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PR01577

Identifier
KCNABCHANNEL  [View Relations]  [View Alignment]  
Accession
PR01577
No. of Motifs
6
Creation Date
13-SEP-2001
Title
KCNAB voltage-gated K+ channel beta subunit family signature
Database References
PRINTS; PR01578 KCNAB1CHANEL; PR01579 KCNAB2CHANEL; PR01580 KCNAB3CHANEL
Literature References
1. MILLER, C.
An overview of the potassium channel family.
GENOME BIOL. 1(4) 1-5 (2000).
 
2. BAHRING, R., MILLIGAN, C.J., VARDANYAN, V., ENGELAND, B., YOUNG, B.A.,
DANNENBERG, J., WALDSCHUTZ, R., EDWARDS, J.P., WRAY, D. AND PONGS, O.
Coupling of voltage-dependent potassium channel inactivation and
oxidoreductase active site of Kvbeta subunits.
J.BIOL.CHEM. 276 22923-22929 (2001).

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].
 
Some types of K+ channel are closed at the resting potential of the cell,
but open on membrane depolarisation, and are thus known as voltage-gated 
channels. Each of these types of channel typically comprises 4 pore-forming
alpha subunits that may associate with one of a number of different types of
beta subunit. Two types of beta subunit (KCNE and KCNAB) are presently known
to associate with voltage-gated alpha subunits (Kv, KCNQ and eag-like).
However, not all combinations of alpha and beta subunits are possible.
 
The KCNAB family of K+ channel beta subunits form tetramers arranged in
a similar manner to the pore forming alpha subunits. KCNAB subunits are
oxidoreductase enzymes, complete with nicotinamide (NADPH)-cofactors in 
their active sites. Changes in the oxidoreductase activity appear to 
markedly influence the gating mode of Kv channels, since mutations to the
catalytic residues in the active site lessen the inactivating activity of
KCNAB [2]. The KCNAB family is further divided into 3 subfamilies: KCNAB1
(Kvbeta3), KCNAB2 (Kvbeta2) and KCNAB3.
 
KCNABCHANNEL is a 6-element fingerprint that provides a signature for the
KCNAB voltage-gated K+ channel beta subunit family. The fingerprint was
derived from an initial alignment of 6 sequences: the motifs were drawn
from conserved regions spanning the C-terminal half of the alignment. Two
iterations on SPTR39.22_17.3f were required to reach convergence, at which
point a true set comprising 16 sequences was identified.
Summary Information
16 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
6161616161616
5000000
4000000
3000000
2000000
123456
True Positives
O43448        P97382        Q13303        Q14722        
Q27955 Q28528 Q63277 Q63494
Q64284 Q9D5E9 Q9DBZ4 Q9N0V9
Q9PTM4 Q9PTM5 Q9PWR1 Q9XT31
Sequence Titles
O43448      VOLTAGE-GATED POTASSIUM CHANNEL BETA-3 SUBUNIT - Homo sapiens (Human). 
P97382 VOLTAGE-GATED POTASSIUM CHANNEL BETA-3 SUBUNIT - Mus musculus (Mouse).
Q13303 VOLTAGE-GATED POTASSIUM CHANNEL BETA-2 SUBUNIT - Homo sapiens (Human).
Q14722 VOLTAGE-GATED POTASSIUM CHANNEL BETA-1 SUBUNIT - Homo sapiens (Human).
Q27955 VOLTAGE-GATED POTASSIUM CHANNEL BETA-2 SUBUNIT - Bos taurus (Bovine).
Q28528 VOLTAGE-GATED POTASSIUM CHANNEL BETA-1 SUBUNIT - Mustela putorius (European polecat).
Q63277 VOLTAGE-GATED POTASSIUM CHANNEL BETA-1 SUBUNIT - Mus musculus (Mouse), and Rattus norvegicus (Rat).
Q63494 VOLTAGE-GATED POTASSIUM CHANNEL BETA-3 SUBUNIT - Rattus norvegicus (Rat).
Q64284 VOLTAGE GATED POTASSIUM CHANNEL BETA-2 SUBUNIT - Mus musculus (Mouse), and Rattus norvegicus (Rat).
Q9D5E9 POTASSIUM VOLTAGE GATED CHANNEL, SHAKER RELATED SUBFAMILY, BETA MEMBER 1 - Mus musculus (Mouse).
Q9DBZ4 POTASSIUM VOLTAGE GATED CHANNEL, SHAKER RELATED SUBFAMILY, BETA MEMBER 1 - Mus musculus (Mouse).
Q9N0V9 VOLTAGE-GATED POTASSIUM CHANNEL BETA-2 SUBUNIT - Oryctolagus cuniculus (Rabbit).
Q9PTM4 VOLTAGE-GATED POTASSIUM CHANNEL BETA-1 SUBUNIT - Xenopus laevis (African clawed frog).
Q9PTM5 VOLTAGE-GATED POTASSIUM CHANNEL BETA-2 SUBUNIT - Xenopus laevis (African clawed frog).
Q9PWR1 VOLTAGE-GATED POTASSIUM CHANNEL BETA-1 SUBUNIT - Gallus gallus (Chicken).
Q9XT31 VOLTAGE-GATED POTASSIUM CHANNEL BETA-1 SUBUNIT - Oryctolagus cuniculus (Rabbit).
Scan History
SPTR39.22_17.3f 2  19   NSINGLE    
Initial Motifs
Motif 1  width=11
Element Seqn Id St Int Rpt
RLQLEYVDVVF Q9PWR1 180 180 -
RLQLEYVDVVF Q63277 180 180 -
RLQLEYVDVVF Q64284 146 146 -
RLQLEYVDVVF Q9N0V9 146 146 -
RLQLEYVDIVF P97382 32 32 -
RLQLEYVDIVF Q63494 187 187 -

