<body>
<strong>PDB Sequence Fetcher</strong>
- <p>From Jalview 2.x.x a speciliased interface was introduced for
+ <p>From Jalview 2.9 a specialised interface was introduced for
fast and efficient discovery/retrieval of sequence data from the PDB
database. The introduced interface enables live querying of PDB data
on-the-fly thereby eliminating the need to memorise database accession
- or to cross-reference other bioinformatics websites before retrieving
- a sequence data in jalview. The underlying technology is provided by
+ or to manually cross-reference other bioinformatics websites before retrieving
+ sequence data in Jalview. The underlying technology is provided by
EBI and is based on Apache Solr which is a text based search engine.</p>
<p>
The PDB Sequence Fetcher interface can be opened by selecting <strong>PDB</strong>
</p>
<p>
<img src="pdbseqfetcher.png" align="left"
- alt="PDB sequence fetcher (introduced in Jalview 2.x.x)">
+ alt="PDB sequence fetcher (introduced in Jalview 2.9)">
</p>
- <strong>Searching the PDB Database</strong>
- <br> Once the interface is opened, typing in the search text box
- will execute a live query to the PDB database and display the results
- on-the-fly as seen in the screen-shot above. Use the drop-down menu to
- select a specific field to search by in the PDB database, the default
- option is
- <strong>'ALL'</strong>. Furthermore, the PDB search interface also
- provides the following functionalities:
+ <p><strong>Searching the PDB Database</strong></p>
+ <p>When the interface is opened, a live query to the PDB database is
+ executed every time a character is typed into the search text box, and
+ a result is displayed on-the-fly as seen in the screenshot above.</p>
+
+ <p>Use the drop-down menu to select a specific field to search by in the PDB database, the default
+ option is <strong>'ALL'</strong>.</p>
+
+ <p> Furthermore, the PDB search interface also provides the following functionalities:</p>
<ul>
<li>Retrieving a unique chain for a PDB entry: <br>To
retrieve a specific chain for a PDB entry, append the PDB ID with a
<p>
<strong>Importing Sequence</strong><br> After querying the PDB
database, to import the found data into Jalview, select the entries
- you wish to import then click the ok button at the bottom of the
+ you wish to import then click the 'Ok' button at the bottom of the
interface.
</p>
<p>
<em>The PDB Sequence Fetcher interface was introduced in Jalview
- 2.x.x.</em>
+ 2.9</em>
</p>
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