Reviewed, UniProtKB/Swiss-Prot P09022 (HXA1_MOUSE)

Names and origin

Protein names

Recommended name:
    Homeobox protein Hox-A1
Alternative name(s):
    Hox-1.6
    Homeotic protein ERA-1-993
    Early retinoic acid 1
    Homeoboxless protein ERA-1-399

Gene names

Name:	Hoxa1
Synonyms:	Era-1, Hox-1.6, Hoxa-1

Organism

Mus musculus (Mouse)

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus

Protein attributes

Sequence length	331 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. Acts on the anterior body structures. Seems to act in the maintenance and/or generation of hindbrain segments. The homeobox domain presumably directs sequence-specific DNA binding. The N-terminal portion of ERA-1-993 may be involved in interactions with one or more other regulatory proteins. Such an interaction could regulate either the DNA-binding activity or the transcriptional regulatory activity of ERA-1-993. The homeoboxless ERA-1-399 protein could act as a competitive inhibitor of the ERA-1-993 protein by competing for interaction with regulatory protein(s) while being unable to bind to DNA.
Subcellular location	Nucleus.
Developmental stage	Expressed along the entire length of the primitive streak. In early neurogenesis it is expressed in lateral and paraxial mesoderm, endoderm and superficial ectoderm or in the neural tube. From late neurogenesis to mid-embryogenesis, it presents similar spatial domains in the lateral mesoderm, endoderm and superficial ectoderm but is not detectable in any part of the hindbrain. At day 8-8.5 post-coitum found in the embryonic mesoderm, anterior to the first somite, up to the cephalic region at the level of the foregut and developing heart. At day 9 post-coitum found in an anterior part of the developing foregut and is restricted to an epithelial cell type. Expression in the gut is found at the level of the second to third branchial bars.
Induction	By retinoic acid.
Sequence similarities	Belongs to the Antp homeobox family. Labial subfamily. Contains 1 homeobox DNA-binding domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Nucleus
Coding sequence diversity	Alternative splicing
Domain	Homeobox
Ligand	DNA-binding
Molecular function	Developmental protein
Gene Ontology (GO)
Biological process	anatomical structure formation Inferred from genetic interaction. Source: MGI anterior/posterior pattern formation Inferred from mutant phenotype. Source: MGI central nervous system neuron differentiation Inferred from mutant phenotype. Source: MGI facial nerve structural organization Inferred from genetic interaction. Source: MGI facial nucleus development Inferred from mutant phenotype. Source: MGI inner ear morphogenesis Inferred from mutant phenotype. Source: MGI motor axon guidance Inferred from genetic interaction. Source: MGI regulation of transcription from RNA polymerase II promoter Inferred from direct assay. Source: MGI rhombomere 3 development Inferred from genetic interaction. Source: MGI rhombomere 4 development Inferred from mutant phenotype. Source: MGI rhombomere 5 development Inferred from mutant phenotype. Source: MGI
Complete GO annotation...

Alternative products

This entry describes 2 isoforms produced by alternative splicing. [Align] [Select]

Isoform ERA-1-993 (identifier: P09022-1)

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 ERA-1-399 (identifier: P09022-2)

The sequence of this isoform differs from the canonical sequence as follows:
     115-133: VSGGYPPCAPAVYSGNLST → PPRSLSFPCFRDVFSSADL
     134-331: Missing.

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view
Molecule processing
	Chain	1 – 331	331	Homeobox protein Hox-A1
Regions
	DNA binding	225 – 284	60	Homeobox
	Motif	200 – 205	6	Antp-type hexapeptide
	Compositional bias	60 – 70	11	Poly-His
	Compositional bias	138 – 142	5	Poly-His
Natural variations
	Alternative sequence	115 – 133	19	VSGGY…GNLST → PPRSLSFPCFRDVFSSADL in isoform ERA-1-399.
	Alternative sequence	134 – 331	198	Missing in isoform ERA-1-399.

