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PR01583

Identifier
KV34CHANNEL  [View Relations]  [View Alignment]  
Accession
PR01583
No. of Motifs
5
Creation Date
11-SEP-2001
Title
Kv3.4 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].
 
Kv3.4 channels are expressed in cells that surround the cerebellar Purkinje
cells. In the presence of protein kinase C, rapid inactivation is eliminated,
resulting in a non-inactivating delayed rectifying current. The implications
of this are seen for signal encoding in the central nervous system [4].
 
KV34CHANNEL is a 5-element fingerprint that provides a signature for the
Kv3.4 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; and 
motif 5 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  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
533333
400000
300000
200000
12345
True Positives
CIKG_HUMAN    CIKG_RAT      Q9H1V7        
Sequence Titles
CIKG_HUMAN  VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV3.4 (KSHIIIC) - Homo sapiens (Human). 
CIKG_RAT VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV3.4 (RAW3) - Rattus norvegicus (Rat).
Q9H1V7 DJ1003J2.3.1 (POTASSIUM VOLTAGE-GATED CHANNEL, SHAW-RELATED SUBFAMILY, MEMBER 4) - Homo sapiens (Human).
Scan History
SPTR39.22_17.3f 1  100  NSINGLE    
Initial Motifs
Motif 1  width=14
Element Seqn Id St Int Rpt
KPPSKTCLKEEMAK CIKG_HUMAN 18 18 -
KPPSKTCLKEEMAK Q9H1V7 18 18 -
KPPSKTCLKEEMAK CIKG_RAT 18 18 -

Motif 2 width=12
Element Seqn Id St Int Rpt
DPDGGGRPETDG CIKG_HUMAN 67 35 -
DPDGGGRPETDG Q9H1V7 67 35 -
DPDGGGRPESDG CIKG_RAT 67 35 -

Motif 3 width=12
Element Seqn Id St Int Rpt
DEAGDDERELAL CIKG_HUMAN 175 96 -
DEAGDDERELAL Q9H1V7 175 96 -
DEAGDDERELAL CIKG_RAT 176 97 -

Motif 4 width=17
Element Seqn Id St Int Rpt
RLGPHEGGAGHGAGSGG CIKG_HUMAN 188 1 -
RLGPHEGGAGHGAGSGG Q9H1V7 188 1 -
RLGPHEGGSGPGAGSGG CIKG_RAT 189 1 -

Motif 5 width=17
Element Seqn Id St Int Rpt
SEETSPRDSTCSDTSPP CIKG_HUMAN 510 305 -
SEETSPRDSTCSDTSPP Q9H1V7 510 305 -
SEETSPRDSTYSDTSPP CIKG_RAT 511 305 -
Final Motifs
Motif 1  width=14
Element Seqn Id St Int Rpt
KPPSKTCLKEEMAK CIKG_HUMAN 18 18 -
KPPSKTCLKEEMAK Q9H1V7 18 18 -
KPPSKTCLKEEMAK CIKG_RAT 18 18 -

Motif 2 width=12
Element Seqn Id St Int Rpt
DPDGGGRPETDG CIKG_HUMAN 67 35 -
DPDGGGRPETDG Q9H1V7 67 35 -
DPDGGGRPESDG CIKG_RAT 67 35 -

Motif 3 width=12
Element Seqn Id St Int Rpt
DEAGDDERELAL CIKG_HUMAN 175 96 -
DEAGDDERELAL Q9H1V7 175 96 -
DEAGDDERELAL CIKG_RAT 176 97 -

Motif 4 width=17
Element Seqn Id St Int Rpt
RLGPHEGGAGHGAGSGG CIKG_HUMAN 188 1 -
RLGPHEGGAGHGAGSGG Q9H1V7 188 1 -
RLGPHEGGSGPGAGSGG CIKG_RAT 189 1 -

Motif 5 width=17
Element Seqn Id St Int Rpt
SEETSPRDSTCSDTSPP CIKG_HUMAN 510 305 -
SEETSPRDSTCSDTSPP Q9H1V7 510 305 -
SEETSPRDSTYSDTSPP CIKG_RAT 511 305 -