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PR01904

Identifier
GPR40FAMILY  [View Relations]  [View Alignment]  
Accession
PR01904
No. of Motifs
5
Creation Date
07-APR-2003
Title
GPR40-related receptor family signature
Database References
PRINTS; PR90007 7TM; PR90006 GPCRCLAN; PR00237 GPCRRHODOPSN
PRINTS; PR01905 FATTYACIDR
Literature References
1. ATTWOOD, T.K. AND FINDLAY, J.B.C.
Fingerprinting G protein-coupled receptors.
PROTEIN ENG. 7(2) 195-203 (1994).
 
2. ATTWOOD, T.K. AND FINDLAY, J.B.C.
G protein-coupled receptor fingerprints.
7TM, VOLUME 2, EDS. G.VRIEND AND B.BYWATER (1993).
 
3. BIRNBAUMER, L.
G proteins in signal transduction.
ANNU.REV.PHARMACOL.TOXICOL. 30 675-705 (1990).
 
4. CASEY, P.J. AND GILMAN, A.G.
G protein involvement in receptor-effector coupling.
J.BIOL.CHEM. 263(6) 2577-2580 (1988).
 
5. ATTWOOD, T.K. AND FINDLAY, J.B.C.
Design of a discriminating fingerprint for G protein-coupled receptors.
PROTEIN ENG. 6(2) 167-176 (1993). 
 
6. SAWZDARGO, M., GEORGE, S.R., NGUYEN, T., XU, S., KOLAKOWSKI, L.F. AND
O'DOWD, B.F.
A cluster of four novel human G protein-coupled receptor genes occurring in
close proximity to CD22 gene on chromosome 19q13.1.
BIOCHEM.BIOPHYS.RES.COMMUN. 239 543-547 (1997).

Documentation
G protein-coupled receptors (GPCRs) constitute a vast protein family that
encompasses a wide range of functions (including various autocrine,
para-crine and endocrine processes). They show considerable diversity at the
sequence level, on the basis of which they can be separated into distinct
groups. We use the term clan to describe the GPCRs, as they embrace a group
of families for which there are indications of evolutionary relationship,
but between which there is no statistically significant similarity in
sequence [1]. The currently known clan members include the rhodopsin-like
GPCRs, the secretin-like GPCRs, the cAMP receptors, the fungal mating
pheromone receptors, and the metabotropic glutamate receptor family.
     
The rhodopsin-like GPCRs themselves represent a widespread protein family
that includes hormone, neurotransmitter and light receptors, all of which
transduce extracellular signals through interaction with guanine
nucleotide-binding (G) proteins. Although their activating ligands vary
widely in structure and character, the amino acid sequences of the receptors
are very similar and are believed to adopt a common structural framework
comprising 7 transmembrane (TM) helices [3-5].
 
A cluster of four intronless GPCR genes, sharing significant sequence
similarity with one another, have been identified on human chromosome
19q13.1, downstream from the CD22 gene [6]. The receptors have been named
GPR40, GPR41, GPR42 and GPR43. The GPR42 protein sequence shares more
than 98% amino acid identity with GPR41 and is located on a possible
polymorphic insert [6].
 
GPR40FAMILY is a 5-element fingerprint that provides a signature for the
GPR40-related receptor family. The fingerprint was derived from an initial
alignment of 7 sequences: the motifs were drawn from conserved sections
within loop and TM regions, focusing on those areas of the alignment that
characterise the GPR40-related receptors but distinguish them from the rest
of the rhodopsin-like superfamily - motif 1 lies in the first external loop;
motif 2 encodes the C-terminus of TM domain 3, leading into the second
cytoplasmic loop; motif 3 resides at the C-terminus of TM domain 5; motif 4
is located at the N-terminus of TM domain 6; and motif 5 spans the
C-terminal portion of TM domain 6. A single iteration on SPTR40_22f was
required to reach convergence, no further sequences being identified
beyond the starting set.
Summary Information
7 codes involving  5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
577777
400000
300000
200000
12345
True Positives
GP40_HUMAN    GP41_HUMAN    GP42_HUMAN    GP43_HUMAN    
Q8K3T4 Q8K3T5 Q8VCK6
Sequence Titles
GP40_HUMAN  Putative G protein-coupled receptor GPR40 - Homo sapiens (Human). 
GP41_HUMAN Putative G protein-coupled receptor GPR41 - Homo sapiens (Human).
GP42_HUMAN Probable G protein-coupled receptor GPR42 - Homo sapiens (Human).
GP43_HUMAN Probable G protein-coupled receptor GPR43 - Homo sapiens (Human).
Q8K3T4 GPR40 - Rattus norvegicus (Rat).
Q8K3T5 GPR40 - Mus musculus (Mouse).
Q8VCK6 Similar to G protein-coupled receptor 43 - Mus musculus (Mouse).
Scan History
SPTR40_22f 1  120  NSINGLE    
Initial Motifs
Motif 1  width=16
Element Seqn Id St Int Rpt
VEALASGAWPLPLPFC Q8K3T5 64 64 -
VEALASGVWPLPLPFC Q8K3T4 64 64 -
VEALASGAWPLPASLC GP40_HUMAN 64 64 -
VEAASNFRWYLPKIVC Q8VCK6 67 67 -
VEAANGMHWPLPFILC GP41_HUMAN 73 73 -
VEAANGMHWPLPFILC GP42_HUMAN 73 73 -
IEAASNFRWYLPKVVC GP43_HUMAN 67 67 -

