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CATHEDRAL (Draft WSDL)

As yet this is untested.

This service allows the CATH database to be searched by protein structure.

NB This service is not currently active. It is still in development -- check back here for updates. The WSDL posted may change between now and the first release.

Submitted by andrew.clegg on Thu, 11/20/2008 - 20:45
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CATH/Gene3D HMMScan (draft WSDL)

As yet this is untested.

This service allows the CATH and Gene3D HMM libraries to be searched with a given amino acid sequence (or any one of various database identifiers representing a sequence).

NB This service is not currently active. It is still in development -- check back here for updates. The WSDL posted may change between now and the first release.

Submitted by andrew.clegg on Thu, 11/20/2008 - 16:02
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tBLASTx at SIB (nucleotide query sequence(s) against a nucleotide sequence dabase, both six-frame translated)

As yet this is untested.

tBLASTx finds regions of similarity between the six-frame translations of a nucleotide query sequence and the six-frame translations of a nucleotide sequence database.
Computations are done on the Vital-IT cluster (SIB).
Most NCBI BLAST (2.2.17) options are available.
Most SIB databases are available: STS, EST, HTG, refseq, repbase, ...

INPUT: nucleotide sequence(s) + choose a database
OUTPUT: BLAST output

Submitted by smoretti on Tue, 11/04/2008 - 12:05
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tBLASTn at SIB (protein query sequence(s) against a nucleotide sequence database dynamically translated in all reading frames)

As yet this is untested.

tBLASTn finds regions of similarity between a protein query sequence and a nucleotide sequence database dynamically translated in all reading frames.
Computations are done on the Vital-IT cluster (SIB).
Most NCBI BLAST (2.2.17) options are available.
Most SIB databases are available: Uniprot, UniRef, organism proteomes, refseq protein, nrl3D, ...

INPUT: protein sequence(s) + choose a database
OUTPUT: BLAST output

Submitted by smoretti on Tue, 11/04/2008 - 12:01
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PSI-BLAST at SIB (protein query sequence against protein database, low similarity, iterative process)

As yet this is untested.

psiBLAST finds regions of low similarity between peptides (Position-Specific Iterated BLAST).
Computations are done on the Vital-IT cluster (SIB).
Most NCBI BLAST (2.2.17) options are available.
Most SIB databases are available: Uniprot, UniRef, organism proteomes, refseq protein, nrl3D, ...

INPUT: protein sequence(s) + choose a database
OUTPUT: BLAST output

Submitted by smoretti on Tue, 11/04/2008 - 11:57
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