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Protein

Rhodopsin

Gene

rho

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Visual pigments such as rhodopsin and porphyropsin are light-absorbing molecules that mediate vision. Rhodopsin consists of an apoprotein, opsin, covalently linked to 11-cis-retinal. This receptor is coupled to the activation of phospholipase C. Porphyropsin consists of opsin covalently linked to 11-cis 3,4-didehydroretinal.

GO - Molecular functioni

  • G-protein coupled photoreceptor activity Source: ZFIN
  • photoreceptor activity Source: UniProtKB
  • retinal binding Source: UniProtKB

GO - Biological processi

  • absorption of visible light Source: ZFIN
  • detection of light stimulus Source: ZFIN
  • protein-chromophore linkage Source: UniProtKB-KW
  • rhodopsin mediated signaling pathway Source: UniProtKB
  • visual perception Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

G-protein coupled receptor, Photoreceptor protein, Receptor, Retinal protein, Transducer

Keywords - Biological processi

Sensory transduction, Vision

Keywords - Ligandi

Chromophore

Enzyme and pathway databases

ReactomeiR-DRE-2453902. The canonical retinoid cycle in rods (twilight vision).
R-DRE-2485179. Activation of the phototransduction cascade.
R-DRE-2514859. Inactivation, recovery and regulation of the phototransduction cascade.
R-DRE-418594. G alpha (i) signalling events.
R-DRE-419771. Opsins.
R-DRE-5620916. VxPx cargo-targeting to cilium.

Protein family/group databases

TCDBi9.A.14.1.12. the g-protein-coupled receptor (gpcr) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Rhodopsin
Gene namesi
Name:rho
Synonyms:zfo2
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
Proteomesi
  • UP000000437 Componenti: Chromosome 8

Organism-specific databases

ZFINiZDB-GENE-990415-271. rho.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini1 – 3636ExtracellularAdd
BLAST
Transmembranei37 – 6125Helical; Name=1Sequence analysisAdd
BLAST
Topological domaini62 – 7312CytoplasmicAdd
BLAST
Transmembranei74 – 9825Helical; Name=2Sequence analysisAdd
BLAST
Topological domaini99 – 11315ExtracellularAdd
BLAST
Transmembranei114 – 13320Helical; Name=3Sequence analysisAdd
BLAST
Topological domaini134 – 15219CytoplasmicAdd
BLAST
Transmembranei153 – 17624Helical; Name=4Sequence analysisAdd
BLAST
Topological domaini177 – 20226ExtracellularAdd
BLAST
Transmembranei203 – 23028Helical; Name=5Sequence analysisAdd
BLAST
Topological domaini231 – 25222CytoplasmicAdd
BLAST
Transmembranei253 – 27624Helical; Name=6Sequence analysisAdd
BLAST
Topological domaini277 – 2848Extracellular
Transmembranei285 – 30925Helical; Name=7Sequence analysisAdd
BLAST
Topological domaini310 – 35445CytoplasmicAdd
BLAST

GO - Cellular componenti

  • integral component of membrane Source: ZFIN
  • photoreceptor outer segment Source: ZFIN
Complete GO annotation...

Keywords - Cellular componenti

Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 354354RhodopsinPRO_0000197654Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Glycosylationi2 – 21N-linked (GlcNAc...)Sequence analysis
Glycosylationi15 – 151N-linked (GlcNAc...)Sequence analysis
Disulfide bondi110 ↔ 187PROSITE-ProRule annotation
Glycosylationi200 – 2001N-linked (GlcNAc...)Sequence analysis
Modified residuei296 – 2961N6-(retinylidene)lysineBy similarity

Post-translational modificationi

Phosphorylated on some or all of the serine and threonine residues present in the C-terminal region.By similarity

Keywords - PTMi

Disulfide bond, Glycoprotein, Phosphoprotein

Proteomic databases

PaxDbiP35359.

Expressioni

Tissue specificityi

Retinal rod photoreceptor cells, predominantly in the outer segments.3 Publications

Developmental stagei

First detected at 51 hours post-fertilization (hpf) in the ventral retina. At 60 hpf, expressed in a strip across the ventrotemporal retina. By 96 hpf, also expressed in the dorsal retina.1 Publication

Gene expression databases

BgeeiP35359.
ExpressionAtlasiP35359. differential.

