SPRINT Home UMBER Home Contents Standard Search Advanced Search Relation Search

==SPRINT==> PRINTS View



  selected as


PR00697

Identifier
TMPROTEINSRA  [View Relations]  [View Alignment]  
Accession
PR00697
No. of Motifs
7
Creation Date
08-APR-1997  (UPDATE 08-JUL-1999)
Title
C.elegans Sra family integral membrane protein signature
Database References

INTERPRO; IPR000344
Literature References
1. TROEMEL, E.R., CHOU, J.H., DWYER, N.D., COLBERT, H.A. AND BARGMANN, C.I.
Divergent seven transmembrane receptors are candidate chemosensory
receptors in C.elegans.
CELL 83 207-218 (1995).

Documentation
Animals recognise a wide variety of chemicals using their senses of taste
and smell. The nematode C.elegans has only 14 types of chemosensory neuron,
yet is able to respond to dozens of chemicals because each neuron detects
several stimuli. More than 40 highly divergent transmembrane proteins that
could contribute to this functional diversity have been described [1]. Most
of the candidate receptor genes are in clusters of similar genes; 11 of 
these appear to be expressed in small subsets of chemosensory neurons. A
single type of neuron can potentially express at least 4 different receptor
genes [1]. Some of these might encode receptors for water-soluble
attractants, repellents and pheromones, which may be divergent members
of the G protein-coupled receptor family [1].
 
Sequences of the sra family of C.elegans receptor-like proteins contain
6-7 hydrophobic, putative transmembrane, regions. These can be
distinguished from other 7TM proteins (especially those known to couple
G proteins) by their own characteristic TM signatures.
 
TMPROTEINSRA is a 7-element fingerprint that provides a signature for the
C.elegans sra family of integral membrane proteins. The fingerprint was
derived from an initial alignment of 10 sequences: the motifs were drawn
from the putative TM regions. A single iteration on OWL29.1 was required to
reach convergence, no further sequences being identified beyond the starting
set. Several partial matches were found, all of which are fragments and
related C.elegans TM proteins.
 
An update on SPTR37_9f identified a true set of 10 sequences, and 7
partial matches.
Summary Information
  10 codes involving  7 elements
0 codes involving 6 elements
1 codes involving 5 elements
2 codes involving 4 elements
0 codes involving 3 elements
2 codes involving 2 elements
Composite Feature Index
710101010101010
60000000
50011111
41110122
30000000
21101001
1234567
True Positives
SA10_CAEEL    SA11_CAEEL    SRA1_CAEEL    SRA2_CAEEL    
SRA3_CAEEL SRA4_CAEEL SRA6_CAEEL SRA7_CAEEL
SRA8_CAEEL SRA9_CAEEL
True Positive Partials
Codes involving 5 elements
SRA5_CAEEL
Codes involving 4 elements
SA12_CAEEL YP2D_CAEEL
Codes involving 2 elements
Q19549 Q20618
Sequence Titles
SA10_CAEEL  SRA-10 PROTEIN - CAENORHABDITIS ELEGANS.      
SA11_CAEEL SRA-11 PROTEIN - CAENORHABDITIS ELEGANS.
SRA1_CAEEL SRA-1 PROTEIN - CAENORHABDITIS ELEGANS.
SRA2_CAEEL SRA-2 PROTEIN - CAENORHABDITIS ELEGANS.
SRA3_CAEEL SRA-3 PROTEIN - CAENORHABDITIS ELEGANS.
SRA4_CAEEL SRA-4 PROTEIN - CAENORHABDITIS ELEGANS.
SRA6_CAEEL SRA-6 PROTEIN - CAENORHABDITIS ELEGANS.
SRA7_CAEEL SRA-7 PROTEIN - CAENORHABDITIS ELEGANS.
SRA8_CAEEL SRA-8 PROTEIN - CAENORHABDITIS ELEGANS.
SRA9_CAEEL SRA-9 PROTEIN - CAENORHABDITIS ELEGANS.

SRA5_CAEEL SRA-5 PROTEIN - CAENORHABDITIS ELEGANS.

SA12_CAEEL SRA-12 PROTEIN - CAENORHABDITIS ELEGANS.
YP2D_CAEEL HYPOTHETICAL 22.8 KD PROTEIN AH6.13 IN CHROMOSOME II - CAENORHABDITIS ELEGANS.

