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PR01578

Identifier
KCNAB1CHANEL  [View Relations]  [View Alignment]  
Accession
PR01578
No. of Motifs
4
Creation Date
12-SEP-2001
Title
KCNAB voltage-gated K+ channel beta-1 subunit signature
Database References
PRINTS; PR01577 KCNABCHANNEL
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).
 
3. GULBIS, J.M., MANN, S. AND MACKINNON, R.
Structure of a voltage-dependent potassium channel beta subunit.
CELL 97 943-952 (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.
 
KCNAB1 associates with Kv1.4 and Kv1.5 alpha subunits and appears to have 
an N-terminal sequence that is similar to the Kv1 channel inactivation gate.
Thus, when KCNAB1 subunits associate, their N-termini appear to be able to 
substitute for alpha subunit inactivation gates [3]. Three isoforms of 
KCNAB1 exist, which are produced by alternative splicing of the N-terminal
90 amino acids. KCNAB1 channels are expressed in brain (caudate nucleus,
hippocampus, amygdala, subthalamic nucleus and thalamus) and heart.
 
KCNAB1CHANEL is a 4-element fingerprint that provides a signature for the
KCNAB voltage-gated K+ channel beta-1 subunit. The fingerprint was derived
from an initial alignment of 5 sequences: the motifs were drawn from
conserved regions spanning the C-terminal portion of the alignment. Two
iterations on SPTR39.22_17.3f were required to reach convergence, at which
point a true set comprising 7 sequences was identified.
Summary Information
7 codes involving  4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
47777
30000
20000
1234
True Positives
Q14722        Q28528        Q63277        Q9D5E9        
Q9DBZ4 Q9PWR1 Q9XT31
Sequence Titles
Q14722      VOLTAGE-GATED POTASSIUM CHANNEL BETA-1 SUBUNIT - Homo sapiens (Human). 
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).
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).
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  16   NSINGLE    
Initial Motifs
Motif 1  width=14
Element Seqn Id St Int Rpt
GNGVPESSRASLKC Q14722 308 308 -
GNGVPESSRASLKC Q9XT31 308 308 -
GNGVPESSRASLKC Q63277 290 290 -
GNGVPESSRASLKC Q28528 297 297 -
GNGVPESSRAALKC Q9PWR1 290 290 -

Motif 2 width=16
Element Seqn Id St Int Rpt
RKQQNKLKDLSPIAER Q14722 335 13 -
RKQQNKLKDLSPIAER Q9XT31 335 13 -
RKQQNKLKDLSPIAER Q63277 317 13 -
RKQQNKLKDLSPIAER Q28528 324 13 -
RKQQTKLKDLSPIAER Q9PWR1 317 13 -

Motif 3 width=11
Element Seqn Id St Int Rpt
GSSTPEQLIEN Q14722 375 24 -
GSSTPEQLIEN Q9XT31 375 24 -
GSSTPEQLIEN Q63277 357 24 -
GSSTPEQLIEN Q28528 364 24 -
GSSNPEQLIEN Q9PWR1 357 24 -

Motif 4 width=11
Element Seqn Id St Int Rpt
MTSHVVNEIDN Q14722 395 9 -
MTSHVVNEIDN Q9XT31 395 9 -
MTSHVVNEIDN Q63277 377 9 -
MTSHVVNEIDN Q28528 384 9 -
MTSHIVNEIDN Q9PWR1 377 9 -
Final Motifs
Motif 1  width=14
Element Seqn Id St Int Rpt
GNGVPESSRASLKC Q14722 308 308 -
GNGVPESSRASLKC Q9XT31 308 308 -
GNGVPESSRASLKC Q9DBZ4 184 184 -
GNGVPESSRASLKC Q9D5E9 255 255 -
GNGVPESSRASLKC Q63277 290 290 -
GNGVPESSRASLKC Q28528 297 297 -
GNGVPESSRAALKC Q9PWR1 290 290 -

Motif 2 width=16
Element Seqn Id St Int Rpt
RKQQNKLKDLSPIAER Q14722 335 13 -
RKQQNKLKDLSPIAER Q9XT31 335 13 -
RKQQNKLKDLSPIAER Q9DBZ4 211 13 -
RKQQNKLKDLSPIAER Q9D5E9 282 13 -
RKQQNKLKDLSPIAER Q63277 317 13 -
RKQQNKLKDLSPIAER Q28528 324 13 -
RKQQTKLKDLSPIAER Q9PWR1 317 13 -

Motif 3 width=11
Element Seqn Id St Int Rpt
GSSTPEQLIEN Q14722 375 24 -
GSSTPEQLIEN Q9XT31 375 24 -
GSSTPEQLIEN Q9DBZ4 251 24 -
GSSTPEQLIEN Q9D5E9 322 24 -
GSSTPEQLIEN Q63277 357 24 -
GSSTPEQLIEN Q28528 364 24 -
GSSNPEQLIEN Q9PWR1 357 24 -

Motif 4 width=11
Element Seqn Id St Int Rpt
MTSHVVNEIDN Q14722 395 9 -
MTSHVVNEIDN Q9XT31 395 9 -
MTSHVVNEIDN Q9DBZ4 271 9 -
MTSHVVNEIDN Q9D5E9 342 9 -
MTSHVVNEIDN Q63277 377 9 -
MTSHVVNEIDN Q28528 384 9 -
MTSHIVNEIDN Q9PWR1 377 9 -