X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=help%2Fhtml%2FwebServices%2Fdbreffetcher.html;fp=help%2Fhtml%2FwebServices%2Fdbreffetcher.html;h=83c80badabd0f6dffb04db83b526132bbccd63f9;hb=7d67fb613ec026dc9a265e351e7fab542e3f1d61;hp=e919f3f356e92bd097c5da4d03556386136faf72;hpb=02e38bb826828ab2991584cf4b737c0138cb6c44;p=jalview.git diff --git a/help/html/webServices/dbreffetcher.html b/help/html/webServices/dbreffetcher.html index e919f3f..83c80ba 100644 --- a/help/html/webServices/dbreffetcher.html +++ b/help/html/webServices/dbreffetcher.html @@ -25,13 +25,15 @@

Discovering Database References for Sequences
- Database references are associated with a sequence are displayed as a - list in the tooltip shown when mousing over its sequence ID. Jalview - uses references for the retrieval of PDB structures and DAS - features, and for retrieving sequence cross-references such as the - protein products of a DNA sequence. + Database references associated with a sequence are displayed as an + abbreviated list in the tooltip shown when mousing over its sequence + ID, and can be viewed in full via the + Sequence Details window. . + Jalview also uses references for the retrieval of + PDB structures and DAS features, and for + retrieving sequence cross-references such as the protein products of a + DNA sequence.

Initiating reference retrieval
The @@ -64,13 +66,13 @@

The Sequence Identification Process
The method of accession id discovery is derived from the method which - earlier Jalview versions used for Uniprot sequence feature retrieval, - and was originally restricted to the identification of valid Uniprot + earlier Jalview versions used for UniProt sequence feature retrieval, + and was originally restricted to the identification of valid UniProt accessions.
Essentially, Jalview will try to retrieve records from a subset of the databases accessible by the sequence fetcher using each sequence's ID string (or each string in - the ID separated by the '∣' symbol). + href="../features/seqfetch.html">sequence fetcher using each + sequence's ID string (or each string in the ID separated by the + '∣' symbol).

If a record (or set of records) is retrieved by any query derived from the ID string of a sequence, then the sequence is aligned to the