Q19549 COSMID F18C5 - CAENORHABDITIS ELEGANS.
Q20618 F49E12.5 PROTEIN - CAENORHABDITIS ELEGANS.
Scan History
OWL29_2    1  75   NSINGLE    
SPTR37_9f 2 50 NSINGLE
Initial Motifs
Motif 1  width=26
Element Seqn Id St Int Rpt
SLNQKAAQFVYLLAIILTFITTYFAV YP26_CAEEL 17 17 -
SLNFQISQYVYLSLISLTFIFSYFAV YP2B_CAEEL 17 17 -
SLNFRINQIIVLIPVFITFIFTYYAI YP28_CAEEL 17 17 -
SSNFVIAQYIDLLCIVITFVTTYPAI YP2E_CAEEL 17 17 -
SFNMKLSQFVDLLAIILAFFASYFAI YP2A_CAEEL 17 17 -
SLNFKISQLIYFVLIITTLFFTFFAL YP27_CAEEL 17 17 -
SLNFIISQSVDLITSFFTYMLSIIAI YP2C_CAEEL 17 17 -
SLLLRINVIIMTIVAIITFILTYKAL CEF44F44 22 22 -
SWNFRFAVFCSQLSIISTFILSVIAV YP24_CAEEL 17 17 -
SKLYTSALFLNLIIATTSMILTGFAI CEF44F48 19 19 -

Motif 2 width=26
Element Seqn Id St Int Rpt
ILLVQNLFYANLYQFFHGIEAVRMLY YP26_CAEEL 57 14 -
ILLFHNLVSANLHQLLYLFSALRRLN YP2B_CAEEL 57 14 -
FLLIQNFFSANLHQVLYAIETIRRLH YP28_CAEEL 57 14 -
MLILESLFFANLYQIFYGIEAITILY YP2E_CAEEL 57 14 -
ILLLQNLFYTNLYQISYGIEAIGMLY YP2A_CAEEL 57 14 -
ILLYQNLFSANIHQIFLGITIVERLN YP27_CAEEL 57 14 -
ILLFLNIFYANLYQIVYSIDVVVILY YP2C_CAEEL 57 14 -
ILLYTSLLFVNVHAVIFMVIQNTALI CEF44F44 62 14 -
IILVFNFVYANIHQFMYAIISLGMAY YP24_CAEEL 57 14 -
MFLFCGLMCCSLHQTAYIVLRIQVIY CEF44F48 59 14 -

Motif 3 width=25
Element Seqn Id St Int Rpt
YYKIILMGSSGMVYGQTGLLIERLC YP26_CAEEL 104 21 -
YLKVLVTGISGMIYGQTGLLLERGC YP2B_CAEEL 104 21 -
YLEVFVSGVAGMVYGQTGLLLERAC YP28_CAEEL 104 21 -
YLKVILGTTGGMIFAQTGLMIERTC YP2E_CAEEL 104 21 -
YFKVLMIGTSGMIFGQTGLLIERAF YP2A_CAEEL 104 21 -
YLEMFIAGLSGMVYGQTGLLFERAC YP27_CAEEL 104 21 -
FLETLIGTSSGMMYCQTGLLIERFC YP2C_CAEEL 104 21 -
QNHVLIFGIAGVNFNQFGLTVDRLL CEF44F44 109 21 -
YTEVLYVGISGMIYSQTGILIERAF YP24_CAEEL 104 21 -
VTFSLVAGNTGMIFIQSAMTIDRIF CEF44F48 106 21 -

Motif 4 width=24
Element Seqn Id St Int Rpt
CAVISILVLICSSSTGRLIVWDDP YP26_CAEEL 144 15 -
GIAISIAILFLSLITGKIIIWDDP YP2B_CAEEL 144 15 -
GLAISVSVLCLSFITSRLIIWDDP YP28_CAEEL 144 15 -
GFSITIIVFFCSSITGKLFIWDDP YP2E_CAEEL 144 15 -
GVCISLIVLVCSTSSGFIILWDDP YP2A_CAEEL 144 15 -
GIITSIIVLLLSGSTARIIIWDDP YP27_CAEEL 144 15 -
GSFIAIVVMISTTSTGKLVIWDDP YP2C_CAEEL 144 15 -
GVILSVLVVACSIAAPLIIAIGDP CEF44F44 149 15 -
GIIISTFVLIMSIATYQIIISDDP YP24_CAEEL 144 15 -
GVVLSILMIACNYANVQIIFWGDP CEF44F48 146 15 -

Motif 5 width=23
Element Seqn Id St Int Rpt
YFTMCAVLSTINFCISTFILKYN YP26_CAEEL 189 21 -
FASIYTFISSFNLVFSVLLRRYN YP2B_CAEEL 189 21 -
FQSICTLLALFNLVTSILIWKYN YP28_CAEEL 189 21 -
YFTVCTVLPLFNLGISILLKIYN YP2E_CAEEL 189 21 -
FSILSTVLTLFNLIVSIFIQRYN YP2A_CAEEL 189 21 -
FFSICTFISLFNLVISLLIRRHN YP27_CAEEL 189 21 -
HFYISTVVSLFNLAASVALNKYN YP2C_CAEEL 189 21 -
FLVTLSTLVITSIFLNFIIIYAN CEF44F44 194 21 -
FLFIALILTFVNLISSAAVMFYN YP24_CAEEL 189 21 -
FLAIALYMSIAHMVINVIILYIN CEF44F48 191 21 -

