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PR01264

Identifier
MECHCHANNEL  [View Relations]  [View Alignment]  
Accession
PR01264
No. of Motifs
3
Creation Date
28-SEP-1999
Title
Bacterial mechano-sensitive ion channel signature
Database References

PROSITE; PS01327 MSCL
BLOCKS; BL01327
PFAM; PF01741 MscL
PRODOM; PD007253
INTERPRO; IPR001185
PDB; 1MSL
SCOP; 1MSL
CATH; 1MSL
Literature References
1. SUKHAREV, S.I., BLOUNT, P., MARTINAC, B., BLATTNER, F.R AND KUNG, C.
A large-conductance mechanosensitive channel in E. coli encoded by mscL
alone.
NATURE 368 265-268 (1994). 
 
2. NORTH, R.A.
Families of ion channels with two hydrophobic domains.
CURR.OPIN.CELL BIOL. 8 474-483 (1996).

Documentation
Mechano-sensitive channels are ion channels that are directly activated by
stretch forces in the membrane lipid bilayer. Such channels have been
detected in neurones, heart, lens, muscle and blood cells of animals.
They are also present in plant cells, yeast and bacteria. Following
solubilisation and purification, a bacterial envelope protein thought to be
a mechano-sensitive channel was isolated from E.coli. This was partially
sequenced and used to identify and clone the corresponding gene (mscL).
Subsequent experiments demonstrated that expression of this gene alone is
sufficient to produce a large-conductance mechano-sensitive channel with
similar properties to those found for mechano-sensitive channels in native 
bacterial membranes [1].
 
mscL encodes a protein of 136 amino acid residues. The first ~3/4 of the
sequence is highly hydrophobic and is thought to contain two transmembrane
(TM) domains. mscL homologues have also been identified in a number of 
Gram-positive bacteria. They do not show significant sequence similarity to
other ion channel subunits that are predicted to contain 2 TM domains, such
as the P2X receptors and the extended epithelial sodium channel family [2].
 
MECHCHANNEL is a 3-element fingerprint that provides a signature for
bacterial mechano-sensitive ion channels. The fingerprint was derived from
an initial alignment of 9 sequences: the motifs were drawn from conserved
regions spanning the N-terminal 3/4 of the alignment - motif 1 spans the end
of the putative cytoplasmic N-terminus, and the start of the following
TM domain; motif 2 lies in the second TM domain; and motif 3 spans the end
of the second TM domain and the start of the putative cytoplasmic C-terminus.
A single iteration on SPTR37_10f was required to reach convergence, no
further sequences being identified beyond the starting set. A single partial
match was found, Q9Z5G4, a Mycobacterium leprae sequence that is presumed
to be a mechano-sensitive ion channel.
Summary Information
   9 codes involving  3 elements
1 codes involving 2 elements
Composite Feature Index
3999
2110
123
True Positives
MSCL_BACSU    MSCL_CLOPE    MSCL_ECOLI    MSCL_ERWCA    
MSCL_HAEIN MSCL_MYCTU MSCL_PSEFL MSCL_STAAU
MSCL_SYNY3
True Positive Partials
Codes involving 2 elements
Q9Z5G4
Sequence Titles
MSCL_BACSU  LARGE-CONDUCTANCE MECHANOSENSITIVE CHANNEL - BACILLUS SUBTILIS. 
MSCL_CLOPE LARGE-CONDUCTANCE MECHANOSENSITIVE CHANNEL - CLOSTRIDIUM PERFRINGENS.
MSCL_ECOLI LARGE-CONDUCTANCE MECHANOSENSITIVE CHANNEL - ESCHERICHIA COLI.
MSCL_ERWCA LARGE-CONDUCTANCE MECHANOSENSITIVE CHANNEL - ERWINIA CAROTOVORA.
MSCL_HAEIN LARGE-CONDUCTANCE MECHANOSENSITIVE CHANNEL - HAEMOPHILUS INFLUENZAE.
MSCL_MYCTU LARGE-CONDUCTANCE MECHANOSENSITIVE CHANNEL - MYCOBACTERIUM TUBERCULOSIS.
MSCL_PSEFL LARGE-CONDUCTANCE MECHANOSENSITIVE CHANNEL - PSEUDOMONAS FLUORESCENS.
MSCL_STAAU LARGE-CONDUCTANCE MECHANOSENSITIVE CHANNEL - STAPHYLOCOCCUS AUREUS.
MSCL_SYNY3 LARGE-CONDUCTANCE MECHANOSENSITIVE CHANNEL - SYNECHOCYSTIS SP. (STRAIN PCC 6803)

