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PR01794

Identifier
VDCCGAMMA6  [View Relations]  [View Alignment]  
Accession
PR01794
No. of Motifs
5
Creation Date
24-JUL-2002
Title
Voltage-dependent calcium channel gamma-6 subunit signature
Database References
PRINTS; PR01792 VDCCGAMMA
Literature References
1. BITO, H., DEISSEROTH, K. AND TSIEN, R.
Ca2+-dependent regulation in neuronal gene expression. 
CURR.OPIN.NEUROBIOL. 7 419-429 (1997).
 
2. DUNLAP, K., LEUBKE, J. AND TURNER, T.
Exocytotic calcium channels in mammalian central neurons. 
TRENDS NEUROSCI. 18 89-98 (1995). 
 
3. AHLIJANIAN, M., WESTENBROEK, R. AND CATTERALL, W.
Subunit structure and localization of dihydropyridine-sensitive calcium 
channels in mammalian brain, spinal cord, and retina.
NEURON 4 819-832 (1990).
 
4. WITCHER, D., DE WAARD, M., SAKAMOTO, J., FRANZINI-ARMSTRONG, C., 
PRAGNELL, M., KAHL, S. AND CAMPBELL, K.
Subunit identification and reconstitution of the N-type Ca2+ channel complex
purified from brain.
SCIENCE 261 486-489 (1993).
 
5. BURGESS, D., GEFRIDES, L., FOREMAN, P. AND NOEBELS, J.
A cluster of three novel Ca2+ channel gamma subunit genes on chromosome 
19q13.4: evolution and expression profile of the gamma subunit gene family.
GENOMICS 71 339-350 (2001).

Documentation
Voltage-dependent calcium channels are a diverse family of proteins that 
encompass a variety of biological functions, including presynaptic
neurotransmitter release and protein signalling within the cell [1,2]. The
high voltage-activated (L-, N-, P-, Q- and R-type) channels comprise the 
alpha-1 subunit, which creates the pore for the import of extracellular 
calcium ions [2]. The activity of this pore is modulated by 4 tightly-
coupled subunits: an intracellular beta subunit; a transmembrane (TM) gamma 
subunit; and a disulphide-linked complex of alpha-2 and delta subunits, 
which are proteolytically cleaved from the same gene product [3,4].
 
The voltage-dependent calcium channel gamma (VDCCG) subunit family consists 
of at least 8 members, which share a number of common structural features 
[5]. Each member is predicted to possess 4 TM domains, with intracellular
N- and C-termini. The first extracellular loop contains a highly conserved
N-glycosylation site and a pair of conserved cysteine residues. The 
C-terminal 7 residues of VDCCG-2, -3, -4 and -8 are also conserved and 
contain a consensus site for phosphorylation by cAMP and cGMP-dependent
protein kinases, and a target site for binding by PDZ domain proteins [5].
 
The VDCCG-6 subunit was identified by high throughput genomic sequence 
database searching, pursuing sequences similar to VDCCG-1 to -5 [5].
Mouse, human and rat isoforms have been cloned. VDCCG-6 is expressed in a 
range of tissues including brain, kidney, lung, skeletal muscle, prostate 
and testis [5].
 
VDCCGAMMA6 is a 5-element fingerprint that provides a signature for the
voltage-dependent calcium channel gamma-6 subunit proteins. The fingerprint
was derived from an initial alignment of 4 sequences: the motifs were drawn
from conserved regions spanning virtually the full alignment length,
focusing on those sections that characterise the VDCCG-6 subunits but 
distinguish them from other family members - motifs 1 and 2 lie in the 
cytoplasmic N-terminal region; motifs 3 and 4 reside in the first
extracellular loop; and motif 5 spans part of TM domain 4 and part of the 
intracellular C-terminal region. A single iteration on SPTR40_20f was 
required to reach convergence, no further sequences being identified beyond 
the starting set.
Summary Information
4 codes involving  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
544444
400000
300000
200000
12345
True Positives
Q8VHW3        Q8VHW6        Q8VHW7        Q9BXT2        
Sequence Titles
Q8VHW3      VOLTAGE-DEPENDENT CALCIUM CHANNEL GAMMA-6 SUBUNIT - Mus musculus (Mouse). 
Q8VHW6 VOLTAGE-DEPENDENT CALCIUM CHANNEL GAMMA-6 SUBUNIT SHORT ISOFORM - Rattus norvegicus (Rat).
Q8VHW7 VOLTAGE-DEPENDENT CALCIUM CHANNEL GAMMA-6 SUBUNIT LONG ISOFORM - Rattus norvegicus (Rat).
Q9BXT2 CALCIUM CHANNEL GAMMA SUBUNIT 6 (VOLTAGE-DEPENDENT CALCIUM CHANNEL GAMMA-6 SUBUNIT) - Homo sapiens (Human).
Scan History
SPTR40_20f 1  250  NSINGLE    
Initial Motifs
Motif 1  width=12
Element Seqn Id St Int Rpt
MWSNFFMQEEDR Q8VHW3 2 2 -
MWSNFFMQEEDR Q8VHW7 2 2 -
MWSNFFMQEEDR Q8VHW6 2 2 -
MWSNFFLQEENR Q9BXT2 2 2 -

