WORKLIST ENTRIES (1):
LVDCCALPHA1C View alignment Voltage-dependent L-type calcium channel alpha-1C subunit signature
Type of fingerprint: COMPOUND with 13 elements
Links:
PRINTS; PR00167 CACHANNEL; PR01629 TVDCCALPHA1; PR01630 LVDCCALPHA1
PRINTS; PR01631 NVDCCALPHA1; PR01632 PQVDCCALPHA1; PR01633 RVDCCALPHA1
PRINTS; PR01634 LVDCCALPHA1S; PR01636 LVDCCALPHA1D
Creation date 20-DEC-2001
1. WILLIAMS, M.E., BRUST, P.F., FELDMAN, D.H., PATTHI, S., SIMERSON, S.,
MAROUFI, A., MCCUE, A.F., VELICELBI, G., ELLIS, S.B. AND HARPOLD, M.M.
Structure and functional expression of an omega-conotoxin sensitive human
N-type calcium channel.
SCIENCE 257 389-395 (1992).
2. MORI, Y., FRIEDRICH, T., KIM, MS., MIKAMI, A., NAKAI, J., RUTH, P.,
BOSSE, E., HOFMANN, F., FLOCKERZI, V., FURUICHI, T., MIKOSHIBA, K.,
IMOTO, K., TANABE, T. AND NUMA, S.
Primary structure and functional expression from complementary DNA of a
brain calcium channel.
NATURE 350 398-402 (1991).
3. ASHCROFT, F.M.
Voltage-gated Ca2+ channels.
IN ION CHANNELS AND DISEASE, ACADEMIC PRESS, 2000, PP.161-183.
4. KOCH, W.J., ELLINOR, P.T. AND SCHWARTZ, A.
cDNA cloning of a dihydropyridine-sensitive calcium channel from rat aorta -
evidence for the existence of alternatively spliced forms.
J.BIOL.CHEM. 265(29) 17786-17791 (1990).
5. TAKIMOTO, K., LI, D., NERBONNE, J.M. AND LEVITAN, E.S.
Distribution, splicing and glucocorticoid-induced expression of cardiac
alpha 1C and alpha 1D voltage-gated Ca2+ channel mRNAs.
J.MOL.CELL CARDIOL. 29(11) 3035-42 (1997).
6. SOLDATOV, N.M., ZUHLKE, R.D., BOURON, A. AND REUTER, H.
Molecular structures involved in L-type calcium channel inactivation. Role
of the carboxyl-terminal region encoded by exons 40-42 in alpha1C subunit in
the kinetics and Ca2+ dependence of inactivation.
J.BIOL.CHEM. 272 3560-3566 (1997).
7. WEI, X., NEELY, A., OLCESE, R., LANG, W., STEFANI, E. AND BIRNBAUMER, L.
Increase in Ca2+ channel expression by deletions at the amino terminus of
the cardiac alpha 1C subunit.
RECEPTORS CHANNELS 4(4) 205-215 (1996).
Calcium channel proteins are involved in the control of neurotransmitter
release from neurons [1], and play an important role in the regulation of a
variety of cellular functions, including membrane excitability, muscle
contraction and synaptic transmission [2]. Voltage-gated calcium channels
are classified as T, L, N, P, Q and R, and are distinguished by their
sensitivity to pharmacological blocks, single-channel conductance kinetics,
and voltage-dependence. On the basis of their voltage activation
properties, the voltage-gated calcium classes can be further divided into
two broad groups: the low (T-type) and high (L, N, P, Q and R-type)
threshold-activated channels [3].
Generally, the channel proteins are composed of 4 tightly-coupled subunits
(alpha-1, alpha-2, beta and gamma), the alpha-1 subunit from each creating
the pore for the import of extracellular calcium ions. The alpha-1 subunit
shares sequence characteristics with all voltage-dependent cation channels,
and exploits the same 6-helix bundle structural motif - in both sodium and
calcium channels, this motif is repeated 4 times within the sequence to give
a 24-helix bundle. Within each of these repeats, 5 of the transmembrane (TM)
segments (S1, S2, S3, S5, S6) are hydrophobic and one is positively charged
(S4) - the latter is characterised by charged amino acids at very third
position, and probably represents the voltage-sensor.
