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PR00646

Identifier
RDC1ORPHANR  [View Relations]  [View Alignment]  
Accession
PR00646
No. of Motifs
9
Creation Date
09-DEC-1996  (UPDATE 07-JUN-1999)
Title
RDC1 orphan receptor signature
Database References
PRINTS; PR90007 7TM; PR90006 GPCRCLAN; PR00237 GPCRRHODOPSN

INTERPRO; IPR001416
GCRDB; GCR_0091; GCR_0015
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. LIBERT, F., PARMENTIER, M., LEFORT, A., DINSART, C., VAN SANDE, J.,
MAENHAUT, C., SIMONS, M.J., DUMONT, J.E. AND VASSART, G. 
Selective amplification and cloning of four new members of the G protein-
coupled receptor family.
SCIENCE 244 569-572 (1989).
 
7. SREEDHARAN, S.P.,  ROBICHON, A., PETERSON , K.E. AND  GOETZL, E.J.
Cloning and expression of the human vasoactive intestinal peptide receptor.
PROC.NATL.ACAD.SCI.U.S.A. 88 4986-4990 (1991).
 
8. WATSON, S. AND ARKINSTALL,
Orphan receptors.
IN THE G PROTEIN-LINKED RECEPTOR FACTSBOOK, ACADEMIC PRESS, pp223-230.

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]. 
 
Several 7TM receptors have been cloned but their endogenous ligands are
unknown; these have been termed orphan receptors. Canine RDC1 receptors
were first characterised by Libert et al. as belonging to a new subfamily
of receptors with a short non-glycosylated (extracellular) N-terminal
extension [6]. The human homologue of RDC1 was originally believed to code
for a VIP receptor [7], but this is no longer thought to be correct [8].
 
RDC1ORPHANR is a 9-element fingerprint that provides a signature for the
RDC1 orphan receptors. The fingerprint was derived from an initial 
alignment of 2 sequences: the motifs were drawn from conserved sections
within either loop or N- and C-terminal regions, focusing on those areas
of the alignment that characterise the RDC1 receptors but distinguish
them from the rest of the rhodopsin-like superfamily - motifs 1 and 2 lie at
the N-terminus; motif 3 spans the first cytoplasmic loop; motif 4 spans the
first external loop; motif 5 spans the second cytoplasmic loop; motifs 6
and 7 span the second external loop; motif 8 spans the third cytoplasmic
loop; and motif 9 resides at the C-terminus. A single iteration on OWL29.0
was required to reach convergence, no further sequences being identified
beyond the starting set. A single partial match was also found, HSU67784,
a human RDC1 fragment.
 
An update on SPTR37_9f identified a true set of 4 sequences.
Summary Information
4 codes involving  9 elements
0 codes involving 8 elements
0 codes involving 7 elements
0 codes involving 6 elements
0 codes involving 5 elements
0 codes involving 4 elements
0 codes involving 3 elements
0 codes involving 2 elements
Composite Feature Index
9444444444
8000000000
7000000000
6000000000
5000000000
4000000000
3000000000
2000000000
123456789
True Positives
O89039        RDC1_CANFA    RDC1_HUMAN    RDC1_MOUSE    
Sequence Titles
O89039      RDC-1 PROTEIN - RATTUS NORVEGICUS (RAT).      
RDC1_CANFA G PROTEIN-COUPLED RECEPTOR RDC1 - CANIS FAMILIARIS (DOG).
RDC1_HUMAN G PROTEIN-COUPLED RECEPTOR RDC1 HOMOLOG - HOMO SAPIENS (HUMAN).
RDC1_MOUSE G PROTEIN-COUPLED RECEPTOR RDC1 HOMOLOG - MUS MUSCULUS (MOUSE).
Scan History
OWL29_0    1  40   NSINGLE    
SPTR37_9f 2 5 NSINGLE
Initial Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
HLFDYAEPGNFSDISWPC RDC1_HUMAN 4 4 -
HLFDYAEPGNFSDISWPC RDC1_CANFA 4 4 -

Motif 2 width=20
Element Seqn Id St Int Rpt
CNSSDCIVVDTVMCPNMPNK RDC1_HUMAN 21 -1 -
CNSSDCIVVDTVLCPNMPNK RDC1_CANFA 21 -1 -

Motif 3 width=16
Element Seqn Id St Int Rpt
WVNIQAKTTGYDTHCY RDC1_HUMAN 67 26 -
WVNIQAKTTGYDTHCY RDC1_CANFA 67 26 -

Motif 4 width=19
Element Seqn Id St Int Rpt
SLVQHNQWPMGELTCKVTH RDC1_HUMAN 103 20 -
SLVQHNQWPMGELTCKITH RDC1_CANFA 103 20 -