Motif 2 width=20
Element Seqn Id St Int Rpt
EAYSVARQFNLIPPVCEQAE Q9PWR1 231 40 -
EAYSVARQFNMIPPVCEQAE Q63277 231 40 -
EAYSVARQFNLIPPICEQAE Q64284 197 40 -
EAYSVARQFNLIPPICEQAE Q9N0V9 197 40 -
EAYSMARQFNLIPPVCEQAE P97382 83 40 -
EAYSMARQFNLIPPVCEQAE Q63494 238 40 -

Motif 3 width=7
Element Seqn Id St Int Rpt
TWSPLAC Q9PWR1 276 25 -
TWSPLAC Q63277 276 25 -
TWSPLAC Q64284 242 25 -
TWSPLAC Q9N0V9 242 25 -
TWSPLAC P97382 128 25 -
TWSPLAC Q63494 283 25 -

Motif 4 width=13
Element Seqn Id St Int Rpt
YQWLKEKIISEEG Q9PWR1 304 21 -
YQWLKERIVSEEG Q63277 304 21 -
YQWLKDKILSEEG Q64284 270 21 -
YQWLKDKILSEEG Q9N0V9 270 21 -
YQWLKEKVQSEEG P97382 156 21 -
YQWLKEKVQSEDG Q63494 311 21 -

Motif 5 width=13
Element Seqn Id St Int Rpt
AERLGCTLPQLAV Q9PWR1 330 13 -
AERLGCTLPQLAV Q63277 330 13 -
AERLGCTLPQLAI Q64284 296 13 -
AERLGCTLPQLAI Q9N0V9 296 13 -
ARQLGCTVGQLAI P97382 182 13 -
AHQLGCTVAQLAI Q63494 337 13 -

Motif 6 width=14
Element Seqn Id St Int Rpt
AWCLRNEGVSSVLL Q9PWR1 343 0 -
AWCLRNEGVSSVLL Q63277 343 0 -
AWCLRNEGVSSVLL Q64284 309 0 -
AWCLRNEGVSSVLL Q9N0V9 309 0 -
AWCLRSEGVSSVLL P97382 195 0 -
AWCLRSEGVSSVLL Q63494 350 0 -
Final Motifs
Motif 1  width=11
Element Seqn Id St Int Rpt
RLQLEYVDVVF Q9PWR1 180 180 -
RLQLEYVDVVF Q14722 198 198 -
RLQLEYVDVVF Q28528 187 187 -
RLQLEYVDVVF Q63277 180 180 -
RLQLEYVDVVF Q9D5E9 145 145 -
RLQLEYVDVVF Q9DBZ4 74 74 -
RLQLEYVDVVF Q9XT31 198 198 -
RLQLEYVDVVF Q27955 146 146 -
RLQLEYVDVVF Q64284 146 146 -
RLQLEYVDVVF Q9N0V9 146 146 -
RLQLEYVDVVF Q13303 146 146 -
RLQLDYVDVVF Q9PTM5 146 146 -
RLQLEYVDIVF P97382 32 32 -
RLQLEYVDIVF Q63494 187 187 -
RLQLDYVDIVF Q9PTM4 180 180 -
RLQLGYVDIVF O43448 187 187 -