Interactioni

Protein-protein interaction databases

STRINGi7955.ENSDARP00000011562.

Structurei

3D structure databases

ProteinModelPortaliP35359.
SMRiP35359. Positions 1-349.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the G-protein coupled receptor 1 family. Opsin subfamily.PROSITE-ProRule annotation

Keywords - Domaini

Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiKOG3656. Eukaryota.
ENOG410XRW9. LUCA.
GeneTreeiENSGT00760000118977.
HOGENOMiHOG000253932.
HOVERGENiHBG107442.
InParanoidiP35359.
KOiK04250.
OMAiCGKNPFE.
OrthoDBiEOG72NRQJ.
TreeFamiTF324998.

Family and domain databases

Gene3Di4.10.840.10. 1 hit.
InterProiIPR000276. GPCR_Rhodpsn.
IPR017452. GPCR_Rhodpsn_7TM.
IPR001760. Opsin.
IPR027430. Retinal_BS.
IPR000732. Rhodopsin.
IPR019477. Rhodopsin_N.
[Graphical view]
PfamiPF00001. 7tm_1. 1 hit.
PF10413. Rhodopsin_N. 1 hit.
[Graphical view]
PRINTSiPR00237. GPCRRHODOPSN.
PR00238. OPSIN.
PR00579. RHODOPSIN.
PROSITEiPS00237. G_PROTEIN_RECEP_F1_1. 1 hit.
PS50262. G_PROTEIN_RECEP_F1_2. 1 hit.
PS00238. OPSIN. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P35359-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MNGTEGPAFY VPMSNATGVV RSPYEYPQYY LVAPWAYGLL AAYMFFLIIT
60 70 80 90 100
GFPVNFLTLY VTIEHKKLRT PLNYILLNLA IADLFMVFGG FTTTMYTSLH
110 120 130 140 150
GYFVFGRLGC NLEGFFATLG GEMGLWSLVV LAIERWMVVC KPVSNFRFGE
160 170 180 190 200
NHAIMGVAFT WVMACSCAVP PLVGWSRYIP EGMQCSCGVD YYTRTPGVNN
210 220 230 240 250
ESFVIYMFIV HFFIPLIVIF FCYGRLVCTV KEAAAQQQES ETTQRAEREV
260 270 280 290 300
TRMVIIMVIA FLICWLPYAG VAWYIFTHQG SEFGPVFMTL PAFFAKTSAV
310 320 330 340 350
YNPCIYICMN KQFRHCMITT LCCGKNPFEE EEGASTTASK TEASSVSSSS

VSPA
Length:354
Mass (Da):39,706
Last modified:May 27, 2002 - v2
Checksum:i6C5D49B51059D238
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti39 – 402LL → FV (PubMed:8327475).Curated
Sequence conflicti39 – 402LL → FV (PubMed:8924413).Curated
Sequence conflicti126 – 1261W → K (PubMed:8327475).Curated
Sequence conflicti126 – 1261W → K (PubMed:8924413).Curated
Sequence conflicti235 – 2351A → R (PubMed:8327475).Curated
Sequence conflicti235 – 2351A → R (PubMed:8924413).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L11014 mRNA. Translation: AAA85566.1.
AF105152 mRNA. Translation: AAD14679.1.
AF109368 mRNA. Translation: AAD24751.1.
AF331797 Genomic DNA. Translation: AAK01136.1.
BC063938 mRNA. Translation: AAH63938.1.
PIRiA48191.
RefSeqiNP_571159.1. NM_131084.1.
UniGeneiDr.354.

Genome annotation databases

EnsembliENSDART00000027000; ENSDARP00000011562; ENSDARG00000002193.
GeneIDi30295.
KEGGidre:30295.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L11014 mRNA. Translation: AAA85566.1.
AF105152 mRNA. Translation: AAD14679.1.
AF109368 mRNA. Translation: AAD24751.1.
AF331797 Genomic DNA. Translation: AAK01136.1.
BC063938 mRNA. Translation: AAH63938.1.
PIRiA48191.
RefSeqiNP_571159.1. NM_131084.1.
UniGeneiDr.354.

3D structure databases

ProteinModelPortaliP35359.
SMRiP35359. Positions 1-349.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi7955.ENSDARP00000011562.

