WORKLIST ENTRIES (1):
KV9CHANNEL View alignment Kv9 potassium channel alpha subunit signature
Type of fingerprint: COMPOUND with 7 elements
Links:
PRINTS; PR00169 KCHANNEL; PR01491 KVCHANNEL; PR01495 SHABCHANNEL
PRINTS; PR01496 SHAKERCHANEL; PR01497 SHALCHANNEL; PR01498 SHAWCHANNEL
PRINTS; PR01492 KV6CHANNEL; PR01493 KV8CHANNEL
Creation date 15-MAR-2001
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. SALINAS, M., DUPRAT, F., HEURTEAUX, C., HUGNOT, J-P. AND LAZDUNSKI, M.
New modulatory alpha subunits for mammalian shab K+ channels.
J.BIOL.CHEM. 272(39) 24371-24379 (1997).
5. SHEPARD, A.R. AND RAE, J.L.
Electrically silent potassium channel subunits from human lens epithelium.
AM.J.PHYSIOL. 277 C412-C424 (1999).
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].
More recently, 4 new electrically-silent alpha subunits have been cloned:
Kv5 (KCNF), Kv6 (KCNG), Kv8 and Kv9 (KCNS). These subunits do not themselves
possess any functional activity, but appear to form heteromeric channels
with Kv2 subunits, and thus modulate Shab channel activity [4]. When highly
expressed, they inhibit channel activity, but at lower levels show more
specific modulatory actions. Coexpression of Kv9 subunits with Shab subunits
produces a shift in the voltage-dependence of channel inactivation toward
more negative potentials [4]. In addition, Shab channel deactivation and
inactivation are slowed, and the single channel conductance is increased [5].
KV9CHANNEL is a 7-element fingerprint that provides a signature for the Kv9
potassium channel alpha subunits. The fingerprint was derived from an
initial alignment of 6 sequences: the motifs were drawn from conserved
regions spanning virtually the full alignment length - motifs 1-5 reside
within the N-terminal cytoplasmic domain; motif 6 spans TM domain 1; and
motif 7 encodes TM domain 6. Two iterations on SPTR39_15f were required to
reach convergence, at which point a true set comprising 8 sequences was
identified.
SUMMARY INFORMATION
8 codes involving 7 elements
0 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 FINGERPRINT INDEX
7| 8 8 8 8 8 8 8
6| 0 0 0 0 0 0 0
5| 0 0 0 0 0 0 0
4| 0 0 0 0 0 0 0
3| 0 0 0 0 0 0 0
2| 0 0 0 0 0 0 0
--+------------------------------------
| 1 2 3 4 5 6 7
True positives..
O43651 Q9TT17 O88759 O54900
O43652 O88758 O35173 O35174
PROTEIN TITLES
O43651 SHAB-RELATED DELAYED-RECTIFIER K+ CHANNEL ALPHA SUBUNIT - Ho
Q9TT17 VOLTAGE-GATED DELAYED-RECTIFIER POTASSIUM CHANNEL KV9.3 - Or
O88759 POTASSIUM CHANNEL, ALPHA SUBUNIT - Rattus norvegicus (Rat).
O54900 SHAB-RELATED DELAYED-RECTIFIER K+ CHANNEL - Rattus norvegicu
O43652 DELAYED-RECTIFIER K+ CHANNEL ALPHA SUBUNIT - Homo sapiens (H
O88758 POTASSIUM CHANNEL, ALPHA SUBUNIT - Rattus norvegicus (Rat).
O35173 K+ VOLTAGE-GATED CHANNEL, SUBFAMILY S, 1 (POTASSIUM CHANNEL
O35174 K+ VOLTAGE-GATED CHANNEL, SUBFAMILY S, 2 (POTASSIUM CHANNEL
SCAN HISTORY
SPTR39_15f 2 8 NSINGLE
INITIAL MOTIF SETS
KV9CHANNEL1 Length of motif = 13 Motif number = 1
Kv9 potassium channel alpha subunit motif I - 1
PCODE ST INT
NVGGVRRLLSARA O35173 24 24
NVGGVRRLLSARA O88758 24 24
NVGGVRRQLSARA O43652 55 55
NVGGFKRRLRSHT O35174 22 22
NVGGFKQSVDQST O54900 20 20
NVGGFKQSVDQST O43651 20 20
KV9CHANNEL2 Length of motif = 17 Motif number = 2
Kv9 potassium channel alpha subunit motif II - 1
PCODE ST INT
RFPGTRLGRLQAAASEE O35173 39 2
RFPGTRLGRLQAAVSEE O88758 39 2
RFPGTRLGRLQAAASEE O43652 70 2
RFPETRLGRLLLCHSRE O35174 37 2
RFPHTRLGKLLTCHSEE O54900 35 2
RFPHTRLGKLLTCHSEE O43651 35 2
KV9CHANNEL3 Length of motif = 14 Motif number = 3
Kv9 potassium channel alpha subunit motif III - 1
PCODE ST INT
DDYDAAAHEFYFDR O35173 62 6
DDYDAAAREFYFDR O88758 62 6
DDYDEAAREFYFDR O43652 93 6
