WORKLIST ENTRIES (1):
RPERETINALR View alignment View Structure Retinal pigment epithelium-retinal GPCR signature
Type of fingerprint: COMPOUND with 7 elements
Links:
PRINTS; PR00237 GPCRRHODOPSN; PR00247 GPCRCAMP; PR00248 GPCRMGR
PRINTS; PR00249 GPCRSECRETIN; PR00250 GPCRSTE2; PR00899 GPCRSTE3
PRINTS; PR00251 BACTRLOPSIN
PRINTS; PR00238 OPSIN; PR00574 OPSINBLUE; PR00575 OPSINREDGRN
PRINTS; PR00576 OPSINRH1RH2; PR00577 OPSINRH3RH4; PR00578 OPSINLTRLEYE
PRINTS; PR00666 PINOPSIN; PR01244 PEROPSIN; PR00579 RHODOPSIN
PRINTS; PR00239 RHODOPSNTAIL
INTERPRO; IPR001793
Creation date 18-JAN-1997; UPDATE 07-JUN-1999
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. SHEN, D., JIANG, M., HAO, W., TAO, L., SALAZAR, M. AND FONG, H.K.
A human opsin-related gene that encodes a retinaldehyde-binding protein.
BIOCHEMISTRY 33(44) 13117-13125 (1994).
7. JIANG, M., PANDEY, S. AND FONG, H.K.
An opsin homologue in the retina and pigment epithelium.
INVEST.OPHTHALMOL.VIS.SCI. 34(13) 3669-3678 (1993).
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 [1,2]. 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].
Retinal pigment epithelium (RPE) hosts a putative GPCR. The RPE-retinal
GPCR (RGR) covalently binds all-trans- and 11-cis-retinal after reduction
by sodium borohydride [6]. All-trans-retinal is bound preferentially over
the 11-cis isomer. The human sequence is 86% identical to that of bovine
RGR [6,7], and a lysine residue, analogous to the retinaldehyde attachment
site of rhodopsin, is conserved in TM domain 7 [6]. The human gene, whose
structure is distinct from that of the visual pigment genes, spans 14.8 kb
and is split into 7 exons [6]. This suggests that the rgr gene represents
the earliest independent branch of the vertebrate opsin gene family [6].
Since the RGR gene product preferentially binds all-trans-retinal, it is
thought that one of its functions may be to catalyse isomerisation of the
chromophore by a retinochrome-like mechanism [6].
RPERETINALR is a 7-element fingerprint that provides a signature for
RPE-retinal GPCRs. The fingerprint was derived from an initial alignment
of 2 sequences: the motifs were drawn from conserved sections largely within
loop or N- and C-terminal regions, focusing on those areas of the alignment
that characterise the RGR receptors but distinguish them from the rest of
the opsin family - motif 1 lies at the N-terminus; motif 2 spans the first
cytoplasmic loop; motif 3 spans the second cytoplasmic loop; motif 4 lies
in the second external loop; motif 5 lies in the third cytoplasmic loop;
motif 6 spans the third external loop; and motif 7 lies at the C-terminus.
A single iteration on OWL29.0 was required to reach convergence, no further
sequences being identified beyond the starting set.
An update on SPTR37_9f identified a true set of 2 sequences.
SUMMARY INFORMATION
2 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 FINGERPRINT INDEX
7| 2 2 2 2 2 2 2
6| 0 0 0 0 0 0 0
5| 0 0 0 0 0 0 0
4| 0 0 0 0 0 0 0
3| 0 0 0 0 0 0 0
2| 0 0 0 0 0 0 0
--+------------------------------------
| 1 2 3 4 5 6 7
True positives..