Motif 2 width=11
Element Seqn Id St Int Rpt
RYLGAAFPFGY Q8K3T5 104 24 -
RYLGAAFPFGY Q8K3T4 104 24 -
RYLGAAFPLGY GP40_HUMAN 104 24 -
RYLGVAFPVQY Q8VCK6 107 24 -
RFLSVAHPLWY GP41_HUMAN 113 24 -
RFLSVAHPLWY GP42_HUMAN 113 24 -
RYLGVAFPVQY GP43_HUMAN 107 24 -

Motif 3 width=10
Element Seqn Id St Int Rpt
TAFCYVGCLR Q8K3T5 198 83 -
TAFCYVGCLR Q8K3T4 198 83 -
TAFCYVGCLR GP40_HUMAN 198 83 -
TIFCYWRFVW Q8VCK6 195 77 -
TSYCYSRLVW GP41_HUMAN 200 76 -
TSYCYSRLVW GP42_HUMAN 200 76 -
TIFCYWRFVW GP43_HUMAN 195 77 -

Motif 4 width=12
Element Seqn Id St Int Rpt
SHKRKLRAAWVA Q8K3T5 215 7 -
SHKRKLRAAWVA Q8K3T4 215 7 -
THRRKLRAAWVA GP40_HUMAN 215 7 -
GAQRRRRAVGLA Q8VCK6 213 8 -
SHRRQRRVAGLL GP41_HUMAN 216 6 -
SHRRQRRVAGLV GP42_HUMAN 216 6 -
GAQRRRRAVGLA GP43_HUMAN 213 8 -

Motif 5 width=13
Element Seqn Id St Int Rpt
CLGPYNASNVASF Q8K3T5 236 9 -
CLGPYNASNVASF Q8K3T4 236 9 -
CVGPYNASNVASF GP40_HUMAN 236 9 -
CFGPYNMSHLVGF Q8VCK6 234 9 -
CFGPYNVSHVVGY GP41_HUMAN 237 9 -
CFGPYNVSHVVGY GP42_HUMAN 237 9 -
CFGPYNVSHLVGY GP43_HUMAN 234 9 -
Final Motifs
Motif 1  width=16
Element Seqn Id St Int Rpt
VEALASGAWPLPLPFC Q8K3T5 64 64 -
VEALASGVWPLPLPFC Q8K3T4 64 64 -
VEALASGAWPLPASLC GP40_HUMAN 64 64 -
VEAASNFRWYLPKIVC Q8VCK6 67 67 -
VEAANGMHWPLPFILC GP41_HUMAN 73 73 -
VEAANGMHWPLPFILC GP42_HUMAN 73 73 -
IEAASNFRWYLPKVVC GP43_HUMAN 67 67 -

Motif 2 width=11
Element Seqn Id St Int Rpt
RYLGAAFPFGY Q8K3T5 104 24 -
RYLGAAFPFGY Q8K3T4 104 24 -
RYLGAAFPLGY GP40_HUMAN 104 24 -
RYLGVAFPVQY Q8VCK6 107 24 -
RFLSVAHPLWY GP41_HUMAN 113 24 -
RFLSVAHPLWY GP42_HUMAN 113 24 -
RYLGVAFPVQY GP43_HUMAN 107 24 -

Motif 3 width=10
Element Seqn Id St Int Rpt
TAFCYVGCLR Q8K3T5 198 83 -
TAFCYVGCLR Q8K3T4 198 83 -
TAFCYVGCLR GP40_HUMAN 198 83 -
TIFCYWRFVW Q8VCK6 195 77 -
TSYCYSRLVW GP41_HUMAN 200 76 -
TSYCYSRLVW GP42_HUMAN 200 76 -
TIFCYWRFVW GP43_HUMAN 195 77 -

Motif 4 width=12
Element Seqn Id St Int Rpt
SHKRKLRAAWVA Q8K3T5 215 7 -
SHKRKLRAAWVA Q8K3T4 215 7 -
THRRKLRAAWVA GP40_HUMAN 215 7 -
GAQRRRRAVGLA Q8VCK6 213 8 -
SHRRQRRVAGLL GP41_HUMAN 216 6 -
SHRRQRRVAGLV GP42_HUMAN 216 6 -
GAQRRRRAVGLA GP43_HUMAN 213 8 -

Motif 5 width=13
Element Seqn Id St Int Rpt
CLGPYNASNVASF Q8K3T5 236 9 -
CLGPYNASNVASF Q8K3T4 236 9 -
CVGPYNASNVASF GP40_HUMAN 236 9 -
CFGPYNMSHLVGF Q8VCK6 234 9 -
CFGPYNVSHVVGY GP41_HUMAN 237 9 -
CFGPYNVSHVVGY GP42_HUMAN 237 9 -
CFGPYNVSHLVGY GP43_HUMAN 234 9 -