P09022 (HXA1_MOUSE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Homeobox protein Hox-A1

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

Gene names

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

Organism

Mus musculus (Mouse) [Reference proteome]

Taxonomic identifier

10090 [NCBI]

Taxonomic lineage

cellular organisms › Eukaryota › Opisthokonta › Metazoa › Eumetazoa › Bilateria › Deuterostomia › Chordata › Craniata › Vertebrata › Gnathostomata › Teleostomi › Euteleostomi › Sarcopterygii › Tetrapoda › Amniota › Mammalia › Theria › Eutheria › Euarchontoglires › Glires › Rodentia › Sciurognathi › Muroidea › Muridae › Murinae › Mus › Mus

Protein attributes

Sequence length	331 AA.
Sequence status	Complete.
Protein existence	Evidence at protein 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. Ref.3
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
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	abducens nerve formation Inferred from electronic annotation. Source: Compara anatomical structure formation involved in morphogenesis Inferred from genetic interaction PubMed 10529420. Source: MGI anterior/posterior pattern specification Inferred from mutant phenotype PubMed 15367676. Source: MGI artery morphogenesis Inferred from electronic annotation. Source: Compara central nervous system neuron differentiation Inferred from mutant phenotype PubMed 9806922. Source: MGI cochlea morphogenesis Inferred from electronic annotation. Source: Compara cognition Inferred from electronic annotation. Source: Compara embryonic neurocranium morphogenesis Inferred from electronic annotation. Source: Compara facial nerve structural organization Inferred from genetic interaction PubMed 9806922. Source: MGI facial nucleus development Inferred from mutant phenotype PubMed 8102800. Source: MGI inner ear morphogenesis Inferred from mutant phenotype PubMed 15367676. Source: MGI motor neuron axon guidance Inferred from genetic interaction PubMed 9806922. Source: MGI neuromuscular process Inferred from electronic annotation. Source: Compara optokinetic behavior Inferred from electronic annotation. Source: Compara outer ear morphogenesis Inferred from electronic annotation. Source: Compara positive regulation of transcription from RNA polymerase II promoter Inferred from direct assay PubMed 18787068. Source: MGI regulation of behavior Inferred from electronic annotation. Source: Compara rhombomere 3 development Inferred from mutant phenotype PubMed 9806922. Source: MGI rhombomere 4 development Inferred from mutant phenotype PubMed 8102800PubMed 9806922. Source: MGI rhombomere 5 development Inferred from mutant phenotype PubMed 8102800PubMed 9806922. Source: MGI semicircular canal formation Inferred from electronic annotation. Source: Compara sensory perception of sound Inferred from electronic annotation. Source: Compara 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...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
ADAMTSL4	Q6UY14	3	EBI-3957603,EBI-742002	From a different organism.
C1orf94	Q6P1W5	3	EBI-3957603,EBI-946029	From a different organism.
EFCAB4B	Q9BSW2	3	EBI-3957603,EBI-739773	From a different organism.
EFEMP2	O95967	3	EBI-3957603,EBI-743414	From a different organism.
FAM108A1	Q96GS6	3	EBI-3957603,EBI-2870273	From a different organism.
FAM154A	Q8IYX7	3	EBI-3957603,EBI-3957636	From a different organism.
FHL5	Q5TD97	3	EBI-3957603,EBI-750641	From a different organism.
GRN	P28799	2	EBI-3957603,EBI-747754	From a different organism.
HOXA1	P49639	4	EBI-3957603,EBI-740785	From a different organism.
HOXD3	P31249	3	EBI-3957603,EBI-3957655	From a different organism.
IKZF2	Q9UKS7	3	EBI-3957603,EBI-3893057	From a different organism.
KRT81	Q14533	3	EBI-3957603,EBI-739648	From a different organism.
KRTAP26-1	Q6PEX3	4	EBI-3957603,EBI-3957672	From a different organism.
KRTAP3-2	Q9BYR7	4	EBI-3957603,EBI-751260	From a different organism.
KRTAP4-12	Q9BQ66	4	EBI-3957603,EBI-739863	From a different organism.
KRTAP5-9	P26371	3	EBI-3957603,EBI-3958099	From a different organism.
LGALS13	Q9UHV8	3	EBI-3957603,EBI-3957707	From a different organism.
LIMS1	P48059	3	EBI-3957603,EBI-306928	From a different organism.
LNX2	Q8N448	3	EBI-3957603,EBI-2340947	From a different organism.
LPXN	O60711	3	EBI-3957603,EBI-744222	From a different organism.
MDFI	Q99750	3	EBI-3957603,EBI-724076	From a different organism.
MGAT5B	Q3V5L5	3	EBI-3957603,EBI-3957727	From a different organism.
N4BP2L2	Q92802	3	EBI-3957603,EBI-2514973	From a different organism.
OGT	O15294	3	EBI-3957603,EBI-539828	From a different organism.
PDCD6IP	Q8WUM4	3	EBI-3957603,EBI-310624	From a different organism.
PDLIM7	Q9NR12	3	EBI-3957603,EBI-350517	From a different organism.
PITX2	Q99697	3	EBI-3957603,EBI-1175211	From a different organism.
PLSCR1	O15162	3	EBI-3957603,EBI-740019	From a different organism.
PLSCR4	Q9NRQ2	4	EBI-3957603,EBI-769257	From a different organism.
PRDM14	Q9GZV8	3	EBI-3957603,EBI-3957793	From a different organism.
PRRC2B	Q5JSZ5	3	EBI-3957603,EBI-744891	From a different organism.
RAB33A	Q14088	3	EBI-3957603,EBI-744685	From a different organism.
RBCK1	Q9BYM8	3	EBI-3957603,EBI-2340624	From a different organism.
RBPMS	Q93062	3	EBI-3957603,EBI-740322	From a different organism.
RGS20	O76081	3	EBI-3957603,EBI-1052678	From a different organism.
SMOC1	Q9H4F8	2	EBI-3957603,EBI-2801103	From a different organism.
SPRY1	O43609	3	EBI-3957603,EBI-3866665	From a different organism.
TRAF1	Q13077	4	EBI-3957603,EBI-359224	From a different organism.
TRAF2	Q12933	3	EBI-3957603,EBI-355744	From a different organism.
TRAPPC6A	O75865	3	EBI-3957603,EBI-743573	From a different organism.
TRIM23	P36406	2	EBI-3957603,EBI-740098	From a different organism.
TRIP6	Q15654	3	EBI-3957603,EBI-742327	From a different organism.
ZBTB16	Q05516	3	EBI-3957603,EBI-711925	From a different organism.
ZBTB32	Q9Y2Y4	3	EBI-3957603,EBI-954098	From a different organism.
ZZZ3	Q8IYH5	3	EBI-3957603,EBI-2795524	From a different organism.

