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PR01510

Identifier
KV13CHANNEL  [View Relations]  [View Alignment]  
Accession
PR01510
No. of Motifs
5
Creation Date
19-JUN-2001
Title
Kv1.3 voltage-gated K+ channel signature
Database References
PRINTS; PR00169 KCHANNEL; PR01491 KVCHANNEL; PR01496 SHAKERCHANEL
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. LITTLETON, J.T. AND GANETZKY, B.
Ion Channels and synaptic organisation: analysis of the Drosophila genome. 
NEURON 26 35-43 (2000).
 
5. CONLEY, E.C. AND BRAMMAR, W.J.
Shaker.
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 first Shaker (Kv1) sequence was found in Drosophila. Several vertebrate
K+ channels with similar amino acid sequences were subsequently found and,
together with the Drosophila Shaker channel, now constitute the Shaker (Kv1) 
family. These channels are mostly expressed in the brain, but can also be
found in non-excitable cells, such as lymphocytes [4,5].  
 
Kv1.3 subunits are expressed in T-lymphocytes, microglia and osteoclasts. 
In activated T-lymphocytes, they maintain the secretion of the lymphokine
IL-2. They are also believed to be responsible for the decrease in
regulatory volume in response to hypotonic shock, and a Kv1.3 homologue has
predicted roles in renal medullary K+ transport [5].
 
KV13CHANNEL is a 5-element fingerprint that provides a signature for the
Kv1.3 voltage-gated K+ channel. The fingerprint was derived from an initial
alignment of 4 sequences: the motifs were drawn from conserved regions
spanning the full alignment length - motifs 1-3 reside at the N-terminus;
motif 4 lies between the putative first and second TM domains; and motif 5
resides at the C-terminus. A single iteration on SPTR39_15f was required to
reach convergence, no further sequences being identified beyond the starting
set. 
Summary Information
4 codes involving  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
544444
400000
300000
200000
12345
True Positives
CIK3_HUMAN    CIK3_MOUSE    CIK3_RAT      Q28656        
Sequence Titles
CIK3_HUMAN  VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV1.3 (HPCN3) (HGK5) (HUKIII) (HLK3) - Homo sapiens (Human). 
CIK3_MOUSE VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV1.3 (MK3) - Mus musculus (Mouse).
CIK3_RAT VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV1.3 (RGK5) (RCK3) (KV3) - Rattus norvegicus (Rat).
Q28656 GLIBENCLAMIDE-SENSITIVE VOLTAGE-GATED POTASSIUM CHANNEL - Oryctolagus cuniculus (Rabbit).
Scan History
SPTR39_15f 1  50   NSINGLE    
Initial Motifs
Motif 1  width=19
Element Seqn Id St Int Rpt
MTVVPGDHLLEPEAAGGGG CIK3_MOUSE 1 1 -
MTVVPGDHLLEPEAAGGGG CIK3_RAT 1 1 -
MTVVPGDHLLEPEAADGGG Q28656 1 1 -
MTVVPGDHLLEPEVADGGG CIK3_HUMAN 1 1 -

Motif 2 width=8
Element Seqn Id St Int Rpt
CDRYEPLP CIK3_MOUSE 36 16 -
CDRYEPLP CIK3_RAT 33 13 -
CDRYEPLP Q28656 29 9 -
CDRYEPLP CIK3_HUMAN 31 11 -

Motif 3 width=13
Element Seqn Id St Int Rpt
AGEQDCCGERVVI CIK3_MOUSE 49 5 -
AGEQDCCGERVVI CIK3_RAT 46 5 -
AGEQECCGERVVI Q28656 37 0 -
AGEQDCCGERVVI CIK3_HUMAN 44 5 -

Motif 4 width=15
Element Seqn Id St Int Rpt
LCQFPETLLGDPKRR CIK3_MOUSE 75 13 -
LCQFPETLLGDPKRR CIK3_RAT 72 13 -
LCQFPETLLGDPKRR Q28656 63 13 -
LCQFPETLLGDPKRR CIK3_HUMAN 70 13 -

Motif 5 width=18
Element Seqn Id St Int Rpt
SQDVFEAANNSTSGAPSG CIK3_MOUSE 223 133 -
SQDVFEAANNSTSGASSG CIK3_RAT 220 133 -
SQDVVEAAGNGTSGAPAG Q28656 211 133 -
SQDSFEAAGNSTSGSRAG CIK3_HUMAN 218 133 -
Final Motifs
Motif 1  width=19
Element Seqn Id St Int Rpt
MTVVPGDHLLEPEAAGGGG CIK3_MOUSE 1 1 -
MTVVPGDHLLEPEAAGGGG CIK3_RAT 1 1 -
MTVVPGDHLLEPEAADGGG Q28656 1 1 -
MTVVPGDHLLEPEVADGGG CIK3_HUMAN 1 1 -

Motif 2 width=8
Element Seqn Id St Int Rpt
CDRYEPLP CIK3_MOUSE 36 16 -
CDRYEPLP CIK3_RAT 33 13 -
CDRYEPLP Q28656 29 9 -
CDRYEPLP CIK3_HUMAN 31 11 -

Motif 3 width=13
Element Seqn Id St Int Rpt
AGEQDCCGERVVI CIK3_MOUSE 49 5 -
AGEQDCCGERVVI CIK3_RAT 46 5 -
AGEQECCGERVVI Q28656 37 0 -
AGEQDCCGERVVI CIK3_HUMAN 44 5 -

Motif 4 width=15
Element Seqn Id St Int Rpt
LCQFPETLLGDPKRR CIK3_MOUSE 75 13 -
LCQFPETLLGDPKRR CIK3_RAT 72 13 -
LCQFPETLLGDPKRR Q28656 63 13 -
LCQFPETLLGDPKRR CIK3_HUMAN 70 13 -

Motif 5 width=18
Element Seqn Id St Int Rpt
SQDVFEAANNSTSGAPSG CIK3_MOUSE 223 133 -
SQDVFEAANNSTSGASSG CIK3_RAT 220 133 -
SQDVVEAAGNGTSGAPAG Q28656 211 133 -
SQDSFEAAGNSTSGSRAG CIK3_HUMAN 218 133 -