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P85857 (GDF6A_DANRE) Reviewed, UniProtKB/Swiss-Prot

Last modified June 11, 2014. Version 44. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Growth/differentiation factor 6-A

Short name=GDF-6-A
Alternative name(s):
Growth differentiation factor 6A
Protein radar
Gene names
Name:gdf6a
Synonyms:radar, rdr
OrganismDanio rerio (Zebrafish) (Brachydanio rerio) [Reference proteome]
Taxonomic identifier7955 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio

Protein attributes

Sequence length404 AA.
Sequence statusComplete.
Sequence processingThe displayed sequence is further processed into a mature form.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Growth factor that controls proliferation and cellular differentiation in the retina. Plays a key role in regulating apoptosis during retinal development. Establishes dorsal-ventral positional information in the retina and controls the formation of the retinotectal map. Functions maternally in dorsal/ventral patterning to induce the expression of the zygotic bmp2b and bmp4 genes and ventralize embryos. Zygotic expression does not appear to regulate axis specification, but instead functions to establish the integrity of the axial vessels during embryonic development. May be involved in maintaining the identity of cells of the dorsal-most neural tube and of at least a subset of neural crest cells. Ref.1 Ref.2 Ref.3 Ref.4 Ref.5 Ref.7 Ref.8 Ref.9

Subunit structure

Homodimer; disulfide-linked By similarity. UniProtKB P39905

Subcellular location

Secreted By similarity.

Tissue specificity

First expressed in late gastrula stage embryos (9.5 hours post fertilization (hpf)) in anterior neuroectoderm corresponding to the future dorsal part of the brain. Shortly after tailbud formation (11 hpf), expression expands to the entire neural region and is subsequently expressed in derivatives of the lateral neural plate and migrating neural crest cells, with the future midbrain and hindbrain showing strong expression. Also expressed weakly and transiently in the posterior embryo from 11.5 hpf to 15 hpf in the lateral mesoderm, and in ectoderm above the neural keel. At 14 hpf, expressed along the entire length of the embryo and starting around the 16-somite stage, expressed in the dorsal quadrant of the retina, representing the distal tip of the eye anlage. At this stage, also expressed in the hatching gland and the hypochord. At 24 hpf, expressed in the roof plate outlining the fourth brain ventricle, in the posterior hypochord, the primitive gut endoderm, the ventral tail mesenchyme, the dorsal part of the neural tube and the dorsal fin. Weakly expressed in the dorsal part of the posterior spinal cord and in blood cell precursors. Ref.1 Ref.2 Ref.3 Ref.4

Developmental stage

Expressed both maternally and zygotically. Expressed from early cleavage stage until blastula sphere stage. Expression is then barely detectable until the end of gastrulation (tailbud stage) when expression is resumed. Ref.3 Ref.5

Disruption phenotype

Adults display microphthalmia, with eyes obscured by overgrown skin and misshapen irides. Mutants at 2 weeks of age show profound alterations in the morphology of individual photoreceptor subtypes and UV cones. At later timepoints loss of normal retinal lamination is observed, together with a disorganization of Mueller glia cells. Adults, cone photoreceptors are dysmorphic and reduced in abundance. Ref.8

Sequence similarities

Belongs to the TGF-beta family.

Ontologies

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Signal peptide1 – 2424 Potential
Propeptide25 – 284260 Potential
PRO_0000342703
Chain285 – 404120Growth/differentiation factor 6-A
PRO_0000342704

Amino acid modifications

Glycosylation911N-linked (GlcNAc...) Potential
Disulfide bond303 ↔ 369 By similarity UniProtKB P39905
Disulfide bond332 ↔ 401 By similarity UniProtKB P39905
Disulfide bond336 ↔ 403 By similarity UniProtKB P39905
Disulfide bond368Interchain By similarity UniProtKB P39905

Experimental info

Sequence conflict511E → R no nucleotide entry Ref.2
Sequence conflict701V → L no nucleotide entry Ref.2

Sequences

Sequence LengthMass (Da)Tools
P85857 [UniParc].

Last modified July 1, 2008. Version 1.
Checksum: 23233847DF96E197

FASTA40446,290
        10         20         30         40         50         60 
MDALRAVAFY ALFVFLWSLP CCQSAALISQ KRSKGARSAF DGQRSHKFLK EILASSPGAS 

        70         80         90        100        110        120 
RRDDFKDPVV PHDYMISIYR TYSAAEKLGL NASFFRSSKS ANTITSFVDK GKDDLTLSPL 

       130        140        150        160        170        180 
RRQTYLFDVS TLSDKEELVG AELRIFRKSP GDVQPSPSGV YNLHLLSCRS ERPLASRSID 

       190        200        210        220        230        240 
LQDSRKAEWE VLDVWGIFKH RHQENQLCLQ LKVTYGKSDT EIDLKQLGFH RHSRTQQERA 

       250        260        270        280        290        300 
ILVVYTRSKK RENLFNEMKE KIKSRGDDDE EESALQFKAR RRRRTALNNR HGKRHGKKSK 

