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PR01263

Identifier
INTCLCHANNEL  [View Relations]  [View Alignment]  
Accession
PR01263
No. of Motifs
5
Creation Date
04-OCT-1999
Title
Intracellular chloride (Cl-) channel signature
Database References

PRODOM; PD017366
INTERPRO; IPR002946
Literature References
1. REDHEAD, C.R., EDELMAN, A.E., BROWN, D., LANDRY, D.W. AND AL-AWQATI, Q.
A ubiquitous 64kDa protein is a component of a chloride channel of plasma
and intracellular membranes.
PROC.NATL.ACAD.SCI.U.S.A. 89 3716-3720 (1992).
 
2. LANDRY, D.W., SULLIVAN, S., NICOLAIDES, M., REDHEAD, C., EDELMAN, A.,
FIELD, M., AL-AWQATI, Q. AND EDWARDS, J.
Molecular cloning and characterization of p64, a chloride channel protein
from kidney microsomes.
J.BIOL.CHEM. 268 14948-14955 (1993).
 
3. VALENZUELA, S.M., MARTIN, D.K., POR, S.B., ROBBINS, J.M., WARTON, K.,
BOOTCOV, M.R., SCHOFIELD, P.R., CAMPBELL, T.J. AND BREIT, S.N.
Molecular cloning and expression of a chloride channel ion channel of cell
nuclei.
J.BIOL.CHEM. 272 12575-12582 (1997).
 
4. DUNCAN, R.R., WESTWOOD, P.K., BOYD, A. AND ASHLEY, R.H.
Rat brain P64H1, expression of a new member of the p64 chloride channel
protein family in endoplasmic reticulum.
J.BIOL.CHEM. 272 23880-23886 (1997).

Documentation
Chloride (Cl-) channels are known to be present in the plasma and
intracellular membranes of many cell types. Whilst the molecular identity
of plasma membrane Cl- channels has been known for some time, only recently
have intracellular Cl- channels been characterised. Initially, a 64 kDa
protein was purified from solubilised kidney cortical membranes, which, when
reconstituted into phospholipid vesicles, gave rise to chloride channel
activity [1]. An antibody generated against this protein (p64) was
subsequently used to identify and clone it. The predicted amino acid
sequence for p64 shows that it contains two, or possibly four, putative
transmembrane (TM) domains and a number of possible phosphorylation sites.
Expression studies have revealed that it is targeted to intracellular
organelles, not the plasma membrane [2].
 
Subsequently, a number of homologous cDNAs have been identified, which,
when expressed, give rise to Cl- channels in the membranes of both cell
nuclei and endoplasmic reticulum [3,4]. They do not show significant
sequence similarity to the CLC family of plasma membrane voltage-gated Cl-
channels.
 
INTCLCHANNEL is a 5-element fingerprint that provides a signature for
intracellular chloride channels. The fingerprint was derived from an
initial alignment of 3 sequences: the motifs were drawn from conserved
regions from the N-terminal 2/3 of the alignment - motif 1 resides within
the single putative TM domain; and motifs 2-5 lie in the cytoplasmic
C-terminal domain. Two iterations on SPTR37_10f were required to reach
convergence, at which point a true set comprising 6 sequences was
identified.
Summary Information
6 codes involving  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
566666
400000
300000
200000
12345
True Positives
CICP_BOVIN    CLI1_HUMAN    CLI2_HUMAN    O95833        
Q9Z0W7 Q9Z1Q5
Sequence Titles
CICP_BOVIN  CHLORINE CHANNEL PROTEIN P64 - BOS TAURUS (BOVINE). 
CLI1_HUMAN CHLORIDE INTRACELLULAR CHANNEL PROTEIN 1 (NUCLEAR CHLORIDE ION CHANNEL 27) (P64
CLI2_HUMAN CHLORIDE INTRACELLULAR CHANNEL PROTEIN 2 (XAP121) - HOMO SAPIENS (HUMAN).
O95833 INTRACELLULAR CHLORIDE CHANNEL CLIC3 - HOMO SAPIENS (HUMAN).
Q9Z0W7 INTRACELLULAR CHLORIDE ION CHANNEL PROTEIN P64H1 - RATTUS NORVEGICUS (RAT).
Q9Z1Q5 CLCP - MUS MUSCULUS (MOUSE).
Scan History
SPTR37_10f 2  150  NSINGLE    
Initial Motifs
Motif 1  width=16
Element Seqn Id St Int Rpt
MILWLKGVVFNVTTVD CICP_BOVIN 225 225 -
MVLWLKGVTFNVTTVD CLI1_HUMAN 32 32 -
MILWLKGVKFNVTTVD CLI2_HUMAN 38 38 -