Motif 6 width=22
Element Seqn Id St Int Rpt
ICFLTVSQFVAVFLNSFGMIVL YP26_CAEEL 238 26 -
ICFLTFVQFIFMFIYSFGIFTL YP2B_CAEEL 238 26 -
ICFLTFVQFIFFLVYSLGFFII YP28_CAEEL 238 26 -
VCFLAFSLFILLFIYSVGVGAL YP2E_CAEEL 238 26 -
ICFLALSQFLWMFMYSFGILIL YP2A_CAEEL 238 26 -
ICFLTFFQFIFMFIYSFGVFLL YP27_CAEEL 238 26 -
ICFLNFTQFVFMFIYSSGNSTL YP2C_CAEEL 238 26 -
ISYIAASQFLGLTLYSTMVLTL CEF44F44 245 28 -
ICVVCMAQFVTMLVYSSGVLIL YP24_CAEEL 238 26 -
IFFLSMSQFFACLIYSVFTKVF CEF44F48 250 36 -

Motif 7 width=23
Element Seqn Id St Int Rpt
LVVWLYAFPIVVLMFPVILVHQI YP26_CAEEL 274 14 -
IVVWFYTIPFIAALFPILLVYRI YP2B_CAEEL 274 14 -
VAVWLYTPPYIAASFPILIFYRI YP28_CAEEL 274 14 -
CVVWLYTIPFIAMLLPLLLIYRI YP2E_CAEEL 276 16 -
WIAWCYTMPFIALMFPVLLIYRI YP2A_CAEEL 274 14 -
WVVWVYTIPFIAASFPILLIYRI YP27_CAEEL 274 14 -
WVVWCYTVPFIALTFPLLLIYKV YP2C_CAEEL 274 14 -
MVWWAYTVPFAAVSLPALLIYRI CEF44F44 281 14 -
LITWVYTVQYNALLFPLILIFRI YP24_CAEEL 274 14 -
VLALSYTTPYACIAIPSLIIFTF CEF44F48 286 14 -
Final Motifs
Motif 1  width=26
Element Seqn Id St Int Rpt
SLNFQISQYVYLSLISLTFIFSYFAV SRA7_CAEEL 17 17 -
SLNFKISQLIYFVLIITTLFFTFFAL SRA3_CAEEL 17 17 -
SFNMKLSQFVDLLAIILAFFASYFAI SRA6_CAEEL 17 17 -
SLNFRINQIIVLIPVFITFIFTYYAI SRA4_CAEEL 17 17 -
SSNFVIAQYIDLLCIVITFVTTYPAI SRA9_CAEEL 17 17 -
SLNQKAAQFVYLLAIILTFITTYFAV SRA2_CAEEL 17 17 -
SLNFIISQSVDLITSFFTYMLSIIAI SRA8_CAEEL 17 17 -
SWNFRFAVFCSQLSIISTFILSVIAV SRA1_CAEEL 17 17 -
SLLLRINVIIMTIVAIITFILTYKAL SA10_CAEEL 22 22 -
SKLYTSALFLNLIIATTSMILTGFAI SA11_CAEEL 19 19 -

Motif 2 width=26
Element Seqn Id St Int Rpt
ILLFHNLVSANLHQLLYLFSALRRLN SRA7_CAEEL 57 14 -
ILLYQNLFSANIHQIFLGITIVERLN SRA3_CAEEL 57 14 -
ILLLQNLFYTNLYQISYGIEAIGMLY SRA6_CAEEL 57 14 -
FLLIQNFFSANLHQVLYAIETIRRLH SRA4_CAEEL 57 14 -
MLILESLFFANLYQIFYGIEAITILY SRA9_CAEEL 57 14 -
ILLVQNLFYANLYQFFHGIEAVRMLY SRA2_CAEEL 57 14 -
ILLFLNIFYANLYQIVYSIDVVVILY SRA8_CAEEL 57 14 -
IILVFNFVYANIHQFMYAIISLGMAY SRA1_CAEEL 57 14 -
ILLYTSLLFVNVHAVIFMVIQNTALI SA10_CAEEL 62 14 -
MFLFCGLMCCSLHQTAYIVLRIQVIY SA11_CAEEL 59 14 -