Sequences

	Sequence		Length	Mass (Da)
	Isoform ERA-1-993 [UniParc]. Last modified April 1, 1990. Version 2. Checksum: F73E4FFB1C6F15B2	FASTA	331	36,037
	10 20 30 40 50 60 MNSFLEYPIL GSGDSGTCSA RAYPSDHGIT TFQSCAVSAN SCGGDDRFLV GRGVQISSPH 70 80 90 100 110 120 HHHHHHHHHH PQTATYQTSG NLGISYSHSS CGPSYGAQNF SAPYGPYGLN QEADVSGGYP 130 140 150 160 170 180 PCAPAVYSGN LSTPMVQHHH HHQGYAGGTV GSPQYIHHSY GQEQQTLALA TYNNSLSPLH 190 200 210 220 230 240 ASHQEACRSP ASETSSPAQT FDWMKVKRNP PKTGKVGEYG YVGQPNAVRT NFTTKQLTEL 250 260 270 280 290 300 EKEFHFNKYL TRARRVEIAA SLQLNETQVK IWFQNRRMKQ KKREKEGLLP ISPATPPGSD 310 320 330 EKTEESSEKS SPSPSAPSPA SSTSDTLTTS H
	Isoform ERA-1-399 [UniParc]. Checksum: F3A12654DA61A299		133	14,290
	10 20 30 40 50 60 MNSFLEYPIL GSGDSGTCSA RAYPSDHGIT TFQSCAVSAN SCGGDDRFLV GRGVQISSPH 70 80 90 100 110 120 HHHHHHHHHH PQTATYQTSG NLGISYSHSS CGPSYGAQNF SAPYGPYGLN QEADPPRSLS 130 FPCFRDVFSS ADL

References

[1]	"Early retinoic acid-induced F9 teratocarcinoma stem cell gene ERA-1: alternate splicing creates transcripts for a homeobox-containing protein and one lacking the homeobox." Larosa G.J., Gudas L.J. Mol. Cell. Biol. 8:3906-3917(1988) [PubMed: 2906112] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]	"Hox-1.6: a mouse homeo-box-containing gene member of the Hox-1 complex." Baron A., Featherstone M.S., Hill R.E., Hall A., Galliott B., Duboule D. EMBO J. 6:2977-2986(1987) [PubMed: 2891503] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 204-331.
[3]	"The structural and functional organization of the murine HOX gene family resembles that of Drosophila homeotic genes." Duboule D., Dolle P. EMBO J. 8:1497-1505(1989) [PubMed: 2569969] [Abstract] Cited for: DEVELOPMENTAL STAGE.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBLGenBankDDBJ	M22115 mRNA. Translation: AAA37559.1. M22115 mRNA. Translation: AAA37558.1. X06023 Genomic DNA. Translation: CAA29426.1. X06024 Genomic DNA. Translation: CAA29427.1. M20214 Genomic DNA. No translation available. M20216, M20215 Genomic DNA. Translation: AAA37839.1.
PIR	A27155. A30242. B30242.
UniGene	Mm.197
3D structure databases
HSSP	HSSP built from PDB template 1B72 based on UniProtKB P14653.
ModBase	Search...
Genome annotation databases
Ensembl	ENSMUSG00000029844. Mus musculus. [Contig view]
NMPDR	fig|10090.3.peg.14389.
Organism-specific databases
MGI	MGI:96170. Hoxa1.
Phylogenomic databases
HOVERGEN	P09022.
Gene expression databases
ArrayExpress	P09022.
CleanEx	MM_HOXA1.
GermOnline	ENSMUSG00000029844. Mus musculus.
Family and domain databases
InterPro	IPR001827. Antennapedia. IPR001356. Homeobox. IPR012287. Homeodomain-rel. IPR000047. HTH_lambrepressr. [Graphical view]
Gene3D	G3DSA:1.10.10.60. Homeodomain-rel. 1 hit.
Pfam	PF00046. Homeobox. 1 hit. [Graphical view]
PRINTS	PR00024. HOMEOBOX. PR00031. HTHREPRESSR.
ProDom	PD000010. Homeobox. 1 hit. [Graphical view] [Entries sharing at least one domain]
SMART	SM00389. HOX. 1 hit. [Graphical view]
PROSITE	PS00032. ANTENNAPEDIA. False negative. PS00027. HOMEOBOX_1. 1 hit. PS50071. HOMEOBOX_2. 1 hit. [Graphical view]
BLOCKS	Search...
Other Resources
SOURCE	Search...
ProtoNet	Search...

Entry information

Entry name

HXA1_MOUSE

Accession

Primary (citable) accession number: P09022
Secondary accession number(s): P15463

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1988
Last sequence update:	April 1, 1990
Last modified:	July 22, 2008
This is version 83 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)