Motif 2 width=19
Element Seqn Id St Int Rpt
RRTAVGRRRAQEQQNLGLT Q8VHW3 14 0 -
RRTAVGRRRAQEQQNLGLT Q8VHW7 14 0 -
RRTAVGRRRAQEQQNLGLT Q8VHW6 14 0 -
RRGAAGRRRAHGQGRSGLT Q9BXT2 14 0 -

Motif 3 width=12
Element Seqn Id St Int Rpt
LNTYKTNGSAVC Q8VHW3 65 32 -
LNTYKTNGSAVC Q8VHW7 65 32 -
LNTYKTNGSAVC Q8VHW6 65 32 -
LNTYKANGSAVC Q9BXT2 65 32 -

Motif 4 width=19
Element Seqn Id St Int Rpt
LWQADVPAGRETCGPAELP Q8VHW3 91 14 -
LWQADVPAGRETCGPAELP Q8VHW7 91 14 -
LWQADVPAGRETCGPAELP Q8VHW6 91 14 -
LWQADVPVDRDTCGPAELP Q9BXT2 91 14 -

Motif 5 width=18
Element Seqn Id St Int Rpt
CFLLLTLPSWPWRSLCPK Q8VHW3 237 127 -
CFLLLTLPSWPWRSLCPK Q8VHW7 237 127 -
CFLLLTLPSWPWRSLCPK Q8VHW6 191 81 -
CFLLLTLPSWPWGSLCPK Q9BXT2 237 127 -
Final Motifs
Motif 1  width=12
Element Seqn Id St Int Rpt
MWSNFFMQEEDR Q8VHW3 2 2 -
MWSNFFMQEEDR Q8VHW7 2 2 -
MWSNFFMQEEDR Q8VHW6 2 2 -
MWSNFFLQEENR Q9BXT2 2 2 -

Motif 2 width=19
Element Seqn Id St Int Rpt
RRTAVGRRRAQEQQNLGLT Q8VHW3 14 0 -
RRTAVGRRRAQEQQNLGLT Q8VHW7 14 0 -
RRTAVGRRRAQEQQNLGLT Q8VHW6 14 0 -
RRGAAGRRRAHGQGRSGLT Q9BXT2 14 0 -

Motif 3 width=12
Element Seqn Id St Int Rpt
LNTYKTNGSAVC Q8VHW3 65 32 -
LNTYKTNGSAVC Q8VHW7 65 32 -
LNTYKTNGSAVC Q8VHW6 65 32 -
LNTYKANGSAVC Q9BXT2 65 32 -

Motif 4 width=19
Element Seqn Id St Int Rpt
LWQADVPAGRETCGPAELP Q8VHW3 91 14 -
LWQADVPAGRETCGPAELP Q8VHW7 91 14 -
LWQADVPAGRETCGPAELP Q8VHW6 91 14 -
LWQADVPVDRDTCGPAELP Q9BXT2 91 14 -

Motif 5 width=18
Element Seqn Id St Int Rpt
CFLLLTLPSWPWRSLCPK Q8VHW3 237 127 -
CFLLLTLPSWPWRSLCPK Q8VHW7 237 127 -
CFLLLTLPSWPWRSLCPK Q8VHW6 191 81 -
CFLLLTLPSWPWGSLCPK Q9BXT2 237 127 -