RGR_BOVIN RGR_HUMAN
PROTEIN TITLES
RGR_BOVIN RPE-RETINAL G PROTEIN-COUPLED RECEPTOR - BOS TAURUS (BOVINE)
RGR_HUMAN RPE-RETINAL G PROTEIN-COUPLED RECEPTOR - HOMO SAPIENS (HUMAN
SCAN HISTORY
OWL29_0 1 50 NSINGLE
SPTR37_9f 2 3 NSINGLE
INITIAL MOTIF SETS
RPERETINALR1 Length of motif = 19 Motif number = 1
RPE-retinal GPCR motif I - 1
PCODE ST INT
AESGTLPTGFGELEVLAVG RGR_BOVIN 2 2
AETSALPTGFGELEVLAVG RGR_HUMAN 2 2
RPERETINALR2 Length of motif = 16 Motif number = 2
RPE-retinal GPCR motif II - 1
PCODE ST INT
TILSFCKTPELRTPSH RGR_BOVIN 37 16
TIFSFCKTPELRTPCH RGR_HUMAN 37 16
RPERETINALR3 Length of motif = 16 Motif number = 3
RPE-retinal GPCR motif III - 1
PCODE ST INT
AWGRYHHFCTRSRLDW RGR_BOVIN 110 57
AWGRYHHYCTRSQLAW RGR_HUMAN 110 57
RPERETINALR4 Length of motif = 11 Motif number = 4
RPE-retinal GPCR motif IV - 1
PCODE ST INT
LDYSRGDRNFT RGR_BOVIN 164 38
LDYSKGDRNFT RGR_HUMAN 164 38
RPERETINALR5 Length of motif = 17 Motif number = 5
RPE-retinal GPCR motif V - 1
PCODE ST INT
EQKLGKTSRPPVNTVLP RGR_BOVIN 200 25
EQKLGKSGHLQVNTTLP RGR_HUMAN 200 25
RPERETINALR6 Length of motif = 15 Motif number = 6
RPE-retinal GPCR motif VI - 1
PCODE ST INT
IADATSISPKLQMVP RGR_BOVIN 236 19
IADVTSISPKLQMVP RGR_HUMAN 236 19
RPERETINALR7 Length of motif = 17 Motif number = 7
RPE-retinal GPCR motif VII - 1
PCODE ST INT
EMVHRGIWQCLSPQRRE RGR_BOVIN 270 19
EMVCRGIWQCLSPQKRE RGR_HUMAN 270 19
FINAL MOTIF SETS
RPERETINALR1 Length of motif = 19 Motif number = 1
RPE-retinal GPCR motif I - 2
PCODE ST INT
AESGTLPTGFGELEVLAVG RGR_BOVIN 2 2
AETSALPTGFGELEVLAVG RGR_HUMAN 2 2
RPERETINALR2 Length of motif = 16 Motif number = 2
RPE-retinal GPCR motif II - 2
PCODE ST INT
TILSFCKTPELRTPSH RGR_BOVIN 37 16
TIFSFCKTPELRTPCH RGR_HUMAN 37 16
RPERETINALR3 Length of motif = 16 Motif number = 3
RPE-retinal GPCR motif III - 2
PCODE ST INT
AWGRYHHFCTRSRLDW RGR_BOVIN 110 57
AWGRYHHYCTRSQLAW RGR_HUMAN 110 57
RPERETINALR4 Length of motif = 11 Motif number = 4
RPE-retinal GPCR motif IV - 2
PCODE ST INT
LDYSRGDRNFT RGR_BOVIN 164 38
LDYSKGDRNFT RGR_HUMAN 164 38
RPERETINALR5 Length of motif = 17 Motif number = 5
RPE-retinal GPCR motif V - 2
PCODE ST INT
EQKLGKTSRPPVNTVLP RGR_BOVIN 200 25
EQKLGKSGHLQVNTTLP RGR_HUMAN 200 25
RPERETINALR6 Length of motif = 15 Motif number = 6
RPE-retinal GPCR motif VI - 2
PCODE ST INT
IADATSISPKLQMVP RGR_BOVIN 236 19
IADVTSISPKLQMVP RGR_HUMAN 236 19
RPERETINALR7 Length of motif = 17 Motif number = 7
RPE-retinal GPCR motif VII - 2
PCODE ST INT
EMVHRGIWQCLSPQRRE RGR_BOVIN 270 19
EMVCRGIWQCLSPQKRE RGR_HUMAN 270 19
User query: Display/Full Code "RPERETINALR"