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Q98SI1 (HXA1A_DANRE) Reviewed, UniProtKB/Swiss-Prot

Last modified May 14, 2014. Version 86. 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·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Homeobox protein Hox-A1a

Short name=Hox-A1
Gene names
Name:hoxa1a
Synonyms:hoxa1
OrganismDanio rerio (Zebrafish) (Brachydanio rerio) [Reference proteome]
Taxonomic identifier7955 [NCBI]
Taxonomic lineageEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio

Protein attributes

Sequence length329 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.

Sequence similarities

Belongs to the Antp homeobox family. Labial subfamily.

Contains 1 homeobox DNA-binding domain.

Ontologies

Keywords
   Biological processTranscription
Transcription regulation
   Cellular componentNucleus
   Coding sequence diversityAlternative splicing
   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...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]
Isoform 1 (identifier: Q98SI1-1)

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.
Isoform 2 (identifier: Q98SI1-2)

The sequence of this isoform differs from the canonical sequence as follows:
     158-192: Missing.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 329329Homeobox protein Hox-A1a
PRO_0000200033

Regions

DNA binding225 – 28460Homeobox
Motif200 – 2056Antp-type hexapeptide

Natural variations

Alternative sequence158 – 19235Missing in isoform 2.
VSP_012678

Experimental info

Sequence conflict1 – 2828MSTFL…VRAFH → MEVAGARAQSGRSQ Ref.2
Sequence conflict2961Q → E in CAC34566. Ref.1

Sequences

Sequence LengthMass (Da)Tools
Isoform 1 [UniParc].

Last modified June 1, 2001. Version 1.
Checksum: CBF2C722F50A85D5

FASTA32935,737
        10         20         30         40         50         60 
MSTFLDFSSI SGGGDGGSGG SCSVRAFHGD HGLSTFQSSC AVRLNSCSGD ERFMSNISSQ 

        70         80         90        100        110        120 
DVINSQPQQA GSYQSPGTLS ITYSAHPSYG TQSFCTGYNH YALNQDVESS VSFPQCGPLV 

       130        140        150        160        170        180 
YSGNISSTVV QHRHHRHGYS SGNVHLHGQF QYGSATYGNS SDQANLTFVA GCSNPLSPLH 

       190        200        210        220        230        240 
VPHHDACCSP LSDGVPTGQT FDWMKVKRNP PKTGKAGEYG FGGQPNTVRT NFSTKQLTEL 

       250        260        270        280        290        300 
EKEFHFNKYL TRARRVEIAA SLQLNETQVK IWFQNRRMKQ KKREKEGLLP KSLSEQKDGL 

       310        320 
EKTEDASEKS PSAPSTPSPS PTVEAYSSN 

« Hide

Isoform 2 [UniParc].

Checksum: 8A603E507F410727
Show »

FASTA29432,178

References

« Hide 'large scale' references
[1]"Consequences of Hox gene duplication in the vertebrates: an investigation of the zebrafish Hox paralogue group 1 genes."
McClintock J.M., Carlson R., Mann D.M., Prince V.E.
Development 128:2471-2484(2001) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS 1 AND 2).
[2]"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].
[3]"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.
[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 136-224.
Strain: Tuebingen.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AJ306430 mRNA. Translation: CAC34565.1.
AJ306431 mRNA. Translation: CAC34566.1.
AF071243 Genomic DNA. Translation: AAD15937.1.
AL645756 Genomic DNA. Translation: CAD52136.1.
AL645756 Genomic DNA. Translation: CAD52137.1.
CR382300 Genomic DNA. Translation: CAK10852.1.
DQ060531 mRNA. Translation: AAY67909.1.
RefSeqNP_571611.1. NM_131536.2. [Q98SI1-1]
XP_005159579.1. XM_005159522.1. [Q98SI1-2]
UniGeneDr.83046.

3D structure databases

ProteinModelPortalQ98SI1.
SMRQ98SI1. Positions 198-286.
ModBaseSearch...
MobiDBSearch...

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblENSDART00000080456; ENSDARP00000074905; ENSDARG00000057721. [Q98SI1-2]
ENSDART00000080461; ENSDARP00000074910; ENSDARG00000057721. [Q98SI1-1]
GeneID58051.
KEGGdre:58051.

Organism-specific databases

CTD58051.
ZFINZDB-GENE-000823-5. hoxa1a.

Phylogenomic databases

eggNOGNOG236971.
GeneTreeENSGT00750000117389.
HOGENOMHOG000247020.
HOVERGENHBG006089.
InParanoidQ98SI1.
KOK09301.
OMACAVSANS.
OrthoDBEOG7PK91P.
PhylomeDBQ98SI1.
TreeFamTF317730.

Gene expression databases

BgeeQ98SI1.

Family and domain databases

Gene3D1.10.10.60. 1 hit.
InterProIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
[Graphical view]
PfamPF00046. Homeobox. 1 hit.
[Graphical view]
PRINTSPR00024. HOMEOBOX.
SMARTSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMSSF46689. SSF46689. 1 hit.
PROSITEPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

NextBio20892315.
PROQ98SI1.

Entry information

Entry nameHXA1A_DANRE
AccessionPrimary (citable) accession number: Q98SI1
Secondary accession number(s): Q1L968 expand/collapse secondary AC list , Q4PRB2, Q8AWZ1, Q98SI0, Q9YGT8
Entry history
Integrated into UniProtKB/Swiss-Prot: February 1, 2005
Last sequence update: June 1, 2001
Last modified: May 14, 2014
This is version 86 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

Vertebrate homeotic Hox proteins

Nomenclature of vertebrate homeotic Hox proteins and list of entries