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PR01244

Identifier
PEROPSIN  [View Relations]  [View Alignment]  
Accession
PR01244
No. of Motifs
11
Creation Date
14-OCT-1999
Title
Peropsin signature 
Database References
PRINTS; PR90007 7TM; PR90006 GPCRCLAN; PR00237 GPCRRHODOPSN
PRINTS; PR00238 OPSIN
INTERPRO; IPR002962
GCRDB; GCR_2479; GCR_2478
Literature References
1. 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).
 
2. ATTWOOD, T.K. AND FINDLAY, J.B.C.
Fingerprinting G protein-coupled receptors.
PROTEIN ENG. 7(2) 195-203 (1994). 
 
3. APPLEBURY, M.L. AND HARGRAVE, P.A.
Molecular biology of the visual pigments.
VISION RES. 26(12) 1881-1895 (1986).
 
4. FRYXELL, K.J. AND MEYEROWITZ, E.M.
The evolution of rhodopsins and neurotransmitter receptors.
J.MOL.EVOL. 33(4) 367-378 (1991).
 
5. SUN, H., GILBERT, D.J., COPELAND, N.G., JENKINS, N.A. AND NATHANS, J. 
Peropsin, a novel visual pigment-like protein located in the apical
microvilli of the retinal pigment epithelium.
PROC.NATL.ACAD.SCI.U.S.A. 94 9893-9898 (1997).

Documentation
Opsins are integral membrane proteins that belong to a superfamily of G-
protein-coupled receptors (GPCRs). The activating ligands of the different
superfamily members vary widely in structure and character, yet the proteins
appear faithfully to have conserved a basic structural framework, believed
to consist of 7 transmembrane (TM) helices. Although the sequences of these
proteins are very diverse, reflecting to some extent this broad range of
activating ligands, nevertheless, motifs have been identified in the TM
regions that are characteristic of virtually the entire superfamily [1,2].
Amongst the exceptions are the olfactory receptors, which cluster together
in a subfamily, which lacks significant matches with domains 2, 4 and 6.
Interestingly, the opsins also seem to be emerging as increasingly atypical
of the superfamily, clustering most strongly, in phylogenetic analyses, with
the olfactory receptors [2]. 
 
Visual pigments are the light-absorbing molecules that mediate vision [3,4].
They comprise an apoprotein (opsin), covalently linked to the chromophore
cis-retinal. Vision is effected through the absorption of a photon by the
chromophore, which is isomerised to the all-trans form, promoting a
conformational change in the protein.
 
Peropsin is a visual pigment-like protein found in ocular tissues [5].
The protein has been localised to the apical face of the retinal pigment
epithelium (RPE), most prominently to the microvilli that surround the
photoreceptor outer segments [5]. It is believed that peropsin may play a 
role in RPE physiology, either by detecting light directly, or by monitoring
the concentration of retinoids or other photoreceptor-derived compounds [5]. 
 
PEROPSIN is an 11-element fingerprint that provides a signature for
peropsins. The fingerprint was derived from an initial alignment of 2
sequences: the motifs were drawn from conserved regions spanning the
full alignment length, focusing on those sections that characterise the
peropsins but distinguish them from the rest of the opsin family - motif 1
lies at the N-terminus, leading into TM domain 1; motif 2 spans the first
cytoplasmic loop; motifs 3 and 4 span the C-terminal portion of TM domain 2
and the first external loop; motif 5 encodes the N-terminal portion of TM
domain 3; motif 6 lies in the second cytoplasmic loop; motif 7 encodes the
N-terminal portion of TM domain 5; motif 8 resides in the third cytoplasmic
loop; motif 9 spans the third external loop and the N-terminal portion of
TM domain 7; and motifs 10 and 11 reside at the C-terminus. A single 
iteration on SPTR37_10f was required to reach convergnence, no further
sequences being identified beyond the starting set.
Summary Information
2 codes involving 11 elements
0 codes involving 10 elements
0 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
1122222222222
1000000000000
900000000000
800000000000
700000000000
600000000000
500000000000
400000000000
300000000000
200000000000
1234567891011
True Positives
OPSX_HUMAN    OPSX_MOUSE    
Sequence Titles
OPSX_HUMAN  Visual pigment-like receptor peropsin - Homo sapiens (Human). 
OPSX_MOUSE Visual pigment-like receptor peropsin - Mus musculus (Mouse).
Scan History
SPTR37_10f 1  100  NSINGLE    
Initial Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
GSVFSQTEHNIVATY OPSX_HUMAN 17 17 -
GSVFSRTEHSVIAAY OPSX_MOUSE 17 17 -