Motif 3 width=25
Element Seqn Id St Int Rpt
YLKVLVTGISGMIYGQTGLLLERGC SRA7_CAEEL 104 21 -
YLEMFIAGLSGMVYGQTGLLFERAC SRA3_CAEEL 104 21 -
YFKVLMIGTSGMIFGQTGLLIERAF SRA6_CAEEL 104 21 -
YLEVFVSGVAGMVYGQTGLLLERAC SRA4_CAEEL 104 21 -
YLKVILGTTGGMIFAQTGLMIERTC SRA9_CAEEL 104 21 -
YYKIILMGSSGMVYGQTGLLIERLC SRA2_CAEEL 104 21 -
FLETLIGTSSGMMYCQTGLLIERFC SRA8_CAEEL 104 21 -
YTEVLYVGISGMIYSQTGILIERAF SRA1_CAEEL 104 21 -
QNHVLIFGIAGVNFNQFGLTVDRLL SA10_CAEEL 109 21 -
VTFSLVAGNTGMIFIQSAMTIDRIF SA11_CAEEL 106 21 -

Motif 4 width=24
Element Seqn Id St Int Rpt
GIAISIAILFLSLITGKIIIWDDP SRA7_CAEEL 144 15 -
GIITSIIVLLLSGSTARIIIWDDP SRA3_CAEEL 144 15 -
GVCISLIVLVCSTSSGFIILWDDP SRA6_CAEEL 144 15 -
GLAISVSVLCLSFITSRLIIWDDP SRA4_CAEEL 144 15 -
GFSITIIVFFCSSITGKLFIWDDP SRA9_CAEEL 144 15 -
CAVISILVLICSSSTGRLIVWDDP SRA2_CAEEL 144 15 -
GSFIAIVVMISTTSTGKLVIWDDP SRA8_CAEEL 144 15 -
GIIISTFVLIMSIATYQIIISDDP SRA1_CAEEL 144 15 -
GVILSVLVVACSIAAPLIIAIGDP SA10_CAEEL 149 15 -
GVVLSILMIACNYANVQIIFWGDP SA11_CAEEL 146 15 -

Motif 5 width=23
Element Seqn Id St Int Rpt
FASIYTFISSFNLVFSVLLRRYN SRA7_CAEEL 189 21 -
FFSICTFISLFNLVISLLIRRHN SRA3_CAEEL 189 21 -
FSILSTVLTLFNLIVSIFIQRYN SRA6_CAEEL 189 21 -
FQSICTLLALFNLVTSILIWKYN SRA4_CAEEL 189 21 -
YFTVCTVLPLFNLGISILLKIYN SRA9_CAEEL 189 21 -
YFTMCAVLSTINFCISTFILKYN SRA2_CAEEL 189 21 -
HFYISTVVSLFNLAASVALNKYN SRA8_CAEEL 189 21 -
FLFIALILTFVNLISSAAVMFYN SRA1_CAEEL 189 21 -
FLVTLSTLVITSIFLNFIIIYAN SA10_CAEEL 194 21 -
FLAIALYMSIAHMVINVIILYIN SA11_CAEEL 191 21 -

Motif 6 width=22
Element Seqn Id St Int Rpt
ICFLTFVQFIFMFIYSFGIFTL SRA7_CAEEL 238 26 -
ICFLTFFQFIFMFIYSFGVFLL SRA3_CAEEL 238 26 -
ICFLALSQFLWMFMYSFGILIL SRA6_CAEEL 238 26 -
ICFLTFVQFIFFLVYSLGFFII SRA4_CAEEL 238 26 -
VCFLAFSLFILLFIYSVGVGAL SRA9_CAEEL 238 26 -
ICFLTVSQFVAVFLNSFGMIVL SRA2_CAEEL 238 26 -
ICFLNFTQFVFMFIYSSGNSTL SRA8_CAEEL 238 26 -
ICVVCMAQFVTMLVYSSGVLIL SRA1_CAEEL 238 26 -
ISYIAASQFLGLTLYSTMVLTL SA10_CAEEL 245 28 -
IFFLSMSQFFACLIYSVFTKVF SA11_CAEEL 250 36 -

Motif 7 width=23
Element Seqn Id St Int Rpt
IVVWFYTIPFIAALFPILLVYRI SRA7_CAEEL 274 14 -
WVVWVYTIPFIAASFPILLIYRI SRA3_CAEEL 274 14 -
WIAWCYTMPFIALMFPVLLIYRI SRA6_CAEEL 274 14 -
VAVWLYTPPYIAASFPILIFYRI SRA4_CAEEL 274 14 -
CVVWLYTIPFIAMLLPLLLIYRI SRA9_CAEEL 276 16 -
LVVWLYAFPIVVLMFPVILVHQI SRA2_CAEEL 274 14 -
WVVWCYTVPFIALTFPLLLIYKV SRA8_CAEEL 274 14 -
LITWVYTVQYNALLFPLILIFRI SRA1_CAEEL 274 14 -
MVWWAYTVPFAAVSLPALLIYRI SA10_CAEEL 281 14 -
VLALSYTTPYACIAIPSLIIFTF SA11_CAEEL 286 14 -