Several genes encoding alpha-1 subunits have been identified, each forming
a distinct electrophysiological channel [4]. L-type calcium channels are
formed from alpha-1S, alpha-1C and alpha-1D subunits. They are widely
distributed and are well characterised in the heart, smooth and skeletal
muscle, and some neurons. Their primary functions are in both excitation-
contraction and excitation-secretion coupling. In skeletal muscle, the
L-type calcium channels act as a voltage sensor for excitation-contraction
coupling and, in cardiac muscle, they provide a pathway for calcium influx.
Mutations affecting L-type channel subunits result in three diseases:
(1) muscular dystrophy, which is characterised by a lack of functional
skeletal muscle; (2) hypokalaemic periodic paralysis, which is characterised
by episodic attacks of skeletal muscle weakness; and (3) malignant
hyperthermia, which is the main cause of death due to anaesthesia [3].
Alpha1-C subunits can be found in a number of excitable tissues, as well as
the heart and lungs [5]. The variability in the C-terminal region of the
alpha-1C subunit generated by alternative splicing influences the kinetics,
calcium- and voltage-dependence of L-type channels [6]. The N-terminus
is also a site of significant structural diversity [7].
LVDCCALPHA1C is a 13-element fingerprint that provides a signature for the
voltage-dependent L-type calcium channel alpha-1C subunit. The fingerprint
was derived from an initial alignment of 5 sequences: the motifs were drawn
from conserved regions spanning the full alignment length, focusing on those
sections that characterise the alpha-1C subunit but distinguish it from
other members of the alpha-1 subunit family - motifs 1-3 reside at the
N-terminus; motifs 4-6 lie in the cytoplasmic region between TM domain 6 of
repeat II and TM domain 1 of repeat III; motif 7 encodes part of repeat IV;
and motifs 8-13 span the cytoplasmic region between TM domain 6 of repeat IV
and TM domain 1 of repeat V. A single iteration on SPTR40_18f was required
to reach convergence, no further sequences being identified beyond the
starting set.
SUMMARY INFORMATION
5 codes involving 13 elements
0 codes involving 12 elements
0 codes involving 11 elements
0 codes involving 10 elements
0 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
13| 5 5 5 5 5 5 5 5 5 5 5 5 5
12| 0 0 0 0 0 0 0 0 0 0 0 0 0
11| 0 0 0 0 0 0 0 0 0 0 0 0 0
10| 0 0 0 0 0 0 0 0 0 0 0 0 0
9| 0 0 0 0 0 0 0 0 0 0 0 0 0
8| 0 0 0 0 0 0 0 0 0 0 0 0 0
7| 0 0 0 0 0 0 0 0 0 0 0 0 0
6| 0 0 0 0 0 0 0 0 0 0 0 0 0
5| 0 0 0 0 0 0 0 0 0 0 0 0 0
4| 0 0 0 0 0 0 0 0 0 0 0 0 0
3| 0 0 0 0 0 0 0 0 0 0 0 0 0
2| 0 0 0 0 0 0 0 0 0 0 0 0 0
--+------------------------------------------------------------------
| 1 2 3 4 5 6 7 8 9 10 11 12 13
True positives..
CCAC_RAT CCAC_MOUSE CCAC_HUMAN CCAC_RABIT
Q9Z305
PROTEIN TITLES
