Mark: Created page with "Back to '''List of HMMs''' '''Symbol''': VSP_VSD '''Name''': VSP, voltage sensor domain === Why built the HMM? === Voltage sensing domain is a transmembrane domain ..."

2015-10-14T18:49:59Z

Created page with "Back to '''List of HMMs''' '''Symbol''': VSP_VSD '''Name''': VSP, voltage sensor domain === Why built the HMM? === Voltage sensing domain is a transmembrane domain ..."

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'''Symbol''': VSP_VSD

'''Name''': VSP, voltage sensor domain

=== Why built the HMM? ===
Voltage sensing domain is a transmembrane domain consists of four helix. There is no available profile in public database. The region is annotated as a part of much larger conserved region.

=== How the HMM is built ===
We PSI-BLASTed the region 65-230 of NP_954870.2, based upon the region defined in <cite>Sutton12</cite> which used 71-221. The hits included not only VSPs but also other ion channels. We then removed redundant sequences (threshold of sequence identity 70%), aligned them by Clustal Omega program, manually adjusted the alignment, built the HMM profile, and validated it by protein phosphatases of the nine genomes.

=== References ===
<biblio>
#Sutton12 pmid=22396523
</biblio>

HMM PD00154 - Revision history

Mark: Created page with "Back to '''List of HMMs''' '''Symbol''': VSP_VSD '''Name''': VSP, voltage sensor domain === Why built the HMM? === Voltage sensing domain is a transmembrane domain ..."