Q9Z5G4 PUTATIVE GATED MECHANOSENSITIVE ION CHANNEL - MYCOBACTERIUM LEPRAE.
Scan History
SPTR37_10f 1  300  NSINGLE    
Initial Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
EFREFAMRGNVVDLA MSCL_ECOLI 6 6 -
EFKEFAMKGNVIDLA MSCL_CLOPE 4 4 -
EFREFAMRGNVVDMA MSCL_HAEIN 6 6 -
EFREFAMRGNVVDLA MSCL_ERWCA 6 6 -
EFKAFAVKGNVVDMA MSCL_PSEFL 6 6 -
EFKEFALKGNVLDLA MSCL_STAAU 4 4 -
EFKAFAMRGNIVDLA MSCL_BACSU 4 4 -
DFKDFILRGNVVDLA MSCL_SYNY3 15 15 -
GFKEFLARGNIVDLA MSCL_MYCTU 4 4 -

Motif 2 width=9
Element Seqn Id St Int Rpt
DFLIVAFAI MSCL_ECOLI 84 63 -
NFLIIAFSI MSCL_CLOPE 89 70 -
DFIIIAFAI MSCL_HAEIN 84 63 -
DFIIVAFAI MSCL_ERWCA 84 63 -
NFVIVAFAI MSCL_PSEFL 83 62 -
DFIIIAFAL MSCL_STAAU 72 53 -
NFLIISFSI MSCL_BACSU 75 56 -
NFLIIAFVI MSCL_SYNY3 82 52 -
NFFLIAFAV MSCL_MYCTU 78 59 -

Motif 3 width=10
Element Seqn Id St Int Rpt
FMAIKLINKL MSCL_ECOLI 93 0 -
FIVIKQINKL MSCL_CLOPE 98 0 -
FMMIKVINKV MSCL_HAEIN 93 0 -
FIAIKLMNKM MSCL_ERWCA 93 0 -
FMGVKAINRL MSCL_PSEFL 92 0 -
FIFVKIANTL MSCL_STAAU 81 0 -
FIVIRTLNGL MSCL_BACSU 84 0 -
FLIIKAIEKM MSCL_SYNY3 91 0 -
FLVVLPYNTL MSCL_MYCTU 88 1 -
Final Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
EFREFAMRGNVVDLA MSCL_ECOLI 6 6 -
EFKEFAMKGNVIDLA MSCL_CLOPE 4 4 -
EFREFAMRGNVVDMA MSCL_HAEIN 6 6 -
EFREFAMRGNVVDLA MSCL_ERWCA 6 6 -
EFKAFAVKGNVVDMA MSCL_PSEFL 6 6 -
EFKEFALKGNVLDLA MSCL_STAAU 4 4 -
EFKAFAMRGNIVDLA MSCL_BACSU 4 4 -
DFKDFILRGNVVDLA MSCL_SYNY3 15 15 -
GFKEFLARGNIVDLA MSCL_MYCTU 4 4 -

Motif 2 width=9
Element Seqn Id St Int Rpt
DFLIVAFAI MSCL_ECOLI 84 63 -
NFLIIAFSI MSCL_CLOPE 89 70 -
DFIIIAFAI MSCL_HAEIN 84 63 -
DFIIVAFAI MSCL_ERWCA 84 63 -
NFVIVAFAI MSCL_PSEFL 83 62 -
DFIIIAFAL MSCL_STAAU 72 53 -
NFLIISFSI MSCL_BACSU 75 56 -
NFLIIAFVI MSCL_SYNY3 82 52 -
NFFLIAFAV MSCL_MYCTU 78 59 -

Motif 3 width=10
Element Seqn Id St Int Rpt
FMAIKLINKL MSCL_ECOLI 93 0 -
FIVIKQINKL MSCL_CLOPE 98 0 -
FMMIKVINKV MSCL_HAEIN 93 0 -
FIAIKLMNKM MSCL_ERWCA 93 0 -
FMGVKAINRL MSCL_PSEFL 92 0 -
FIFVKIANTL MSCL_STAAU 81 0 -
FIVIRTLNGL MSCL_BACSU 84 0 -
FLIIKAIEKM MSCL_SYNY3 91 0 -
FLVVLPYNTL MSCL_MYCTU 88 1 -