, and the results can then be retrieved.
• ERROR: the job failed or no results where found
• NOT_FOUND: the job id is no longer available (job results are deleted after 24 h)
• PENDING: the job is in a queue waiting processing
• RUNNING: the job is currently being processed

Get details of the result types available.

Arguments:

• jobid the job identifier of the job to get result types for.

Returns: an array of WSFile structures describing the available result types for the job.

Wait until the job has finished and get the specified type of result data.

Arguments:

• jobid the job identifier of the job to get result from.
• type a string specifying the type of result to retrieve. See getResults(jobid) and WSFile for details of how to obtain valid values.

Returns: a base64 encoded string containing the result data. Depending on the SOAP library and programming language used the result may be returned in decoded form.

Structure containing the input data for the job

A structure containing the parameters required to run the job.

Structure describing a result type. Returned by the getResults(jobid) method.

If you have any questions or comments, or you plan to use this service as part of a course or for a high number of submissions, please contact us EMBL-EBI Support.