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

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