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PR01511

Identifier
KV14CHANNEL  [View Relations]  [View Alignment]  
Accession
PR01511
No. of Motifs
7
Creation Date
19-JUN-2001
Title
Kv1.4 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].  
 
Kv1.4 channels are found in similar regions to Kv1.1 channels. They are
particularly targeted to axons and possibly terminals, suggesting a
pre-synaptic role in synaptic transmission [5].
 
KV14CHANNEL is a 7-element fingerprint that provides a signature for the
Kv1.4 voltage-gated K+ channel. The fingerprint was derived from an initial
alignment of 6 sequences: the motifs were drawn from conserved regions 
spanning the N-terminal portion of the alignment - motifs 1-6 reside at the
N-terminus; and motif 7 lies between the putative first and second TM 
domains. A single iteration on SPTR39_15f was required to reach convergence,
no further sequences being identified beyond the starting set. A single
partial match was found, Q9VXM5, the CG9056 protein from Drosophila
melanogaster, a member of the Shaker family that matches motifs 1 and 3.
Summary Information
   7 codes involving  7 elements
0 codes involving 6 elements
0 codes involving 5 elements
0 codes involving 4 elements
0 codes involving 3 elements
1 codes involving 2 elements
Composite Feature Index
77777777
60000000
50000000
40000000
30000000
21010000
1234567
True Positives
CIK4_BOVIN    CIK4_HUMAN    CIK4_MOUSE    CIK4_MUSPF    
CIK4_RAT Q9PWM8 Q9YGX8
True Positive Partials
Codes involving 2 elements
Q9VXM5
Sequence Titles
CIK4_BOVIN  VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV1.4 (BAK4) - Bos taurus (Bovine). 
CIK4_HUMAN VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV1.4 (HK1) (HPCN2) (HBK4) (HUKII) - Homo sapiens (Human).
CIK4_MOUSE VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV1.4 - Mus musculus (Mouse).
CIK4_MUSPF VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV1.4 (FK1) - Mustela putorius furo (Ferret).
CIK4_RAT VOLTAGE-GATED POTASSIUM CHANNEL PROTEIN KV1.4 (RCK4) (RHK1) (RK4) - Rattus norvegicus (Rat).
Q9PWM8 POTASSIUM CHANNEL SHAKER ALPHA SUBUNIT VARIANT CKV1.4(M) - Gallus gallus (Chicken).
Q9YGX8 POTASSIUM CHANNEL SHAKER CKV1.4 - Gallus gallus (Chicken).

Q9VXM5 CG9056 PROTEIN - Drosophila melanogaster (Fruit fly).
Scan History
SPTR39_15f 1  100  NSINGLE    
Initial Motifs
Motif 1  width=13
Element Seqn Id St Int Rpt
MEVAMVSAESSGC CIK4_MOUSE 1 1 -
MEVAMVSAESSGC CIK4_MUSPF 1 1 -
MEVAMVSAESSGC CIK4_HUMAN 1 1 -
MEVAMVSAESSGC CIK4_BOVIN 1 1 -
MEVAMVSADSSGC Q9YGX8 1 1 -

Motif 2 width=7
Element Seqn Id St Int Rpt
SHMPYGY CIK4_MOUSE 15 1 -
SHMPYGY CIK4_MUSPF 15 1 -
SHMPYGY CIK4_HUMAN 15 1 -
SHMPYGY CIK4_BOVIN 15 1 -
SHMPYGY Q9YGX8 15 1 -

Motif 3 width=15
Element Seqn Id St Int Rpt
AQARARERERLAHSR CIK4_MOUSE 23 1 -
AQARARERERLAHSR CIK4_MUSPF 23 1 -
AQARARERERLAHSR CIK4_HUMAN 23 1 -
AQARARERERLAHSR CIK4_BOVIN 23 1 -
VQARARERERLAQSR Q9YGX8 23 1 -

Motif 4 width=11
Element Seqn Id St Int Rpt
AAAAAAVAAAT CIK4_MOUSE 38 0 -
AAAAAAVAAAT CIK4_MUSPF 38 0 -
RAAARAVAAAT CIK4_HUMAN 38 0 -
AAAAAAVAAAT CIK4_BOVIN 38 0 -
AAAAAAVAAAT Q9YGX8 38 0 -

Motif 5 width=10
Element Seqn Id St Int Rpt
VEGTGGSGGG CIK4_MOUSE 51 2 -
VEGSGGSGGG CIK4_MUSPF 51 2 -
VEGSGGSGGG CIK4_HUMAN 51 2 -
VEGGGGSGGS CIK4_BOVIN 51 2 -
VEGGATGGGG Q9YGX8 51 2 -

