WORKLIST ENTRIES (1):
KV8CHANNEL View alignment Kv8 potassium channel alpha subunit signature
Type of fingerprint: COMPOUND with 9 elements
Links:
PRINTS; PR00169 KCHANNEL; PR01491 KVCHANNEL; PR01495 SHABCHANNEL
PRINTS; PR01496 SHAKERCHANEL; PR01497 SHALCHANNEL; PR01498 SHAWCHANNEL
PRINTS; PR01492 KV6CHANNEL; PR01494 KV9CHANNEL
Creation date 14-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. SALINAS, M., DE WEILLE, J., GUILLEMARE, E., LAZDUNSKI, M. AND HUGNOT, J-P.
Modes of regulation of shab K+ channel activity by the Kv8.1 subunit.
J.BIOL.CHEM. 272(13) 8774-8780 (1997).
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 Kv8 subunits with Shab subunits
produces altered channel-activation kinetics that do not fit the standard
model. In addition, channel inactivation shows a shift in voltage-dependence
toward more negative potentials and a slower time course. TM domain 6 is
thought to play a key role in these modulatory effects [5].
KV8CHANNEL is a 9-element fingerprint that provides a signature for the Kv8
potassium channel alpha subunits. The fingerprint was derived from an
initial alignment of 2 sequences: the motifs were drawn from conserved
regions spanning virtually the full alignment length - motifs 1-7 reside in
the N-terminal cytoplasmic domain; motif 8 spans the C-terminus of TM domain
6, leading into the cytoplasmic C-terminus; and motif 9 resides in the
C-terminal domain. Two iterations on SPTR39_15f were required to reach
convergence, at which point a true set comprising 3 sequences was identified.
SUMMARY INFORMATION
3 codes involving 9 elements
0 codes involving 8 elements
0 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
9| 3 3 3 3 3 3 3 3 3
8| 0 0 0 0 0 0 0 0 0
7| 0 0 0 0 0 0 0 0 0
6| 0 0 0 0 0 0 0 0 0
5| 0 0 0 0 0 0 0 0 0
4| 0 0 0 0 0 0 0 0 0
3| 0 0 0 0 0 0 0 0 0
2| 0 0 0 0 0 0 0 0 0
--+----------------------------------------------
| 1 2 3 4 5 6 7 8 9
True positives..
P97557 Q9UHJ4 Q60565
PROTEIN TITLES
P97557 NEURONAL POTASSIUM CHANNEL - Rattus norvegicus (Rat).
Q9UHJ4 NEURONAL POTASSIUM CHANNEL ALPHA SUBUNIT (POTASSIUM CHANNEL
Q60565 POTASSIUM CHANNEL KV8.1 - Mesocricetus auratus (Golden hamst
SCAN HISTORY
SPTR39_15f 2 5 NSINGLE
INITIAL MOTIF SETS
KV8CHANNEL1 Length of motif = 15 Motif number = 1
Kv8 potassium channel alpha subunit motif I - 1
PCODE ST INT
FCSEGEGEPLALGDC Q60565 30 30
FCSEGEGEPLALGDC Q9UHJ4 26 26
KV8CHANNEL2 Length of motif = 16 Motif number = 2
Kv8 potassium channel alpha subunit motif II - 1
PCODE ST INT
GGSRFVLSQQALSCFP Q60565 50 5
GGSRFVLSQQALSCFP Q9UHJ4 46 5
KV8CHANNEL3 Length of motif = 15 Motif number = 3
Kv8 potassium channel alpha subunit motif III - 1
PCODE ST INT
PSPLELCDDANPVDN Q60565 89 23
PSPLELCDDANPVDN Q9UHJ4 85 23
KV8CHANNEL4 Length of motif = 14 Motif number = 4
Kv8 potassium channel alpha subunit motif IV - 1
