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O42368 (HXB3A_DANRE) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 109. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (2) | 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:
Homeobox protein Hox-B3a

Short name=Hox-B3
Gene names
Name:hoxb3a
Synonyms:hoxb3
ORF Names:zgc:111819
OrganismDanio rerio (Zebrafish) (Brachydanio rerio) [Reference proteome]
Taxonomic identifier7955 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio

Protein attributes

Sequence length417 AA.
Sequence statusComplete.
Protein existenceEvidence at transcript level

General annotation (Comments)

Function

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis By similarity.

Subcellular location

Nucleus.

Developmental stage

First expressed at the 1- to 2-somite stages posterior to rhombomere 5 (r5) of the developing hindbrain. By the 3- to 4-somite stages, the anterior expression limit is at the r4/r5 boundary. At 5- to 10-somite stages, expressed at high levels in r5 and r6. From the 20- to 30-somite stages, expressed weakly in r4. Ref.4

Sequence similarities

Belongs to the Antp homeobox family.

Contains 1 homeobox DNA-binding domain.

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
   Cellular componentNucleus
   DomainHomeobox
   LigandDNA-binding
   Molecular functionDevelopmental protein
   Technical termComplete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processmulticellular organismal development

Inferred from electronic annotation. Source: UniProtKB-KW

transcription, DNA-templated

Inferred from electronic annotation. Source: UniProtKB-KW

   Cellular_componentnucleus

Inferred from electronic annotation. Source: UniProtKB-SubCell

   Molecular_functionsequence-specific DNA binding

Inferred from electronic annotation. Source: InterPro

sequence-specific DNA binding transcription factor activity

Inferred from electronic annotation. Source: InterPro

Complete GO annotation...

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 417417Homeobox protein Hox-B3a
PRO_0000200120

Regions

DNA binding180 – 23960Homeobox
Motif140 – 1456Antp-type hexapeptide

Experimental info

Sequence conflict1141G → V in AAH95559. Ref.3

Sequences

Sequence LengthMass (Da)Tools
O42368 [UniParc].

Last modified February 1, 2005. Version 3.
Checksum: 33A68839BE3CC35A

FASTA41744,580
        10         20         30         40         50         60 
MQKTTYYDNS TLFGGYSYQG ANGFGYDAPA PAFQNSAHLE GDYQRSACSL QSLGTSAPPQ 

        70         80         90        100        110        120 
PQHAKTKELN GSCMRPSLPP EHHPPPQVSP PQNTVNVAAT NATQQPGGSG GGGGAGSGGT 

       130        140        150        160        170        180 
SKSSSKSSSM ATNPTLTKQI FPWMKESRQN TKQKNSSPSA SSANAESSGG EKSPPGSAAS 

       190        200        210        220        230        240 
KRARTAYTSA QLVELEKEFH FNRYLCRPRR VEMANLLNLS ERQIKIWFQN RRMKYKKDQK 

       250        260        270        280        290        300 
SKGIGSSSGG PSPTGSPPLP MQSSAGFMNS MHSMGSYDAP SPPSFNKPHQ NAYAMSTAYQ 

       310        320        330        340        350        360 
NPMKGCPPQQ KYGNTPPDYD PHGLQGNSGN YGTPNMQGSP VYVGGNYVDA MPATGPSMYG 

