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Q9PWL5

- HXA4A_DANRE

UniProt

Q9PWL5 - HXA4A_DANRE

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Protein

Homeobox protein Hox-A4a

Gene
hoxa4a, hoxx4, zf26
Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed - Annotation score: 3 out of 5 - Experimental evidence at transcript leveli

Functioni

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.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi147 – 20660HomeoboxAdd
BLAST

GO - Molecular functioni

  1. sequence-specific DNA binding Source: InterPro
  2. sequence-specific DNA binding transcription factor activity Source: InterPro

GO - Biological processi

  1. multicellular organismal development Source: UniProtKB-KW
  2. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Homeobox protein Hox-A4a
Alternative name(s):
Homeobox protein Zf-26
Hoxx4
Gene namesi
Name:hoxa4a
Synonyms:hoxx4, zf26
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
ProteomesiUP000000437: Chromosome 19

Organism-specific databases

ZFINiZDB-GENE-000823-4. hoxa4a.

Subcellular locationi

Nucleus By similarity

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 245245Homeobox protein Hox-A4aPRO_0000200053Add
BLAST

Expressioni

Developmental stagei

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.2 Publications

Gene expression databases

BgeeiQ9PWL5.

Structurei

3D structure databases

ProteinModelPortaliQ9PWL5.
SMRiQ9PWL5. Positions 120-207.

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi126 – 1316Antp-type hexapeptide

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi231 – 2344Poly-Gln

Sequence similaritiesi

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiNOG317510.
GeneTreeiENSGT00750000117486.
HOGENOMiHOG000231179.
HOVERGENiHBG016849.
InParanoidiQ9PWL5.
OMAiSDGHHAQ.
OrthoDBiEOG780RP4.
PhylomeDBiQ9PWL5.
TreeFamiTF352857.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017995. Homeobox_antennapedia.
IPR001827. Homeobox_Antennapedia_CS.
IPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
[Graphical view]
PfamiPF00046. Homeobox. 1 hit.
[Graphical view]
PRINTSiPR00025. ANTENNAPEDIA.
PR00024. HOMEOBOX.
SMARTiSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS00032. ANTENNAPEDIA. 1 hit.
PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9PWL5-1 [UniParc]FASTAAdd to Basket

« Hide

MIMSSYLINS NYIEPSFPPC EEYHQNGYMP VSSDYYERPK DPGFPHHEEA    50
SYPRSNYQEQ SYDYGNVSTN DLNDFSDRHH AQPQSVSQNH GPRLTTESCV 100
GSDGNKDCSL VSDALPGSQK SKEPVVYPWM KKVHVNTVTA SYSGGVPKRS 150
RTAYTRQQAL ELEKEFHFNR YLTRRRRVEI AHTMCLSERQ VKIWFQNRRM 200
KWKKDHKLPN TKIRSSSSAP SNHHVKTDAT QQQQTLLPTP CSSNL 245
Length:245
Mass (Da):28,288
Last modified:July 11, 2006 - v2
Checksum:i1AF7F6F0C13B4F10
GO

Sequence conflict

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti214 – 23219RSSSS…DATQQ → APRALHPPTITWKRTPLS in AAD15939. 1 PublicationAdd
BLAST
Sequence conflicti226 – 2261K → E in CAA74285. 1 Publication

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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.
PIRiS34415.
RefSeqiNP_571610.1. NM_131535.1.
UniGeneiDr.159437.

Genome annotation databases

EnsembliENSDART00000080466; ENSDARP00000074915; ENSDARG00000036231.
GeneIDi58050.
KEGGidre:58050.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
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 .
PIRi S34415.
RefSeqi NP_571610.1. NM_131535.1.
UniGenei Dr.159437.

3D structure databases

ProteinModelPortali Q9PWL5.
SMRi Q9PWL5. Positions 120-207.
ModBasei Search...
MobiDBi Search...

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

Ensembli ENSDART00000080466 ; ENSDARP00000074915 ; ENSDARG00000036231 .
GeneIDi 58050.
KEGGi dre:58050.

Organism-specific databases

CTDi 58050.
ZFINi ZDB-GENE-000823-4. hoxa4a.

Phylogenomic databases

eggNOGi NOG317510.
GeneTreei ENSGT00750000117486.
HOGENOMi HOG000231179.
HOVERGENi HBG016849.
InParanoidi Q9PWL5.
OMAi SDGHHAQ.
OrthoDBi EOG780RP4.
PhylomeDBi Q9PWL5.
TreeFami TF352857.

Miscellaneous databases

NextBioi 20892314.

Gene expression databases

Bgeei Q9PWL5.

Family and domain databases

Gene3Di 1.10.10.60. 1 hit.
InterProi IPR017995. Homeobox_antennapedia.
IPR001827. Homeobox_Antennapedia_CS.
IPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
[Graphical view ]
Pfami PF00046. Homeobox. 1 hit.
[Graphical view ]
PRINTSi PR00025. ANTENNAPEDIA.
PR00024. HOMEOBOX.
SMARTi SM00389. HOX. 1 hit.
[Graphical view ]
SUPFAMi SSF46689. SSF46689. 1 hit.
PROSITEi PS00032. ANTENNAPEDIA. 1 hit.
PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. 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.
    , 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.

Entry informationi

Entry nameiHXA4A_DANRE
AccessioniPrimary (citable) accession number: Q9PWL5
Secondary accession number(s): O42371
, Q05784, Q0P3T8, Q1L970, Q4PRB0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 2005
Last sequence update: July 11, 2006
Last modified: May 14, 2014
This is version 95 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Vertebrate homeotic Hox proteins
    Nomenclature of vertebrate homeotic Hox proteins and list of entries
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi