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PR01582

Identifier
KV33CHANNEL  [View Relations]  [View Alignment]  
Accession
PR01582
No. of Motifs
6
Creation Date
11-SEP-2001
Title
Kv3.3 voltage-gated K+ channel signature
Database References
PRINTS; PR00169 KCHANNEL; PR01491 KVCHANNEL; PR01498 SHAWCHANNEL
Literature References
1. MILLER, C.
An overview of the potassium channel family.
GENOME BIOL. 1(4) 1-5 (2000).
 
2. ASHCROFT, F.M.
Voltage-gated K+ channels.
IN ION CHANNELS AND DISEASE, ACADEMIC PRESS, 2000, PP.97-123.
 
3. SANSOM, M.S.
Putting the parts together.
CURR.BIOL. 9(19) R738-R741 (1999).   
 
4. CONLEY, E.C. AND BRAMMAR, W.J.
Shaw.
IN THE ION CHANNEL FACTSBOOK, VOLUME IV, ACADEMIC PRESS, 1999, PP.559-614. 

Documentation
Potassium ion (K+) channels are a structurally diverse group of proteins
that facilitate the flow of K+ ions across cell membranes. They are
ubiquitous, being present in virtually all cell types. Activation of K+
channels tends to hyperpolarise cells, reducing the membrane's electrical
resistance, dampening nervous activity. In eukaryotic cells, K+ channels
are involved in neural signalling and generation of the cardiac rhythm, and
act as effectors in signal transduction pathways involving G protein-
coupled receptors (GPCRs). In prokaryotic cells, they play a role in the
maintenance of ionic homeostasis [1].
   
Structurally, Kv channels belong to the subfamily of K+ channels whose
subunits contain 6 transmembrane (TM) domains: these are the voltage-
gated K+ (Kv) channels, the KCNQ channels, the EAG-like K+ channels and
3 kinds of Ca2+-activated K+ channels (BK, IK and SK) [2]. All K+
channels share a characteristic sequence feature: a TMxTVGYG motif
that resides between the 2 C-terminal membrane spanning helices, and
forms the K+-selective pore domain [1-2].
 
The Kv family can be divided into 4 subfamilies on the basis of sequence
similarity and function: Shaker (Kv1), Shab (Kv2), Shaw (Kv3) and Shal 
(Kv4). All consist of pore-forming alpha subunits that associate with 
different types of beta subunit. To form a functional K+ channel pore,
4 alpha subunits and 4 beta subunits are required. The alpha subunits
have 6 well-conserved TM domains, a pore loop region and variable length
N- and C-termini. TM domains 5 and 6, and the loop region, form the K+ 
channel pore through which the K+ ions pass [3]. 
 
The shaw gene was first isolated from Drosophila. Several vertebrate K+
channels with similar amino acid sequences were subsequently found and,
together with the Drosophila Shaw channel, now constitute the Shaw (Kv3)
family. These channels are thought to play a role in shortening of action
potential durations and modulating pre-synaptic neurotransmitter release.
In mammals, the family consists of 4 genes (Kv3.1, Kv3.2, Kv3.3 and Kv3.4).
Each gene product has its own subcellular location and function [4].
 
Kv3.3 channels are evenly distributed over the soma and proximal apical
dendrites. They have also been found in the lens epithelium, corneal
endothelium, cerebellar cells and the deep cerebellar nuclei. When
co-expressed with NADPH oxidase, they function as an oxygen sensor complex
in airway chemoreceptors [4].
 
KV33CHANNEL is a 6-element fingerprint that provides a signature for the
Kv3.3 voltage-gated K+ channel. The fingerprint was derived from an initial
alignment of 3 sequences: the motifs were drawn from conserved regions
spanning the full alignment length - motifs 1-4 lie in the N-terminus; motif
5 is located in the first putative TM domain; and motif 6 is situated in the
C-terminus. A single iteration on SPTR39.22_17.3f was required to reach 
convergence, no further sequences being identified beyond the starting set.
Summary Information
3 codes involving  6 elements
0 codes involving 5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
6333333
5000000
4000000
3000000
2000000
123456
True Positives
CIKF_HUMAN    CIKF_MOUSE    CIKF_RAT      
Sequence Titles
CIKF_HUMAN  VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV3.3 (KSHIIID) - Homo sapiens (Human). 
CIKF_MOUSE VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV3.3 (KSHIIID) - Mus musculus (Mouse).
CIKF_RAT VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV3.3 (KSHIIID) - Rattus norvegicus (Rat).
Scan History
SPTR39.22_17.3f 1  125  NSINGLE    
Initial Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
MLSSVCVWSFRGCQG CIKF_MOUSE 1 1 -
MLSSVCVWSFSGRQG CIKF_RAT 1 1 -
MLSSVCVSSFRGRQG CIKF_HUMAN 1 1 -

Motif 2 width=15
Element Seqn Id St Int Rpt
LRPGGRRAEPCPGLP CIKF_MOUSE 60 44 -
CGPGGRRAEPCSGLP CIKF_RAT 61 45 -
RGPGGRRAEPCPGLP CIKF_HUMAN 59 43 -

Motif 3 width=14
Element Seqn Id St Int Rpt
ANAGGAHDAGLDDE CIKF_MOUSE 214 139 -
ANAGGAHDAGLDDE CIKF_RAT 215 139 -
ANAAGAHDGGLDDE CIKF_HUMAN 214 140 -

Motif 4 width=16
Element Seqn Id St Int Rpt
GGGGLDGAGGELKRLC CIKF_MOUSE 231 3 -
GGGGLDGAGGELKRLC CIKF_RAT 232 3 -
GGGGLDGAGGELKRLC CIKF_HUMAN 231 3 -

Motif 5 width=14
Element Seqn Id St Int Rpt
TVTQASPIPGAPPE CIKF_MOUSE 322 75 -
TVTQASPIPGAPPE CIKF_RAT 323 75 -
TVTQASPIPGAPPE CIKF_HUMAN 322 75 -

Motif 6 width=17
Element Seqn Id St Int Rpt
PDPPPPPPPHPHHGSGG CIKF_MOUSE 577 241 -
PDPPPPPPPHPHHGSGG CIKF_RAT 578 241 -
PDPPPPPPPHPHHGSGG CIKF_HUMAN 577 241 -
Final Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
MLSSVCVWSFRGCQG CIKF_MOUSE 1 1 -
MLSSVCVWSFSGRQG CIKF_RAT 1 1 -
MLSSVCVSSFRGRQG CIKF_HUMAN 1 1 -

Motif 2 width=15
Element Seqn Id St Int Rpt
LRPGGRRAEPCPGLP CIKF_MOUSE 60 44 -
CGPGGRRAEPCSGLP CIKF_RAT 61 45 -
RGPGGRRAEPCPGLP CIKF_HUMAN 59 43 -

Motif 3 width=14
Element Seqn Id St Int Rpt
ANAGGAHDAGLDDE CIKF_MOUSE 214 139 -
ANAGGAHDAGLDDE CIKF_RAT 215 139 -
ANAAGAHDGGLDDE CIKF_HUMAN 214 140 -

Motif 4 width=16
Element Seqn Id St Int Rpt
GGGGLDGAGGELKRLC CIKF_MOUSE 231 3 -
GGGGLDGAGGELKRLC CIKF_RAT 232 3 -
GGGGLDGAGGELKRLC CIKF_HUMAN 231 3 -

Motif 5 width=14
Element Seqn Id St Int Rpt
TVTQASPIPGAPPE CIKF_MOUSE 322 75 -
TVTQASPIPGAPPE CIKF_RAT 323 75 -
TVTQASPIPGAPPE CIKF_HUMAN 322 75 -

Motif 6 width=17
Element Seqn Id St Int Rpt
PDPPPPPPPHPHHGSGG CIKF_MOUSE 577 241 -
PDPPPPPPPHPHHGSGG CIKF_RAT 578 241 -
PDPPPPPPPHPHHGSGG CIKF_HUMAN 577 241 -