CCAC_RAT Voltage-dependent L-type calcium channel alpha-1C subunit (C
CCAC_MOUSE Voltage-dependent L-type calcium channel alpha-1C subunit (C
CCAC_HUMAN Voltage-dependent L-type calcium channel alpha-1C subunit (C
CCAC_RABIT Voltage-dependent L-type calcium channel alpha-1C subunit (C
Q9Z305 L-TYPE CALCIUM CHANNEL ALPHA 1 SUBUNIT - Cavia porcellus (Gu
SCAN HISTORY
SPTR40_18f 1 50 NSINGLE
INITIAL MOTIF SETS
LVDCCALPHA1C1 Length of motif = 16 Motif number = 1
Voltage-dependent L-type calcium channel alpha-1C subunit motif I - 1
PCODE ST INT
GSNYGSPRPAHANMNA CCAC_HUMAN 17 17
GSNYGSPRPAHANMNA CCAC_MOUSE 17 17
GSNYGSPRPAHANMNA CCAC_RABIT 47 47
GSNYGSPRPAHANINA Q9Z305 46 46
GSNYGSPRPAHANMNA CCAC_RAT 47 47
LVDCCALPHA1C2 Length of motif = 16 Motif number = 2
Voltage-dependent L-type calcium channel alpha-1C subunit motif II - 1
PCODE ST INT
NAAAGLAPEHIPTPGA CCAC_HUMAN 33 0
NAAAGLAPEHIPTPGA CCAC_MOUSE 33 0
NAAAGLAPEHIPTPGA CCAC_RABIT 63 0
NAAAGLAPEHIPTPGA Q9Z305 62 0
NAAAGLAPEHIPTPGA CCAC_RAT 63 0
LVDCCALPHA1C3 Length of motif = 17 Motif number = 3
Voltage-dependent L-type calcium channel alpha-1C subunit motif III - 1
PCODE ST INT
LMGSAGNATISTVSSTQ CCAC_HUMAN 64 15
LMGSAGNATISTVSSTQ CCAC_MOUSE 64 15
LMGSAGNATISTVSSTQ CCAC_RABIT 94 15
LMGSAGNTTISTVSSTQ Q9Z305 93 15
LMGSAGNATISTVSSTQ CCAC_RAT 94 15
LVDCCALPHA1C4 Length of motif = 20 Motif number = 4
Voltage-dependent L-type calcium channel alpha-1C subunit motif IV - 1
PCODE ST INT
QELVEKPAVGESKEEKIELK CCAC_HUMAN 788 707
QEVMEKPAVEESKEEKIELK CCAC_MOUSE 788 707
QEVVGKPALEEAKEEKIELK CCAC_RABIT 818 707
QEVVEKPAVEETKEEKIELK Q9Z305 817 707
QEVMEKPAVEESKEEKIELK CCAC_RAT 818 707
LVDCCALPHA1C5 Length of motif = 20 Motif number = 5
Voltage-dependent L-type calcium channel alpha-1C subunit motif V - 1
PCODE ST INT
SITADGESPPATKINMDDLQ CCAC_HUMAN 808 0
SITADGESPPTTKINMDDLQ CCAC_MOUSE 808 0
SITADGESPPTTKINMDDLQ CCAC_RABIT 838 0
SITADGESPPTTKINMDDLQ Q9Z305 837 0
SITADGESPPTTKINMDDLQ CCAC_RAT 838 0
LVDCCALPHA1C6 Length of motif = 17 Motif number = 6
Voltage-dependent L-type calcium channel alpha-1C subunit motif VI - 1
PCODE ST INT
PNENEDKSPYPNPETTG CCAC_HUMAN 828 0
PSENEDKSPHSNPDTAG CCAC_MOUSE 828 0
PNESEDKSPYPNPETTG CCAC_RABIT 858 0
PNENEDKSPYPNPDAAG Q9Z305 857 0
PSENEDKSPHSNPDTAG CCAC_RAT 858 0
LVDCCALPHA1C7 Length of motif = 15 Motif number = 7
Voltage-dependent L-type calcium channel alpha-1C subunit motif VII - 1
PCODE ST INT
APESEPSNSTEGETP CCAC_HUMAN 1480 635
APESEPSNSTEGETP CCAC_MOUSE 1432 587
APESEPHNSTEGETP CCAC_RABIT 1462 587
APESDPSNSTEGETP Q9Z305 1461 587
APESEPSNSTEGETP CCAC_RAT 1461 586
LVDCCALPHA1C8 Length of motif = 13 Motif number = 8
Voltage-dependent L-type calcium channel alpha-1C subunit motif VIII - 1
PCODE ST INT
LDKAMKEAVSAAS CCAC_HUMAN 1727 232
LDKAMKEAVSAAS CCAC_MOUSE 1679 232
LDKAMKEAVSAAS CCAC_RABIT 1709 232
LDKAMKEAVSAAS Q9Z305 1708 232