Motif 2 width=20
Element Seqn Id St Int Rpt
EAYSVARQFNLIPPVCEQAE Q9PWR1 231 40 -
EAYSVARQFNMIPPVCEQAE Q14722 249 40 -
EAYSVARQFNMIPPVCEQAE Q28528 238 40 -
EAYSVARQFNMIPPVCEQAE Q63277 231 40 -
EAYSVARQFNMIPPVCEQAE Q9D5E9 196 40 -
EAYSVARQFNMIPPVCEQAE Q9DBZ4 125 40 -
EAYSVARQFNMIPPVCEQAE Q9XT31 249 40 -
EAYSVARQFNLIPPICEQAE Q27955 197 40 -
EAYSVARQFNLIPPICEQAE Q64284 197 40 -
EAYSVARQFNLIPPICEQAE Q9N0V9 197 40 -
EAYSVARQFNLTPPICEQAE Q13303 197 40 -
EAYSVARQFNLIPPICEQAE Q9PTM5 197 40 -
EAYSMARQFNLIPPVCEQAE P97382 83 40 -
EAYSMARQFNLIPPVCEQAE Q63494 238 40 -
EAYSVARQFNLIPPVCEQAE Q9PTM4 231 40 -
EAYSMARQFNLIPPVCEQAE O43448 238 40 -

Motif 3 width=7
Element Seqn Id St Int Rpt
TWSPLAC Q9PWR1 276 25 -
TWSPLAC Q14722 294 25 -
TWSPLAC Q28528 283 25 -
TWSPLAC Q63277 276 25 -
TWSPLAC Q9D5E9 241 25 -
TWSPLAC Q9DBZ4 170 25 -
TWSPLAC Q9XT31 294 25 -
TWSPLAC Q27955 242 25 -
TWSPLAC Q64284 242 25 -
TWSPLAC Q9N0V9 242 25 -
TWSPLAC Q13303 242 25 -
TWSPLAC Q9PTM5 242 25 -
TWSPLAC P97382 128 25 -
TWSPLAC Q63494 283 25 -
TWSPLAC Q9PTM4 276 25 -
TWYPLAC O43448 283 25 -

Motif 4 width=13
Element Seqn Id St Int Rpt
YQWLKEKIISEEG Q9PWR1 304 21 -
YQWLKERIVSEEG Q14722 322 21 -
YQWLKERIVSEEG Q28528 311 21 -
YQWLKERIVSEEG Q63277 304 21 -
YQWLKERIVSEEG Q9D5E9 269 21 -
YQWLKERIVSEEG Q9DBZ4 198 21 -
YQWLKERIVSEEG Q9XT31 322 21 -
YQWLKDKILSEEG Q27955 270 21 -
YQWLKDKILSEEG Q64284 270 21 -
YQWLKDKILSEEG Q9N0V9 270 21 -
YQWLKDKILSEEG Q13303 270 21 -
YQWLKDKILSEEG Q9PTM5 270 21 -
YQWLKEKVQSEEG P97382 156 21 -
YQWLKEKVQSEDG Q63494 311 21 -
YHWLKEKAISQEG Q9PTM4 304 21 -
YQWLKDKVQSEDG O43448 311 21 -

Motif 5 width=13
Element Seqn Id St Int Rpt
AERLGCTLPQLAV Q9PWR1 330 13 -
AERLGCTLPQLAV Q14722 348 13 -
AERLGCTLPQLAV Q28528 337 13 -
AERLGCTLPQLAV Q63277 330 13 -
AERLGCTLPQLAV Q9D5E9 295 13 -
AERLGCTLPQLAV Q9DBZ4 224 13 -
AERLGCTLPQLAV Q9XT31 348 13 -
AERLGCTLPQLAI Q27955 296 13 -
AERLGCTLPQLAI Q64284 296 13 -
AERLGCTLPQLAI Q9N0V9 296 13 -
AERLGCTLPQLAI Q13303 296 13 -
AERLGCTLPQLAI Q9PTM5 296 13 -
ARQLGCTVGQLAI P97382 182 13 -
AHQLGCTVAQLAI Q63494 337 13 -
ADRLNCTVTQLAI Q9PTM4 330 13 -
AHQLGCTVAQLAI O43448 337 13 -

Motif 6 width=14
Element Seqn Id St Int Rpt
AWCLRNEGVSSVLL Q9PWR1 343 0 -
AWCLRNEGVSSVLL Q14722 361 0 -
AWCLRNEGVSSVLL Q28528 350 0 -
AWCLRNEGVSSVLL Q63277 343 0 -
AWCLRNEGVSSVLL Q9D5E9 308 0 -
AWCLRNEGVSSVLL Q9DBZ4 237 0 -
AWCLRNEGVSSVLL Q9XT31 361 0 -
AWCLRNEGVSSVLL Q27955 309 0 -
AWCLRNEGVSSVLL Q64284 309 0 -
AWCLRNEGVSSVLL Q9N0V9 309 0 -
AWCLRNEGVSSVLL Q13303 309 0 -
AWCLRNEGVSSVLL Q9PTM5 309 0 -
AWCLRSEGVSSVLL P97382 195 0 -
AWCLRSEGVSSVLL Q63494 350 0 -
AWCLRSEGVSSVLL Q9PTM4 343 0 -
AWCLRSEGVSSVLL O43448 350 0 -