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	Feature identifier
Molecule processing
	Chain	1 – 331	331	Homeobox protein Hox-A1		PRO_0000200031
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.		VSP_002380
	Alternative sequence	134 – 331	198	Missing in isoform ERA-1-399.		VSP_002381

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	FASTA	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] [Europe PMC] [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] [Europe PMC] [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] [Europe PMC] [Abstract] Cited for: DEVELOPMENTAL STAGE.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	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.
IPI	IPI00132373. IPI00406332.
PIR	A27155. A30242. B30242.
UniGene	Mm.197.
3D structure databases
ProteinModelPortal	P09022.
SMR	P09022. Positions 198-286.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-59869N.
IntAct	P09022. 61 interactions.
PTM databases
PhosphoSite	P09022.
Proteomic databases
PRIDE	P09022.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Organism-specific databases
MGI	MGI:96170. Hoxa1.
Phylogenomic databases
eggNOG	NOG236971.
HOGENOM	HOG000171545.
HOVERGEN	HBG006089.
InParanoid	P09022.
OrthoDB	EOG47H5QN.
Gene expression databases
ArrayExpress	P09022.
Bgee	P09022.
CleanEx	MM_HOXA1.
Genevestigator	P09022.
GermOnline	ENSMUSG00000029844. Mus musculus.
Family and domain databases
Gene3D	1.10.10.60. 1 hit.
InterPro	IPR017970. Homeobox_CS. IPR020479. Homeobox_metazoa. IPR001356. Homeodomain. IPR009057. Homeodomain-like. [Graphical view]
Pfam	PF00046. Homeobox. 1 hit. [Graphical view]
PRINTS	PR00024. HOMEOBOX.
SMART	SM00389. HOX. 1 hit. [Graphical view]
SUPFAM	SSF46689. Homeodomain_like. 1 hit.
PROSITE	PS00032. ANTENNAPEDIA. False negative. PS00027. HOMEOBOX_1. 1 hit. PS50071. HOMEOBOX_2. 1 hit. [Graphical view]
ProtoNet	Search...
Other
SOURCE	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:	May 1, 2013
This is version 128 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Chordata Protein Annotation Program