Protein family/group databases

TCDBi9.A.14.1.12. the g-protein-coupled receptor (gpcr) family.
GPCRDBiSearch...

Proteomic databases

PaxDbiP35359.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSDART00000027000; ENSDARP00000011562; ENSDARG00000002193.
GeneIDi30295.
KEGGidre:30295.

Organism-specific databases

CTDi6010.
ZFINiZDB-GENE-990415-271. rho.

Phylogenomic databases

eggNOGiKOG3656. Eukaryota.
ENOG410XRW9. LUCA.
GeneTreeiENSGT00760000118977.
HOGENOMiHOG000253932.
HOVERGENiHBG107442.
InParanoidiP35359.
KOiK04250.
OMAiCGKNPFE.
OrthoDBiEOG72NRQJ.
TreeFamiTF324998.

Enzyme and pathway databases

ReactomeiR-DRE-2453902. The canonical retinoid cycle in rods (twilight vision).
R-DRE-2485179. Activation of the phototransduction cascade.
R-DRE-2514859. Inactivation, recovery and regulation of the phototransduction cascade.
R-DRE-418594. G alpha (i) signalling events.
R-DRE-419771. Opsins.
R-DRE-5620916. VxPx cargo-targeting to cilium.

Miscellaneous databases

NextBioi20806737.
PROiP35359.

Gene expression databases

BgeeiP35359.
ExpressionAtlasiP35359. differential.

Family and domain databases

Gene3Di4.10.840.10. 1 hit.
InterProiIPR000276. GPCR_Rhodpsn.
IPR017452. GPCR_Rhodpsn_7TM.
IPR001760. Opsin.
IPR027430. Retinal_BS.
IPR000732. Rhodopsin.
IPR019477. Rhodopsin_N.
[Graphical view]
PfamiPF00001. 7tm_1. 1 hit.
PF10413. Rhodopsin_N. 1 hit.
[Graphical view]
PRINTSiPR00237. GPCRRHODOPSN.
PR00238. OPSIN.
PR00579. RHODOPSIN.
PROSITEiPS00237. G_PROTEIN_RECEP_F1_1. 1 hit.
PS50262. G_PROTEIN_RECEP_F1_2. 1 hit.
PS00238. OPSIN. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Zebrafish ultraviolet visual pigment: absorption spectrum, sequence, and localization."
    Robinson J., Schmitt E.A., Harosi F.I., Reece R.J., Dowling J.E.
    Proc. Natl. Acad. Sci. U.S.A. 90:6009-6012(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
    Tissue: Eye.
  2. "Temporal and spatial patterns of opsin gene expression in zebrafish (Danio rerio)."
    Robinson J., Schmitt E.A., Dowling J.E.
    Vis. Neurosci. 12:895-906(1995) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], DEVELOPMENTAL STAGE.
  3. "Cloning and characterization of six zebrafish photoreceptor opsin cDNAs and immunolocalization of their corresponding proteins."
    Vihtelic T.S., Doro C.J., Hyde D.R.
    Vis. Neurosci. 16:571-585(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
    Tissue: Eye.
  4. "Isolation of a zebrafish rod opsin promoter to generate a transgenic zebrafish line expressing enhanced green fluorescent protein in rod photoreceptors."
    Kennedy B.N., Vihtelic T.S., Checkley L., Vaughan K.T., Hyde D.R.
    J. Biol. Chem. 276:14037-14043(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  5. NIH - Zebrafish Gene Collection (ZGC) project
    Submitted (DEC-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: AB.
  6. "The zebrafish ultraviolet cone opsin reported previously is expressed in rods."
    Raymond P.A., Barthel L.K., Stenkamp D.L.
    Invest. Ophthalmol. Vis. Sci. 37:948-950(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION AS RHODOPSIN, TISSUE SPECIFICITY.

Entry informationi

Entry nameiOPSD_DANRE
AccessioniPrimary (citable) accession number: P35359
Secondary accession number(s): Q9PWN4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: June 1, 1994
Last sequence update: May 27, 2002
Last modified: February 17, 2016
This is version 120 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Caution

Was originally (PubMed:8327475 and PubMed:8924413) thought to be an ultraviolet-sensitive opsin present in short single cones.Curated

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 7-transmembrane G-linked receptors
    List of 7-transmembrane G-linked receptor entries
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.