Motif 5 width=18
Element Seqn Id St Int Rpt
SITYFTNTPSSRKKMVRR RDC1_HUMAN 145 23 -
SITYFASTSSRRKKVVRR RDC1_CANFA 145 23 -

Motif 6 width=18
Element Seqn Id St Int Rpt
CVSLPDTYYLKTVTSASN RDC1_HUMAN 174 11 -
CVSLPDTYYLKTVTSASN RDC1_CANFA 174 11 -

Motif 7 width=18
Element Seqn Id St Int Rpt
NNETYCRSFYPEHSIKEW RDC1_HUMAN 191 -1 -
NNETYCRSFYPEHSVKEW RDC1_CANFA 191 -1 -

Motif 8 width=16
Element Seqn Id St Int Rpt
RAISASSDQEKHSSRK RDC1_HUMAN 237 28 -
RAISASSDQEKQSSRK RDC1_CANFA 237 28 -

Motif 9 width=20
Element Seqn Id St Int Rpt
NRNYRYELMKAFIFKYSAKT RDC1_HUMAN 319 66 -
NRNYRYELMKAFIFKYSAKT RDC1_CANFA 319 66 -
Final Motifs
Motif 1  width=18
Element Seqn Id St Int Rpt
HLFDYAEPGNYSDINWPC RDC1_MOUSE 4 4 -
HLFDYAEPGNFSDISWPC RDC1_HUMAN 4 4 -
HLFDYVEPGNYSDSNWPC O89039 4 4 -
HLFDYAEPGNFSDISWPC RDC1_CANFA 4 4 -

Motif 2 width=20
Element Seqn Id St Int Rpt
CNSSDCIVVDTVQCPTMPNK RDC1_MOUSE 21 -1 -
CNSSDCIVVDTVMCPNMPNK RDC1_HUMAN 21 -1 -
CNSSDCIVVDTVQCPAMPNK O89039 21 -1 -
CNSSDCIVVDTVLCPNMPNK RDC1_CANFA 21 -1 -

Motif 3 width=16
Element Seqn Id St Int Rpt
WVNIQAKTTGYDTHCY RDC1_MOUSE 67 26 -
WVNIQAKTTGYDTHCY RDC1_HUMAN 67 26 -
WVNIQAKTTGYDTHCY O89039 67 26 -
WVNIQAKTTGYDTHCY RDC1_CANFA 67 26 -

Motif 4 width=19
Element Seqn Id St Int Rpt
SLVQHNQWPMGELTCKITH RDC1_MOUSE 103 20 -
SLVQHNQWPMGELTCKVTH RDC1_HUMAN 103 20 -
SLVQHNQWPMGELTCKITH O89039 103 20 -
SLVQHNQWPMGELTCKITH RDC1_CANFA 103 20 -

Motif 5 width=18
Element Seqn Id St Int Rpt
SITYFTGTSSYKKKMVRR RDC1_MOUSE 145 23 -
SITYFTNTPSSRKKMVRR RDC1_HUMAN 145 23 -
SITYFTSTSSYKKKMVLR O89039 145 23 -
SITYFASTSSRRKKVVRR RDC1_CANFA 145 23 -

Motif 6 width=18
Element Seqn Id St Int Rpt
FVSLPDTYYLKAVTSASN RDC1_MOUSE 174 11 -
CVSLPDTYYLKTVTSASN RDC1_HUMAN 174 11 -
FVSLPDTYYLKTVTSASN O89039 174 11 -
CVSLPDTYYLKTVTSASN RDC1_CANFA 174 11 -

Motif 7 width=18
Element Seqn Id St Int Rpt
NNETYCRSFYPEHSIKEW RDC1_MOUSE 191 -1 -
NNETYCRSFYPEHSIKEW RDC1_HUMAN 191 -1 -
NNETYCRSFYPEHSIKEW O89039 191 -1 -
NNETYCRSFYPEHSVKEW RDC1_CANFA 191 -1 -

Motif 8 width=16
Element Seqn Id St Int Rpt
RAMSASGDQEKHSSRK RDC1_MOUSE 237 28 -
RAISASSDQEKHSSRK RDC1_HUMAN 237 28 -
RAMSASGDQEKHSSRK O89039 237 28 -
RAISASSDQEKQSSRK RDC1_CANFA 237 28 -

Motif 9 width=20
Element Seqn Id St Int Rpt
NRNYRYELMKAFIFKYSAKT RDC1_MOUSE 319 66 -
NRNYRYELMKAFIFKYSAKT RDC1_HUMAN 319 66 -
NRNYRYELMKAFIFKYSAKT O89039 319 66 -
NRNYRYELMKAFIFKYSAKT RDC1_CANFA 319 66 -