Motif 2 width=12
Element Seqn Id St Int Rpt
KTDVNKIEEFLE CICP_BOVIN 267 26 -
HTDTNKIEEFLE CLI1_HUMAN 74 26 -
KTDFIKIEEFLE CLI2_HUMAN 80 26 -

Motif 3 width=10
Element Seqn Id St Int Rpt
FVKFSAYIKN CICP_BOVIN 304 25 -
FAKFSAYIKN CLI1_HUMAN 111 25 -
FAKFSAYIKN CLI2_HUMAN 117 25 -

Motif 4 width=9
Element Seqn Id St Int Rpt
SRRKFLDGD CICP_BOVIN 357 43 -
SQRKFLDGN CLI1_HUMAN 163 42 -
SRRLFLDGD CLI2_HUMAN 169 42 -

Motif 5 width=12
Element Seqn Id St Int Rpt
LTLADCNLLPKL CICP_BOVIN 367 1 -
LTLADCNLLPKL CLI1_HUMAN 173 1 -
LTLADCSLLPKL CLI2_HUMAN 179 1 -
Final Motifs
Motif 1  width=16
Element Seqn Id St Int Rpt
MILWLKGVVFNVTTVD CICP_BOVIN 225 225 -
MVLWLKGVTFNVTTVD CLI1_HUMAN 32 32 -
MVLWLKGVTFNVTTVD Q9Z1Q5 32 32 -
MILWLKGVKFNVTTVD CLI2_HUMAN 38 38 -
MILWLKGVVFSVTTVD Q9Z0W7 43 43 -
MVLLLKGVPFTLTTVD O95833 1 1 -

Motif 2 width=12
Element Seqn Id St Int Rpt
KTDVNKIEEFLE CICP_BOVIN 267 26 -
HTDTNKIEEFLE CLI1_HUMAN 74 26 -
HTDTNKIEEFLE Q9Z1Q5 74 26 -
KTDFIKIEEFLE CLI2_HUMAN 80 26 -
KTDVNKIEEFLE Q9Z0W7 85 26 -
KTDTLQIEDFLE O95833 43 26 -

Motif 3 width=10
Element Seqn Id St Int Rpt
FVKFSAYIKN CICP_BOVIN 304 25 -
FAKFSAYIKN CLI1_HUMAN 111 25 -
FAKFSAYIKN Q9Z1Q5 111 25 -
FAKFSAYIKN CLI2_HUMAN 117 25 -
FAKFSAYIKN Q9Z0W7 122 25 -
FHKFSAFIKN O95833 80 25 -

Motif 4 width=9
Element Seqn Id St Int Rpt
SRRKFLDGD CICP_BOVIN 357 43 -
SQRKFLDGN CLI1_HUMAN 163 42 -
SQRKFLDGN Q9Z1Q5 163 42 -
SRRLFLDGD CLI2_HUMAN 169 42 -
STRRFLDGD Q9Z0W7 174 42 -
SRRRFLDGD O95833 130 40 -

Motif 5 width=12
Element Seqn Id St Int Rpt
LTLADCNLLPKL CICP_BOVIN 367 1 -
LTLADCNLLPKL CLI1_HUMAN 173 1 -
LTLADCNLLPKL Q9Z1Q5 173 1 -
LTLADCSLLPKL CLI2_HUMAN 179 1 -
MTLADCNLLPKL Q9Z0W7 184 1 -
LTLADCSLLPKL O95833 140 1 -