       370        380        390        400        410 
LNHLPHHQSA SMDYNGATQM SANQHHGPCD PHPTYTDLSA HHPSQGRIQE APKLTHL 

« Hide

References

« Hide 'large scale' references
[1]"Ectopic expression of Hox paralog group 3 genes disrupts zebrafish hindbrain organization and craniofacial development in the absence of homeotic transformations."
Hunter M.P., Prince V.E.
Submitted (JAN-2003) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [MRNA].
Tissue: Embryo.
[2]"The zebrafish reference genome sequence and its relationship to the human genome."
Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M., Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I., Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J. expand/collapse author list , White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y., Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B., Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S., Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M., Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J., Clee C., Oliver K., Clark R., Riddle C., Eliott D., Threadgold G., Harden G., Ware D., Mortimer B., Kerry G., Heath P., Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S., Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J., Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J., Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D., McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S., Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E., Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A., Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P., Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J., Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E., Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C., Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C., Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M., Oberlander M., Rudolph-Geiger S., Teucke M., Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M., Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M., de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C., Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.
Nature 496:498-503(2013) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: Tuebingen.
[3]NIH - Zebrafish Gene Collection (ZGC) project
Submitted (MAY-2005) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
Tissue: Larva.
[4]"Zebrafish hox genes: expression in the hindbrain region of wild-type and mutants of the segmentation gene, valentino."
Prince V.E., Moens C.B., Kimmel C.B., Ho R.K.
Development 125:393-406(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 208-417, DEVELOPMENTAL STAGE.
Tissue: Embryo.
[5]Prince V.E.
Submitted (JUL-1999) to the EMBL/GenBank/DDBJ databases
Cited for: SEQUENCE REVISION.
[6]"Comparative genomic analysis of vertebrate Hox3 and Hox4 genes."
Hadrys T., Prince V.E., Hunter M.P., Baker R., Rinkwitz S.
J. Exp. Zool. B Mol. Dev. Evol. 302:147-164(2004) [PubMed] [Europe PMC] [Abstract]
Cited for: GENE STRUCTURE.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AJ537509 mRNA. Translation: CAD61096.1.
AL645782 Genomic DNA. Translation: CAD59116.1.
BC095559 mRNA. Translation: AAH95559.1.
Y13944 mRNA. Translation: CAA74282.2.
BK005081 mRNA. Translation: DAA05213.1.
BK005082 mRNA. Translation: DAA05214.1.
RefSeqNP_571192.2. NM_131117.3.
XP_005171611.1. XM_005171554.1.
XP_005171612.1. XM_005171555.1.
XP_005171613.1. XM_005171556.1.
XP_005171614.1. XM_005171557.1.
XP_005171615.1. XM_005171558.1.
XP_005171616.1. XM_005171559.1.
XP_005171617.1. XM_005171560.1.
XP_005171618.1. XM_005171561.1.
XP_005171619.1. XM_005171562.1.
UniGeneDr.132502.

3D structure databases

ProteinModelPortalO42368.
SMRO42368. Positions 180-239.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSDART00000078466; ENSDARP00000072928; ENSDARG00000029263.
ENSDART00000153512; ENSDARP00000128207; ENSDARG00000029263.
GeneID30339.
KEGGdre:30339.

Organism-specific databases

CTD30339.
ZFINZDB-GENE-990415-104. hoxb3a.

Phylogenomic databases

eggNOGNOG284589.
GeneTreeENSGT00750000117486.
HOGENOMHOG000252944.
HOVERGENHBG107984.
InParanoidO42368.
KOK09303.
OMAATYYDNT.
OrthoDBEOG754HPS.
PhylomeDBO42368.
TreeFamTF315938.

Gene expression databases

BgeeO42368.

Family and domain databases

Gene3D1.10.10.60. 1 hit.
InterProIPR025281. DUF4074.
IPR001827. Homeobox_Antennapedia_CS.
IPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
[Graphical view]
PfamPF13293. DUF4074. 1 hit.
PF00046. Homeobox. 1 hit.
[Graphical view]
PRINTSPR00024. HOMEOBOX.
SMARTSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMSSF46689. SSF46689. 1 hit.
PROSITEPS00032. ANTENNAPEDIA. 1 hit.
PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio20806770.
PROO42368.

Entry information

Entry nameHXB3A_DANRE
AccessionPrimary (citable) accession number: O42368
Secondary accession number(s): Q4VBK5, Q8AWY5
Entry history
Integrated into UniProtKB/Swiss-Prot: July 15, 1999
Last sequence update: February 1, 2005
Last modified: May 14, 2014
This is version 109 of the entry and version 3 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

Vertebrate homeotic Hox proteins

Nomenclature of vertebrate homeotic Hox proteins and list of entries