       310        320        330        340        350        360 
SRCSKKALHV NFKELGWDDW IIAPLDYEAY HCEGVCDFPL RSHLEPTNHA IIQTLMNSMD 

       370        380        390        400 
PNSTPPSCCV PTKLSPISIL YIDSGNNVVY KQYEDMVVEQ CGCR 

« Hide

References

[1]"The BMP-related protein radar: a maintenance factor for dorsal neuroectoderm cells?"
Delot E., Kataoka H., Goutel C., Yan Y.-L., Postlethwait J., Wittbrodt J., Rosa F.M.
Mech. Dev. 85:15-25(1999) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 1-56, FUNCTION, TISSUE SPECIFICITY.
[2]"Zebrafish Radar: a new member of the TGF-beta superfamily defines dorsal regions of the neural plate and the embryonic retina."
Rissi M., Wittbrodt J., Delot E., Naegeli M., Rosa F.M.
Mech. Dev. 49:223-234(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 51-404, FUNCTION, TISSUE SPECIFICITY.
Tissue: Embryo.
[3]"The ventralizing activity of Radar, a maternally expressed bone morphogenetic protein, reveals complex bone morphogenetic protein interactions controlling dorso-ventral patterning in zebrafish."
Goutel C., Kishimoto Y., Schulte-Merker S., Rosa F.M.
Mech. Dev. 99:15-27(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
[4]"Radar is required for the establishment of vascular integrity in the zebrafish."
Hall C.J., Flores M.V.C., Davidson A.J., Crosier K.E., Crosier P.S.
Dev. Biol. 251:105-117(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, TISSUE SPECIFICITY.
[5]"Maternal induction of ventral fate by zebrafish radar."
Sidi S., Goutel C., Peyrieras N., Rosa F.M.
Proc. Natl. Acad. Sci. U.S.A. 100:3315-3320(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, DEVELOPMENTAL STAGE.
[6]"Radar breaks the fog: insights into dorsoventral patterning in zebrafish."
Wilm T.P., Solnica-Krezel L.
Proc. Natl. Acad. Sci. U.S.A. 100:4363-4365(2003) [PubMed] [Europe PMC] [Abstract]
Cited for: REVIEW.
[7]"An essential role for Radar (Gdf6a) in inducing dorsal fate in the zebrafish retina."
Gosse N.J., Baier H.
Proc. Natl. Acad. Sci. U.S.A. 106:2236-2241(2009) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION.
[8]"Contribution of growth differentiation factor 6-dependent cell survival to early-onset retinal dystrophies."
Asai-Coakwell M., March L., Dai X.H., Duval M., Lopez I., French C.R., Famulski J., De Baere E., Francis P.J., Sundaresan P., Sauve Y., Koenekoop R.K., Berry F.B., Allison W.T., Waskiewicz A.J., Lehmann O.J.
Hum. Mol. Genet. 22:1432-1442(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, DISRUPTION PHENOTYPE.
[9]"Molecular mechanisms regulating ocular apoptosis in zebrafish gdf6a mutants."
Pant S.D., March L.D., Famulski J.K., French C.R., Lehmann O.J., Waskiewicz A.J.
Invest. Ophthalmol. Vis. Sci. 54:5871-5879(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION IN APOPTOSIS.
+Additional computationally mapped references.

Cross-references

Sequence databases

RefSeqNP_001153466.1. NM_001159994.1.
UniGeneDr.16432.

3D structure databases

ProteinModelPortalP85857.
SMRP85857. Positions 300-404.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING7955.ENSDARP00000069999.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSDART00000075517; ENSDARP00000069999; ENSDARG00000053479.
GeneID566470.
KEGGdre:566470.

Organism-specific databases

CTD566470.

Phylogenomic databases

eggNOGNOG317866.
GeneTreeENSGT00730000110209.
HOGENOMHOG000231514.
HOVERGENHBG107938.
KOK04664.
OMAFTRSQRK.
OrthoDBEOG7WMCK0.
PhylomeDBP85857.
TreeFamTF316134.

Gene expression databases

BgeeP85857.

Family and domain databases

Gene3D2.10.90.10. 1 hit.
InterProIPR029034. Cystine-knot_cytokine.
IPR001839. TGF-b_C.
IPR001111. TGF-b_N.
IPR015615. TGF-beta-rel.
IPR017948. TGFb_CS.
[Graphical view]
PANTHERPTHR11848. PTHR11848. 1 hit.
PfamPF00019. TGF_beta. 1 hit.
PF00688. TGFb_propeptide. 1 hit.
[Graphical view]
SMARTSM00204. TGFB. 1 hit.
[Graphical view]
SUPFAMSSF57501. SSF57501. 1 hit.
PROSITEPS00250. TGF_BETA_1. 1 hit.
PS51362. TGF_BETA_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio20888199.
PROP85857.

Entry information

Entry nameGDF6A_DANRE
AccessionPrimary (citable) accession number: P85857
Entry history
Integrated into UniProtKB/Swiss-Prot: July 1, 2008
Last sequence update: July 1, 2008
Last modified: June 11, 2014
This is version 44 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families