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Q9PWL5 (HXA4A_DANRE) Reviewed, UniProtKB/Swiss-Prot

Last modified April 16, 2014. Version 94. 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-A4a
Alternative name(s):
Homeobox protein Zf-26
Hoxx4
Gene names
Name:hoxa4a
Synonyms:hoxx4, zf26
OrganismDanio rerio (Zebrafish) (Brachydanio rerio) [Reference proteome]
Taxonomic identifier7955 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio

Protein attributes

Sequence length245 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 By similarity.

Developmental stage

First expressed at the 1-somite stage. At the 10-somite stage, weakly expressed in the paraxial mesoderm with an anterior expression limit at somite 1. At the 20-somite stage, expressed within the developing CNS with an anterior expression limit adjacent to the rhombomere 7/8 boundary. Ref.6 Ref.7

Sequence similarities

Belongs to the Antp homeobox family. Deformed subfamily.

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 – 245245Homeobox protein Hox-A4a
PRO_0000200053

Regions

DNA binding147 – 20660Homeobox
Motif126 – 1316Antp-type hexapeptide
Compositional bias231 – 2344Poly-Gln

Experimental info

Sequence conflict214 – 23219RSSSS…DATQQ → APRALHPPTITWKRTPLS in AAD15939. Ref.1
Sequence conflict2261K → E in CAA74285. Ref.6

Sequences

Sequence LengthMass (Da)Tools
Q9PWL5 [UniParc].

Last modified July 11, 2006. Version 2.
Checksum: 1AF7F6F0C13B4F10

FASTA24528,288
        10         20         30         40         50         60 
MIMSSYLINS NYIEPSFPPC EEYHQNGYMP VSSDYYERPK DPGFPHHEEA SYPRSNYQEQ 

        70         80         90        100        110        120 
SYDYGNVSTN DLNDFSDRHH AQPQSVSQNH GPRLTTESCV GSDGNKDCSL VSDALPGSQK 

       130        140        150        160        170        180 
SKEPVVYPWM KKVHVNTVTA SYSGGVPKRS RTAYTRQQAL ELEKEFHFNR YLTRRRRVEI 

       190        200        210        220        230        240 
AHTMCLSERQ VKIWFQNRRM KWKKDHKLPN TKIRSSSSAP SNHHVKTDAT QQQQTLLPTP 


CSSNL 

« Hide

References

« Hide 'large scale' references
[1]"Zebrafish hox clusters and vertebrate genome evolution."
Amores A., Force A., Yan Y.-L., Joly L., Amemiya C., Fritz A., Ho R.K., Langeland J., Prince V.E., Wang Y.-L., Westerfield M., Ekker M., Postlethwait J.H.
Science 282:1711-1714(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[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 (AUG-2006) to the EMBL/GenBank/DDBJ databases
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
[4]"Genomic annotation and transcriptome analysis of the zebrafish (Danio rerio) hox complex with description of a novel member, hoxb13a."
Corredor-Adamez M., Welten M.C.M., Spaink H.P., Jeffery J.E., Schoon R.T., de Bakker M.A.G., Bagowski C.P., Meijer A.H., Verbeek F.J., Richardson M.K.
Evol. Dev. 7:362-375(2005) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 68-148.
Strain: Tuebingen.
[5]"A new antennepedia-class gene from the zebrafish."
Runstadler J.A., Kocher T.D.
Nucleic Acids Res. 19:5434-5434(1991) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 147-201.
[6]"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 157-245, DEVELOPMENTAL STAGE.
Tissue: Embryo.
[7]"Zebrafish hox genes: genomic organization and modified colinear expression patterns in the trunk."
Prince V.E., Joly L., Ekker M., Ho R.K.
Development 125:407-420(1998) [PubMed] [Europe PMC] [Abstract]
Cited for: DEVELOPMENTAL STAGE.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AF071246 Genomic DNA. Translation: AAD15939.1.
CR382300 Genomic DNA. Translation: CAK10850.1.
BC122457 mRNA. Translation: AAI22458.1.
DQ060533 mRNA. Translation: AAY67911.1.
M76382 Genomic DNA. Translation: AAA50034.1.
Y13947 mRNA. Translation: CAA74285.1.
PIRS34415.
RefSeqNP_571610.1. NM_131535.1.
UniGeneDr.159437.

3D structure databases

ProteinModelPortalQ9PWL5.
SMRQ9PWL5. Positions 120-207.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSDART00000080466; ENSDARP00000074915; ENSDARG00000057724.
GeneID58050.
KEGGdre:58050.

Organism-specific databases

CTD58050.
ZFINZDB-GENE-000823-4. hoxa4a.

Phylogenomic databases

eggNOGNOG317510.
HOGENOMHOG000231179.
HOVERGENHBG016849.
InParanoidQ9PWL5.
OMASDGHHAQ.
OrthoDBEOG780RP4.
PhylomeDBQ9PWL5.
TreeFamTF352857.

Gene expression databases

BgeeQ9PWL5.

Family and domain databases

Gene3D1.10.10.60. 1 hit.
InterProIPR017995. Homeobox_antennapedia.
IPR001827. Homeobox_Antennapedia_CS.
IPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
[Graphical view]
PfamPF00046. Homeobox. 1 hit.
[Graphical view]
PRINTSPR00025. ANTENNAPEDIA.
PR00024. 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

NextBio20892314.

Entry information

Entry nameHXA4A_DANRE
AccessionPrimary (citable) accession number: Q9PWL5
Secondary accession number(s): O42371 expand/collapse secondary AC list , Q05784, Q0P3T8, Q1L970, Q4PRB0
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 2005
Last sequence update: July 11, 2006
Last modified: April 16, 2014
This is version 94 of the entry and version 2 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