LDKAMKEAVSAAS CCAC_RAT 1708 232
LVDCCALPHA1C9 Length of motif = 19 Motif number = 9
Voltage-dependent L-type calcium channel alpha-1C subunit motif IX - 1
PCODE ST INT
TESPSHEKLVDSTFTPSSY CCAC_HUMAN 1788 48
TESPSHEKLVDSTFTPSSY CCAC_MOUSE 1740 48
TESPSHEKLVDSTFTPSSY CCAC_RABIT 1770 48
TESPSHEKLVDSTFTPSSY Q9Z305 1769 48
TESPSHEKLVDSTFTPSSY CCAC_RAT 1769 48
LVDCCALPHA1C10 Length of motif = 17 Motif number = 10
Voltage-dependent L-type calcium channel alpha-1C subunit motif X - 1
PCODE ST INT
SSTGSNANINNANNTAL CCAC_HUMAN 1807 0
SSTGSNANINNANNTAL CCAC_MOUSE 1759 0
SSTGSNANINNANNTAL CCAC_RABIT 1789 0
SSTGSNANISNANNTAL Q9Z305 1788 0
SSTGSNANINNANNTAL CCAC_RAT 1788 0
LVDCCALPHA1C11 Length of motif = 21 Motif number = 11
Voltage-dependent L-type calcium channel alpha-1C subunit motif XI - 1
PCODE ST INT
EACSEPSLLSTEMLSYQDDEN CCAC_HUMAN 1929 105
EYCSEPSLLSTDMFSYQEDEH CCAC_MOUSE 1845 69
ECCSEPSLLSTEMLSYQDDEN CCAC_RABIT 1876 70
EYCSEPSLLSTEMLSYKDDEN Q9Z305 1875 70
EYCSEPSLLSTDILSYQDDEN CCAC_RAT 1875 70
LVDCCALPHA1C12 Length of motif = 11 Motif number = 12
Voltage-dependent L-type calcium channel alpha-1C subunit motif XII - 1
PCODE ST INT
GGDISQKTVLP CCAC_HUMAN 1994 44
GGDISQKTALP CCAC_MOUSE 1910 44
GGDISQKTVLP CCAC_RABIT 1941 44
GGDISQKTVLP Q9Z305 1940 44
GGDISQKTALP CCAC_RAT 1940 44
LVDCCALPHA1C13 Length of motif = 15 Motif number = 13
Voltage-dependent L-type calcium channel alpha-1C subunit motif XIII - 1
PCODE ST INT
PVPTLRLEGVESSEK CCAC_HUMAN 2051 46
PIPTLRLEGAESSEK CCAC_MOUSE 1967 46
PIPTLRLEGADSSEK CCAC_RABIT 1998 46
PIPTLRLEGAESCEK Q9Z305 1997 46
PIPTLRLEGAESSEK CCAC_RAT 1997 46
FINAL MOTIF SETS
LVDCCALPHA1C1 Length of motif = 16 Motif number = 1
Voltage-dependent L-type calcium channel alpha-1C subunit motif I - 1
PCODE ST INT
GSNYGSPRPAHANMNA CCAC_RAT 47 47
GSNYGSPRPAHANMNA CCAC_MOUSE 17 17
GSNYGSPRPAHANMNA CCAC_HUMAN 17 17
GSNYGSPRPAHANMNA CCAC_RABIT 47 47
GSNYGSPRPAHANINA Q9Z305 46 46
LVDCCALPHA1C2 Length of motif = 16 Motif number = 2
Voltage-dependent L-type calcium channel alpha-1C subunit motif II - 1
PCODE ST INT
NAAAGLAPEHIPTPGA CCAC_RAT 63 0
NAAAGLAPEHIPTPGA CCAC_MOUSE 33 0
NAAAGLAPEHIPTPGA CCAC_HUMAN 33 0
NAAAGLAPEHIPTPGA CCAC_RABIT 63 0
NAAAGLAPEHIPTPGA Q9Z305 62 0
LVDCCALPHA1C3 Length of motif = 17 Motif number = 3
Voltage-dependent L-type calcium channel alpha-1C subunit motif III - 1
PCODE ST INT
LMGSAGNATISTVSSTQ CCAC_RAT 94 15
LMGSAGNATISTVSSTQ CCAC_MOUSE 64 15
LMGSAGNATISTVSSTQ CCAC_HUMAN 64 15
LMGSAGNATISTVSSTQ CCAC_RABIT 94 15
LMGSAGNTTISTVSSTQ Q9Z305 93 15
LVDCCALPHA1C4 Length of motif = 20 Motif number = 4
Voltage-dependent L-type calcium channel alpha-1C subunit motif IV - 1
PCODE ST INT
QEVMEKPAVEESKEEKIELK CCAC_RAT 818 707
QEVMEKPAVEESKEEKIELK CCAC_MOUSE 788 707
QELVEKPAVGESKEEKIELK CCAC_HUMAN 788 707
QEVVGKPALEEAKEEKIELK CCAC_RABIT 818 707
QEVVEKPAVEETKEEKIELK Q9Z305 817 707
