URL: http://vkcdb.biology.ualberta.ca/
Proper Citation: VKCDB - Voltage-gated K Channel Database (RRID:SCR_013489)
Description: Voltage-gated potassium channel database (VKCDB) is designed to serve as a resource for research on voltage-gated potassium channels. Protein sequences, references, functional data and many other relevant data are included in this database. Mysql is used as the underlying database management system to meet the requirements of future development plans. VKCDB will allow you to browse and search using different annotation criteria, and search against the sequences in VKCDB with VKCBLAST. Displayed entries can be selected to download as multiple sequences in FASTA format for further analyses, such as ClustalW alignment. Several computational tools are being developed to help guide structure function analysis of voltage-gated potassium channels and other protein families in general. VKCDB currently stores 346 voltage-gated potassium channel entries, including some "unknown proteins" annotated by automatic genome annotation projects which share a high degree of sequence similarity with voltage-gated potassium channels. VKCDB was populated using automatic parsing of BLASTP search output. Entries were checked manually for redundancy, sequence conflicts, and isoforms, and they are hyperlinked to their variant entries as well as to entries with sequence conflicts. All entries contain GenBank annotations and Swissprot annotations if available. Current annotations were updated with Swissprot release 43.1 (Apr 2004) and GenBank as of Apr 2004. The snapshot version 3 of VKCDB in XML format as of Apr 2004 can be downloaded here. We collected available electrophysiological data and pharmacological data from over 200 journal articals and stored them in VKCDB. VKCDB is updated regularly from BLAST searches of new entries in GenBank and Swissprot. VKCBLAST are updated to include new sequences within a few days after new entries are added into VKCDB. Sequences of all VKCDB entries were sent to TMHMM and PHD for membrane domain prediction. Both results were parsed and linked to each VKCDB entry page. Multiple alignment of T1 and six transmembrane domains of Kv1-4 and KCNQ (Kv7) family are also presented here. VKCDB is a part of an ongoing high throughput voltage-gated potassium channel sequencing project in the laboratories of Dr. Warren J. Gallin and Dr. Andy N. Spencer at the University of Alberta, Canada.
Synonyms: VKCDB
Resource Type: data or information resource, database
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