Q9PWL5 (HXA4A_DANRE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Homeobox protein Hox-A4a

Alternative name(s):
Homeobox protein Zf-26
Hoxx4

Gene names

Name:	hoxa4a
Synonyms:	hoxx4, zf26

Organism

Danio rerio (Zebrafish) (Brachydanio rerio) [Reference proteome]

Taxonomic identifier

7955 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Actinopterygii › Actinopteri › Neopterygii › Teleostei › Elopocephala › Clupeocephala › Otocephala › Ostariophysi › Otophysi › Cypriniphysi › Cypriniformes › Cyprinoidea › Cyprinidae › Danio

Protein attributes

Sequence length	245 AA.
Sequence status	Complete.
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	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 process	Transcription Transcription regulation
Cellular component	Nucleus
Domain	Homeobox
Ligand	DNA-binding
Molecular function	Developmental protein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	multicellular organismal development Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent 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 sequence-specific DNA binding 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 – 245	245	Homeobox protein Hox-A4a		PRO_0000200053
Regions
	DNA binding	147 – 206	60	Homeobox
	Motif	126 – 131	6	Antp-type hexapeptide
	Compositional bias	231 – 234	4	Poly-Gln
Experimental info
	Sequence conflict	214 – 232	19	RSSSS…DATQQ → APRALHPPTITWKRTPLS in AAD15939. Ref.1
	Sequence conflict	226	1	K → E in CAA74285. Ref.6

Sequences

	Sequence		Length	Mass (Da)
	Q9PWL5 [UniParc]. Last modified July 11, 2006. Version 2. Checksum: 1AF7F6F0C13B4F10	FASTA	245	28,288
	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

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] [Europe PMC] [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 (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.
IPI	IPI00487552.
PIR	S34415.
RefSeq	NP_571610.1. NM_131535.1.
UniGene	Dr.159437.
3D structure databases
ProteinModelPortal	Q9PWL5.
SMR	Q9PWL5. Positions 120-207.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
Ensembl	ENSDART00000080466; ENSDARP00000074915; ENSDARG00000057724.
GeneID	58050.
KEGG	dre:58050.
Organism-specific databases
CTD	58050.
ZFIN	ZDB-GENE-000823-4. hoxa4a.
Phylogenomic databases
eggNOG	NOG317510.
GeneTree	ENSGT00700000104090.
HOGENOM	HOG000231179.
HOVERGEN	HBG016849.
InParanoid	Q9PWL5.
OMA	PGDYYER.
OrthoDB	EOG4S1T87.
Gene expression databases
Bgee	Q9PWL5.
Family and domain databases
Gene3D	1.10.10.60. 1 hit.
InterPro	IPR017995. Homeobox_antennapedia. IPR001827. Homeobox_Antennapedia_CS. IPR017970. Homeobox_CS. IPR020479. Homeobox_metazoa. IPR001356. Homeodomain. IPR009057. Homeodomain-like. [Graphical view]
Pfam	PF00046. Homeobox. 1 hit. [Graphical view]
PRINTS	PR00025. ANTENNAPEDIA. PR00024. HOMEOBOX.
SMART	SM00389. HOX. 1 hit. [Graphical view]
SUPFAM	SSF46689. Homeodomain_like. 1 hit.
PROSITE	PS00032. ANTENNAPEDIA. 1 hit. PS00027. HOMEOBOX_1. 1 hit. PS50071. HOMEOBOX_2. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	20892314.

Entry information

Entry name

HXA4A_DANRE

Accession

Primary (citable) accession number: Q9PWL5
Secondary accession number(s): O42371 , Q05784, Q0P3T8, Q1L970, Q4PRB0

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 2005
Last sequence update:	July 11, 2006
Last modified:	April 3, 2013
This is version 87 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program