Motif 2 width=12
Element Seqn Id St Int Rpt
VLGIFIKYKELR OPSX_HUMAN 46 14 -
VLGIFIKYKELR OPSX_MOUSE 46 14 -

Motif 3 width=16
Element Seqn Id St Int Rpt
TDIGVSSIGYPMSAAS OPSX_HUMAN 70 12 -
TDIGVSSIGYPMSAAS OPSX_MOUSE 70 12 -

Motif 4 width=12
Element Seqn Id St Int Rpt
DLYGSWKFGYAG OPSX_HUMAN 86 0 -
DLHGSWKFGHAG OPSX_MOUSE 86 0 -

Motif 5 width=17
Element Seqn Id St Int Rpt
YAGLNIFFGMASIGLLT OPSX_HUMAN 101 3 -
YAGLNIFFGMVSIGLLT OPSX_MOUSE 101 3 -

Motif 6 width=16
Element Seqn Id St Int Rpt
TICLPDVGRRMTTNTY OPSX_HUMAN 126 8 -
TISCPDVGRRMTTNTY OPSX_MOUSE 126 8 -

Motif 7 width=15
Element Seqn Id St Int Rpt
FVSYTMTVIAINFIV OPSX_HUMAN 186 44 -
FVSYTMMVIVVNFIV OPSX_MOUSE 186 44 -

Motif 8 width=15
Element Seqn Id St Int Rpt
DCTESLNRDWSDQID OPSX_HUMAN 223 22 -
DCTAHLHRDWADQAD OPSX_MOUSE 223 22 -

Motif 9 width=19
Element Seqn Id St Int Rpt
WASFGDPKKIPPPMAIIAP OPSX_HUMAN 262 24 -
WACFGNPKKIPPSMAIIAP OPSX_MOUSE 262 24 -

Motif 10 width=15
Element Seqn Id St Int Rpt
AMLAMFKCQTHQTMP OPSX_HUMAN 304 23 -
AMLAMFKCQPHLAVP OPSX_MOUSE 304 23 -

Motif 11 width=20
Element Seqn Id St Int Rpt
PVTSILPMDVSQNPLASGRI OPSX_HUMAN 318 -1 -
PEPSTLPMDMPQSSLAPVRI OPSX_MOUSE 318 -1 -
Final Motifs
Motif 1  width=15
Element Seqn Id St Int Rpt
GSVFSQTEHNIVATY OPSX_HUMAN 17 17 -
GSVFSRTEHSVIAAY OPSX_MOUSE 17 17 -

Motif 2 width=12
Element Seqn Id St Int Rpt
VLGIFIKYKELR OPSX_HUMAN 46 14 -
VLGIFIKYKELR OPSX_MOUSE 46 14 -

Motif 3 width=16
Element Seqn Id St Int Rpt
TDIGVSSIGYPMSAAS OPSX_HUMAN 70 12 -
TDIGVSSIGYPMSAAS OPSX_MOUSE 70 12 -

Motif 4 width=12
Element Seqn Id St Int Rpt
DLYGSWKFGYAG OPSX_HUMAN 86 0 -
DLHGSWKFGHAG OPSX_MOUSE 86 0 -

Motif 5 width=17
Element Seqn Id St Int Rpt
YAGLNIFFGMASIGLLT OPSX_HUMAN 101 3 -
YAGLNIFFGMVSIGLLT OPSX_MOUSE 101 3 -

Motif 6 width=16
Element Seqn Id St Int Rpt
TICLPDVGRRMTTNTY OPSX_HUMAN 126 8 -
TISCPDVGRRMTTNTY OPSX_MOUSE 126 8 -

Motif 7 width=15
Element Seqn Id St Int Rpt
FVSYTMTVIAINFIV OPSX_HUMAN 186 44 -
FVSYTMMVIVVNFIV OPSX_MOUSE 186 44 -

Motif 8 width=15
Element Seqn Id St Int Rpt
DCTESLNRDWSDQID OPSX_HUMAN 223 22 -
DCTAHLHRDWADQAD OPSX_MOUSE 223 22 -

Motif 9 width=19
Element Seqn Id St Int Rpt
WASFGDPKKIPPPMAIIAP OPSX_HUMAN 262 24 -
WACFGNPKKIPPSMAIIAP OPSX_MOUSE 262 24 -

Motif 10 width=15
Element Seqn Id St Int Rpt
AMLAMFKCQTHQTMP OPSX_HUMAN 304 23 -
AMLAMFKCQPHLAVP OPSX_MOUSE 304 23 -

Motif 11 width=20
Element Seqn Id St Int Rpt
PVTSILPMDVSQNPLASGRI OPSX_HUMAN 318 -1 -
PEPSTLPMDMPQSSLAPVRI OPSX_MOUSE 318 -1 -