Motif 6 width=15
Element Seqn Id St Int Rpt
GSEEKILRELSEEEE CIK4_MOUSE 112 51 -
GSEEKILRELSEEEE CIK4_MUSPF 112 51 -
GSEEKILRELSEEEE CIK4_HUMAN 112 51 -
GSEEKILRDLSEEDE CIK4_BOVIN 112 51 -
GSEERILKDVSEEEE Q9YGX8 124 63 -

Motif 7 width=13
Element Seqn Id St Int Rpt
PHLENSGHTIFND CIK4_MOUSE 358 231 -
PHLENSGHTIFND CIK4_MUSPF 358 231 -
PHLENSGHTIFND CIK4_HUMAN 357 230 -
PHPENSGHTIFND CIK4_BOVIN 365 238 -
LHLDDGEHTIFND Q9YGX8 369 230 -
Final Motifs
Motif 1  width=13
Element Seqn Id St Int Rpt
MEVAMVSAESSGC CIK4_MOUSE 1 1 -
MEVAMVSAESSGC CIK4_RAT 1 1 -
MEVAMVSAESSGC CIK4_MUSPF 1 1 -
MEVAMVSAESSGC CIK4_HUMAN 1 1 -
MEVAMVSAESSGC CIK4_BOVIN 1 1 -
MEVAMVSADSSGC Q9PWM8 1 1 -
MEVAMVSADSSGC Q9YGX8 1 1 -

Motif 2 width=7
Element Seqn Id St Int Rpt
SHMPYGY CIK4_MOUSE 15 1 -
SHMPYGY CIK4_RAT 15 1 -
SHMPYGY CIK4_MUSPF 15 1 -
SHMPYGY CIK4_HUMAN 15 1 -
SHMPYGY CIK4_BOVIN 15 1 -
SHMPYGY Q9PWM8 15 1 -
SHMPYGY Q9YGX8 15 1 -

Motif 3 width=15
Element Seqn Id St Int Rpt
AQARARERERLAHSR CIK4_MOUSE 23 1 -
AQARARERERLAHSR CIK4_RAT 23 1 -
AQARARERERLAHSR CIK4_MUSPF 23 1 -
AQARARERERLAHSR CIK4_HUMAN 23 1 -
AQARARERERLAHSR CIK4_BOVIN 23 1 -
VQARARERERLAQSR Q9PWM8 23 1 -
VQARARERERLAQSR Q9YGX8 23 1 -

Motif 4 width=11
Element Seqn Id St Int Rpt
AAAAAAVAAAT CIK4_MOUSE 38 0 -
AAAAAAVAAAT CIK4_RAT 38 0 -
AAAAAAVAAAT CIK4_MUSPF 38 0 -
RAAARAVAAAT CIK4_HUMAN 38 0 -
AAAAAAVAAAT CIK4_BOVIN 38 0 -
AAAAAAVAAAT Q9PWM8 38 0 -
AAAAAAVAAAT Q9YGX8 38 0 -

Motif 5 width=10
Element Seqn Id St Int Rpt
VEGTGGSGGG CIK4_MOUSE 51 2 -
VEGTGGSGGG CIK4_RAT 51 2 -
VEGSGGSGGG CIK4_MUSPF 51 2 -
VEGSGGSGGG CIK4_HUMAN 51 2 -
VEGGGGSGGS CIK4_BOVIN 51 2 -
VEGGATGGGG Q9PWM8 51 2 -
VEGGATGGGG Q9YGX8 51 2 -

Motif 6 width=15
Element Seqn Id St Int Rpt
GSEEKILRELSEEEE CIK4_MOUSE 112 51 -
GSEEKILRELSEEEE CIK4_RAT 113 52 -
GSEEKILRELSEEEE CIK4_MUSPF 112 51 -
GSEEKILRELSEEEE CIK4_HUMAN 112 51 -
GSEEKILRDLSEEDE CIK4_BOVIN 112 51 -
GSEERILKDVSEEEE Q9PWM8 124 63 -
GSEERILKDVSEEEE Q9YGX8 124 63 -

Motif 7 width=13
Element Seqn Id St Int Rpt
PHLENSGHTIFND CIK4_MOUSE 358 231 -
PHLENSGHTIFND CIK4_RAT 359 231 -
PHLENSGHTIFND CIK4_MUSPF 358 231 -
PHLENSGHTIFND CIK4_HUMAN 357 230 -
PHPENSGHTIFND CIK4_BOVIN 365 238 -
LHLDDGEHTIFND Q9PWM8 369 230 -
LHLDDGEHTIFND Q9YGX8 369 230 -