PCODE ST INT
GRLHVMEQLCALSF Q60565 124 20
GRLHVMEQLCALSF Q9UHJ4 120 20
KV8CHANNEL5 Length of motif = 19 Motif number = 5
Kv8 potassium channel alpha subunit motif V - 1
PCODE ST INT
QEIQYWGIDELSIDSCCRD Q60565 139 1
QEIQYWGIDELSIDSCCRD Q9UHJ4 135 1
KV8CHANNEL6 Length of motif = 14 Motif number = 6
Kv8 potassium channel alpha subunit motif VI - 1
PCODE ST INT
RYFRRKELSETLDF Q60565 158 0
RYFRRKELSETLDF Q9UHJ4 154 0
KV8CHANNEL7 Length of motif = 19 Motif number = 7
Kv8 potassium channel alpha subunit motif VII - 1
PCODE ST INT
ESQHESEQDFSQGPCPTVR Q60565 179 7
ESQHESEQDFSQGPCPTVR Q9UHJ4 175 7
KV8CHANNEL8 Length of motif = 11 Motif number = 8
Kv8 potassium channel alpha subunit motif VIII - 1
PCODE ST INT
SACYFTLKLKE Q60565 436 238
SACYFTLKLKE Q9UHJ4 432 238
KV8CHANNEL9 Length of motif = 14 Motif number = 9
Kv8 potassium channel alpha subunit motif IX - 1
PCODE ST INT
YARSIMEMLRLKGR Q60565 476 29
YARSIMEMLRLKGR Q9UHJ4 472 29
FINAL MOTIF SETS
KV8CHANNEL1 Length of motif = 15 Motif number = 1
Kv8 potassium channel alpha subunit motif I - 2
PCODE ST INT
FCSEGEGEPLALGDC P97557 29 29
FCSEGEGEPLALGDC Q9UHJ4 26 26
FCSEGEGEPLALGDC Q60565 30 30
KV8CHANNEL2 Length of motif = 16 Motif number = 2
Kv8 potassium channel alpha subunit motif II - 2
PCODE ST INT
GGSRFVLSQQALSCFP P97557 49 5
GGSRFVLSQQALSCFP Q9UHJ4 46 5
GGSRFVLSQQALSCFP Q60565 50 5
KV8CHANNEL3 Length of motif = 15 Motif number = 3
Kv8 potassium channel alpha subunit motif III - 2
PCODE ST INT
PSPLELCDDANPVDN P97557 88 23
PSPLELCDDANPVDN Q9UHJ4 85 23
PSPLELCDDANPVDN Q60565 89 23
KV8CHANNEL4 Length of motif = 14 Motif number = 4
Kv8 potassium channel alpha subunit motif IV - 2
PCODE ST INT
GRLHVMEQLCALSF P97557 123 20
GRLHVMEQLCALSF Q9UHJ4 120 20
GRLHVMEQLCALSF Q60565 124 20
KV8CHANNEL5 Length of motif = 19 Motif number = 5
Kv8 potassium channel alpha subunit motif V - 2
PCODE ST INT
QEIQYWGIDELSIDSCCRD P97557 138 1
QEIQYWGIDELSIDSCCRD Q9UHJ4 135 1
QEIQYWGIDELSIDSCCRD Q60565 139 1
KV8CHANNEL6 Length of motif = 14 Motif number = 6
Kv8 potassium channel alpha subunit motif VI - 2
PCODE ST INT
RYFRRKELSETLDF P97557 157 0
RYFRRKELSETLDF Q9UHJ4 154 0
RYFRRKELSETLDF Q60565 158 0
KV8CHANNEL7 Length of motif = 19 Motif number = 7
Kv8 potassium channel alpha subunit motif VII - 2
PCODE ST INT
ESQHESEQDFSQGPCPTVR P97557 178 7
ESQHESEQDFSQGPCPTVR Q9UHJ4 175 7
ESQHESEQDFSQGPCPTVR Q60565 179 7
KV8CHANNEL8 Length of motif = 11 Motif number = 8
Kv8 potassium channel alpha subunit motif VIII - 2
PCODE ST INT
SACYFTLKLKE P97557 435 238
SACYFTLKLKE Q9UHJ4 432 238
SACYFTLKLKE Q60565 436 238
KV8CHANNEL9 Length of motif = 14 Motif number = 9
Kv8 potassium channel alpha subunit motif IX - 2
PCODE ST INT
YARSIMEMLRLKGR P97557 475 29
YARSIMEMLRLKGR Q9UHJ4 472 29
YARSIMEMLRLKGR Q60565 476 29
User query: Display/Full Code "KV8CHANNEL"