DDYDDVQREFYFDR O35174 60 6
DDYSVADKEYYFDR O54900 58 6
DDYSVADKEYYFDR O43651 58 6
KV9CHANNEL4 Length of motif = 16 Motif number = 4
Kv9 potassium channel alpha subunit motif IV - 1
PCODE ST INT
FYRTGHLHVLDELCVF O35173 86 10
FYRTGHLHVLDELCVF O88758 86 10
FYRTGHLHVLDELCVF O43652 117 10
FYHTGKLHVMAELCVF O35174 84 10
FYYTGKLHVMEELCVF O54900 82 10
FYYTGKLHVMEELCVF O43651 82 10
KV9CHANNEL5 Length of motif = 13 Motif number = 5
Kv9 potassium channel alpha subunit motif V - 1
PCODE ST INT
YWGLGENALATCC O35173 109 7
YWGLGENALATCC O88758 109 7
YWGLGENALAACC O43652 140 7
YWGINEFFIDSCC O35174 107 7
YWGINELFFDSCC O54900 105 7
YWGINELFIDSCC O43651 105 7
KV9CHANNEL6 Length of motif = 13 Motif number = 6
Kv9 potassium channel alpha subunit motif VI - 1
PCODE ST INT
SIGVVLASIAAMC O35173 195 73
SIGVVLASIAAMC O88758 195 73
SISVVLASIAAMC O43652 226 73
SILVVLGSIITMC O35174 193 73
SLSVVLASIVAMC O54900 191 73
SLSVVLASIVAMC O43651 191 73
KV9CHANNEL7 Length of motif = 19 Motif number = 7
Kv9 potassium channel alpha subunit motif VII - 1
PCODE ST INT
GGILVVALPITIIFNKFSH O35173 415 207
GGILVVALPITIIFNKFSH O88758 415 207
GGILVVALPITIIFNKFSH O43652 444 205
AGILVVVLPITLIFNKFSH O35174 397 191
CGILVVALPITIIFNKFSK O54900 393 189
CGILVVALPITIIFNKFSK O43651 393 189
FINAL MOTIF SETS
KV9CHANNEL1 Length of motif = 13 Motif number = 1
Kv9 potassium channel alpha subunit motif I - 2
PCODE ST INT
NVGGFKQSVDQST O43651 20 20
NVGGFKQSVDQST Q9TT17 20 20
NVGGFKQSVDQST O88759 20 20
NVGGFKQSVDQST O54900 20 20
NVGGVRRQLSARA O43652 55 55
NVGGVRRLLSARA O88758 24 24
NVGGVRRLLSARA O35173 24 24
NVGGFKRRLRSHT O35174 22 22
KV9CHANNEL2 Length of motif = 17 Motif number = 2
Kv9 potassium channel alpha subunit motif II - 2
PCODE ST INT
RFPHTRLGKLLTCHSEE O43651 35 2
RFPHTRLGKLLTCHSEE Q9TT17 35 2
RFPHTRLGKLLTCHSEE O88759 35 2
RFPHTRLGKLLTCHSEE O54900 35 2
RFPGTRLGRLQAAASEE O43652 70 2
RFPGTRLGRLQAAVSEE O88758 39 2
RFPGTRLGRLQAAASEE O35173 39 2
RFPETRLGRLLLCHSRE O35174 37 2
KV9CHANNEL3 Length of motif = 14 Motif number = 3
Kv9 potassium channel alpha subunit motif III - 2
PCODE ST INT
DDYSVADKEYYFDR O43651 58 6
DDYSVADKEYYFDR Q9TT17 58 6
DDYSVADKEYYFDR O88759 58 6
DDYSVADKEYYFDR O54900 58 6
DDYDEAAREFYFDR O43652 93 6
DDYDAAAREFYFDR O88758 62 6
DDYDAAAHEFYFDR O35173 62 6
DDYDDVQREFYFDR O35174 60 6
KV9CHANNEL4 Length of motif = 16 Motif number = 4
Kv9 potassium channel alpha subunit motif IV - 2
PCODE ST INT
FYYTGKLHVMEELCVF O43651 82 10
FYYTGKLHVMEELCVF Q9TT17 82 10
FYYTGKLHVMEELCVF O88759 82 10
FYYTGKLHVMEELCVF O54900 82 10
FYRTGHLHVLDELCVF O43652 117 10
FYRTGHLHVLDELCVF O88758 86 10
FYRTGHLHVLDELCVF O35173 86 10
FYHTGKLHVMAELCVF O35174 84 10
KV9CHANNEL5 Length of motif = 13 Motif number = 5
Kv9 potassium channel alpha subunit motif V - 2
PCODE ST INT
YWGINELFIDSCC O43651 105 7
YWGINELFIDSCC Q9TT17 105 7
YWGINELFIDSCC O88759 105 7
YWGINELFFDSCC O54900 105 7
YWGLGENALAACC O43652 140 7
YWGLGENALATCC O88758 109 7
YWGLGENALATCC O35173 109 7
YWGINEFFIDSCC O35174 107 7
KV9CHANNEL6 Length of motif = 13 Motif number = 6
Kv9 potassium channel alpha subunit motif VI - 2
PCODE ST INT
SLSVVLASIVAMC O43651 191 73
SLSVVLASIVAMC Q9TT17 191 73
SLSVVLASIVAMC O88759 191 73
SLSVVLASIVAMC O54900 191 73
SISVVLASIAAMC O43652 226 73
SIGVVLASIAAMC O88758 195 73
SIGVVLASIAAMC O35173 195 73
SILVVLGSIITMC O35174 193 73
KV9CHANNEL7 Length of motif = 19 Motif number = 7
Kv9 potassium channel alpha subunit motif VII - 2
PCODE ST INT
CGILVVALPITIIFNKFSK O43651 393 189
CGILVVALPITIIFNKFSK Q9TT17 393 189
CGILVVALPITIIFNKFSK O88759 393 189
CGILVVALPITIIFNKFSK O54900 393 189
GGILVVALPITIIFNKFSH O43652 444 205
GGILVVALPITIIFNKFSH O88758 415 207
GGILVVALPITIIFNKFSH O35173 415 207
AGILVVVLPITLIFNKFSH O35174 397 191
User query: Display/Full Code "KV9CHANNEL"