LVDCCALPHA1C5 Length of motif = 20 Motif number = 5
Voltage-dependent L-type calcium channel alpha-1C subunit motif V - 1
PCODE ST INT
SITADGESPPTTKINMDDLQ CCAC_RAT 838 0
SITADGESPPTTKINMDDLQ CCAC_MOUSE 808 0
SITADGESPPATKINMDDLQ CCAC_HUMAN 808 0
SITADGESPPTTKINMDDLQ CCAC_RABIT 838 0
SITADGESPPTTKINMDDLQ Q9Z305 837 0
LVDCCALPHA1C6 Length of motif = 17 Motif number = 6
Voltage-dependent L-type calcium channel alpha-1C subunit motif VI - 1
PCODE ST INT
PSENEDKSPHSNPDTAG CCAC_RAT 858 0
PSENEDKSPHSNPDTAG CCAC_MOUSE 828 0
PNENEDKSPYPNPETTG CCAC_HUMAN 828 0
PNESEDKSPYPNPETTG CCAC_RABIT 858 0
PNENEDKSPYPNPDAAG Q9Z305 857 0
LVDCCALPHA1C7 Length of motif = 15 Motif number = 7
Voltage-dependent L-type calcium channel alpha-1C subunit motif VII - 1
PCODE ST INT
APESEPSNSTEGETP CCAC_RAT 1461 586
APESEPSNSTEGETP CCAC_MOUSE 1432 587
APESEPSNSTEGETP CCAC_HUMAN 1480 635
APESEPHNSTEGETP CCAC_RABIT 1462 587
APESDPSNSTEGETP Q9Z305 1461 587
LVDCCALPHA1C8 Length of motif = 13 Motif number = 8
Voltage-dependent L-type calcium channel alpha-1C subunit motif VIII - 1
PCODE ST INT
LDKAMKEAVSAAS CCAC_RAT 1708 232
LDKAMKEAVSAAS CCAC_MOUSE 1679 232
LDKAMKEAVSAAS CCAC_HUMAN 1727 232
LDKAMKEAVSAAS CCAC_RABIT 1709 232
LDKAMKEAVSAAS Q9Z305 1708 232
LVDCCALPHA1C9 Length of motif = 19 Motif number = 9
Voltage-dependent L-type calcium channel alpha-1C subunit motif IX - 1
PCODE ST INT
TESPSHEKLVDSTFTPSSY CCAC_RAT 1769 48
TESPSHEKLVDSTFTPSSY CCAC_MOUSE 1740 48
TESPSHEKLVDSTFTPSSY CCAC_HUMAN 1788 48
TESPSHEKLVDSTFTPSSY CCAC_RABIT 1770 48
TESPSHEKLVDSTFTPSSY Q9Z305 1769 48
LVDCCALPHA1C10 Length of motif = 17 Motif number = 10
Voltage-dependent L-type calcium channel alpha-1C subunit motif X - 1
PCODE ST INT
SSTGSNANINNANNTAL CCAC_RAT 1788 0
SSTGSNANINNANNTAL CCAC_MOUSE 1759 0
SSTGSNANINNANNTAL CCAC_HUMAN 1807 0
SSTGSNANINNANNTAL CCAC_RABIT 1789 0
SSTGSNANISNANNTAL Q9Z305 1788 0
LVDCCALPHA1C11 Length of motif = 21 Motif number = 11
Voltage-dependent L-type calcium channel alpha-1C subunit motif XI - 1
PCODE ST INT
EYCSEPSLLSTDILSYQDDEN CCAC_RAT 1875 70
EYCSEPSLLSTDMFSYQEDEH CCAC_MOUSE 1845 69
EACSEPSLLSTEMLSYQDDEN CCAC_HUMAN 1929 105
ECCSEPSLLSTEMLSYQDDEN CCAC_RABIT 1876 70
EYCSEPSLLSTEMLSYKDDEN Q9Z305 1875 70
LVDCCALPHA1C12 Length of motif = 11 Motif number = 12
Voltage-dependent L-type calcium channel alpha-1C subunit motif XII - 1
PCODE ST INT
GGDISQKTALP CCAC_RAT 1940 44
GGDISQKTALP CCAC_MOUSE 1910 44
GGDISQKTVLP CCAC_HUMAN 1994 44
GGDISQKTVLP CCAC_RABIT 1941 44
GGDISQKTVLP Q9Z305 1940 44
LVDCCALPHA1C13 Length of motif = 15 Motif number = 13
Voltage-dependent L-type calcium channel alpha-1C subunit motif XIII - 1
PCODE ST INT
PIPTLRLEGAESSEK CCAC_RAT 1997 46
PIPTLRLEGAESSEK CCAC_MOUSE 1967 46
PVPTLRLEGVESSEK CCAC_HUMAN 2051 46
PIPTLRLEGADSSEK CCAC_RABIT 1998 46
PIPTLRLEGAESCEK Q9Z305 1997 46
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