Reviewed, UniProtKB/Swiss-Prot Q9PWL6 (HXA9A_DANRE)

Names and origin

Protein names

Recommended name:
    Homeobox protein Hox-A9a
      Short name=Hoxx9

Gene names

Name:	hoxa9a
Synonyms:	hoxx9
ORF Names:	zgc:110505

Organism

Danio rerio (Zebrafish) (Brachydanio rerio)

Taxonomic identifier

7955 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Actinopterygii › Neopterygii › Teleostei › Ostariophysi › Cypriniformes › Cyprinidae › Danio

Protein attributes

Sequence length	250 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence 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	At the 10-somite stage, expressed in the paraxial mesoderm with an anterior expression limit at somite 8. At the 20-somite stage, expressed within the developing CNS with an anterior expression limit adjacent to the somite 4/5 boundary. Ref.5
Sequence similarities	Belongs to the Abd-B homeobox family. Contains 1 homeobox DNA-binding domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Domain	Homeobox
Ligand	DNA-binding
Molecular function	Developmental protein
Gene Ontology (GO)
Biological process	multicellular organismal development Inferred from electronic annotation. Source: UniProtKB-KW regulation of transcription, DNA-dependent Inferred from electronic annotation. Source: InterPro transcription Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	nucleus Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular function	sequence-specific DNA binding Inferred from electronic annotation. Source: InterPro transcription activator activity Inferred from electronic annotation. Source: InterPro transcription factor activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 250	250	Homeobox protein Hox-A9a		PRO_0000200084
Regions
	DNA binding	184 – 243	60	Homeobox
Experimental info
	Sequence conflict	166 – 170	5	KPGAD → NRALI in AAD15941. Ref.1

Sequences

	Sequence		Length	Mass (Da)
	Q9PWL6-1 [UniParc]. Last modified July 11, 2006. Version 2. Checksum: C15D508AABAC1547	FASTA	250	28,010
	10 20 30 40 50 60 MSTSGALTGY YVDSIVIPGS EETRFSSGLG LIQHRPTILP ADLSDLGPCT FPAKQPVYGT 70 80 90 100 110 120 SDWGHIPTHF STGVPSVYQP HAQPPVVGDY VQSWLLDSAC GLPQTEPPTV NHNHAKSDTN 130 140 150 160 170 180 ETNDDGTEYS PHTILQPEVF TNGGCSTKTE AESSRTAEKS GDIEGKPGAD PENPVSNWLH 190 200 210 220 230 240 ASSTRKKRCP YTKHQILELE KEFLFNTYLT RDRRYEVARL LNLTERQVKI WFQNRRMKMK 250 KFNKNETKED

References

	« Hide 'large scale' referencesShow '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: 9831563] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	The Danio rerio sequencing project at the Sanger Institute Submitted (MAY-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Tuebingen.
[3]	NIH - Zebrafish Gene Collection (ZGC) project Submitted (FEB-2005) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Embryo.
[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: 16174031] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 71-181. Strain: Tuebingen.
[5]	"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: 9425136] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 214-250, DEVELOPMENTAL STAGE. Tissue: Embryo.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AF071248 Genomic DNA. Translation: AAD15941.1. CR382300 Genomic DNA. Translation: CAK10848.1. BC090700 mRNA. Translation: AAH90700.1. DQ060535 mRNA. Translation: AAY67913.1. Y14538 mRNA. Translation: CAA74873.1.
IPI	IPI00499910.
RefSeq	NP_571607.2.
UniGene	Dr.5730
3D structure databases
SMR	Q9PWL6. Positions 173-248.
ModBase	Search...
Genome annotation databases
Ensembl	ENSDART00000006934; ENSDARP00000009894; ENSDARG00000009461; Danio rerio. [Genome view]
GeneID	58047.
KEGG	dre:58047.
NMPDR	fig|7955.3.peg.29354.
Organism-specific databases
CTD	58047.
ZFIN	ZDB-GENE-000823-1. hoxa9a.
Phylogenomic databases
HOGENOM	Q9PWL6.
HOVERGEN	Q9PWL6.
OMA	RMKMKKF
OrthoDB	EOG9K9FVX
Gene expression databases
ArrayExpress	Q9PWL6.
Bgee	Q9PWL6.
Family and domain databases
InterPro	IPR001356. Homeobox. IPR017970. Homeobox_CS. IPR017112. Homeobox_Hox9. IPR020479. Homeobox_region. IPR009057. Homeodomain-like. IPR012287. Homeodomain-rel. IPR006711. Hox9_act. [Graphical view]
Gene3D	G3DSA:1.10.10.60. Homeodomain-rel. 1 hit.
Pfam	PF00046. Homeobox. 1 hit. PF04617. Hox9_act. 1 hit. [Graphical view]
PIRSF	PIRSF037109. Homeobox_Hox9. 1 hit.
PRINTS	PR00024. HOMEOBOX.
SMART	SM00389. HOX. 1 hit. [Graphical view]
PROSITE	PS00027. HOMEOBOX_1. 1 hit. PS50071. HOMEOBOX_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

HXA9A_DANRE

Accession

Primary (citable) accession number: Q9PWL6
Secondary accession number(s): O57376, Q4PRA8, Q5CZU7

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 2005
Last sequence update:	July 11, 2006
Last modified:	November 24, 2009
This is version 57 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

Zebrafish annotation project