Reviewed, UniProtKB/Swiss-Prot P09631 (HXA9_MOUSE)

Names and origin

Protein names

Recommended name:
    Homeobox protein Hox-A9
Alternative name(s):
    Hox-1.7

Gene names

Name:	Hoxa9
Synonyms:	Hox-1.7, Hoxa-9

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	271 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
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.
Subcellular location	Nucleus.
Tissue specificity	Expressed in high level in the embryonic and adult spinal cord with a preference in the posterior region.
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
Coding sequence diversity	Alternative splicing
Domain	Homeobox
Ligand	DNA-binding
Molecular function	Developmental protein
Technical term	3D-structure
Gene Ontology (GO)
Biological process	anterior/posterior pattern formation Inferred from genetic interaction. Source: MGI definitive hemopoiesis Inferred from genetic interaction. Source: MGI embryonic forelimb morphogenesis Inferred from genetic interaction. Source: MGI embryonic skeletal development Inferred from genetic interaction. Source: MGI mammary gland development Inferred from genetic interaction. Source: MGI proximal/distal pattern formation Inferred from genetic interaction. Source: MGI
Cellular component	cytoplasm Inferred from direct assay. Source: MGI transcription factor complex Inferred from direct assay. Source: MGI
Molecular function	protein binding Inferred from physical interaction. Source: MGI
Complete GO annotation...

Alternative products

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

Isoform HoxA-9 (identifier: P09631-1)

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 HoxA-9T (identifier: P09631-2)

The sequence of this isoform differs from the canonical sequence as follows:
     105-105: R → S
     106-271: Missing.

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Molecule processing

Chain

1 – 271

271

Homeobox protein Hox-A9

Regions

DNA binding

205 – 264

60

Homeobox

Natural variations

Alternative sequence

105

1

R → S in isoform HoxA-9T.

Alternative sequence

106 – 271

166

Missing in isoform HoxA-9T.

Secondary structure

1

.

.

.

.

.

.

.

.

.

271

Helix Strand Turn

Details...

Turn

195 – 198

4

Helix

214 – 226

13

Helix

232 – 242

11

Helix

246 – 267

22

Sequences

	Sequence		Length	Mass (Da)
	Isoform HoxA-9 [UniParc]. Last modified July 15, 1999. Version 2. Checksum: C1E679D9CBF677B0	FASTA	271	29,917
	10 20 30 40 50 60 MATTGALGNY YVDSFLLGAD AADELGAGRY APGTLGQPPR QAAALAEHPD FSPCSFQSKA 70 80 90 100 110 120 AVFGASWNPV HAAGANAVPA AVYHHHHHPY VHPQAPVAAA APDGRYMRSW LEPTPGALSF 130 140 150 160 170 180 AGLPSSRPYG IKPEPLSARR GDCPTLDTHT LSLTDYACGS PPVDREKQPS EGAFSENNAE 190 200 210 220 230 240 NESGGDKPPI DPNNPAANWL HARSTRKKRC PYTKHQTLEL EKEFLFNMYL TRDRRYEVAR 250 260 270 LLNLTERQVK IWFQNRRMKM KKINKDRAKD E
	Isoform HoxA-9T [UniParc]. Checksum: 923A157D0AA22579		105	10,684
	10 20 30 40 50 60 MATTGALGNY YVDSFLLGAD AADELGAGRY APGTLGQPPR QAAALAEHPD FSPCSFQSKA 70 80 90 100 AVFGASWNPV HAAGANAVPA AVYHHHHHPY VHPQAPVAAA APDGS

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Analysis of the murine Hoxa-9 cDNA: an alternatively spliced transcript encodes a truncated protein lacking the homeodomain." Fujimoto S., Araki K., Chisaka O., Araki M., Takagi K., Yamamura K. Gene 209:77-85(1998) [PubMed: 9524228] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS HOXA-9 AND HOXA-9T). Strain: C57BL/6 and ICR.
[2]	"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM HOXA-9). Strain: FVB/N. Tissue: Colon.
[3]	"Murine Hox-1.7 homeo-box gene: cloning, chromosomal location, and expression." Rubin M.R., King W., Toth L.E., Sawczuk I.S., Levine M.S., D'Eustachio P., Nguyen-Huu M.C. Mol. Cell. Biol. 7:3836-3841(1987) [PubMed: 2891029] [Abstract] Cited for: NUCLEOTIDE SEQUENCE OF 180-271 (HOXA-9).
[4]	Erratum Rubin M.R., King W., Toth L.E., Sawczuk I.S., Levine M.S., D'Eustachio P., Nguyen-Huu M.C. Mol. Cell. Biol. 8:5593-5593(1988) Cited for: SEQUENCE REVISION.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBLGenBankDDBJ

AB005457 mRNA. Translation: BAA25800.1.
AB005458 mRNA. Translation: BAA25801.1.
AB008914 Genomic DNA. Translation: BAA25802.1.
BC055059 mRNA. Translation: AAH55059.1.
M28449 mRNA. Translation: AAA78790.1.

PIR

A31400.
JC6553.

RefSeq

NP_034586.1.

UniGene

Mm.4694

3D structure databases

PDBMSD

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1PUF	X-ray	1.90	A	193-269	[»]

ModBase

Search...

Genome annotation databases

Ensembl

ENSMUSG00000038227. Mus musculus. [Contig view]

GeneID

15405.

KEGG

mmu:15405.

Organism-specific databases

MGI

MGI:96180. Hoxa9.

Phylogenomic databases

HOGENOM

P09631.

HOVERGEN

P09631.

Gene expression databases

ArrayExpress

P09631.

CleanEx

MM_HOXA9.

GermOnline

ENSMUSG00000038227. Mus musculus.

Family and domain databases

InterPro

IPR001356. Homeobox.
IPR017112. Homeobox_Hox9.
IPR012287. Homeodomain-rel.
IPR006711. Hox9_act.
IPR000047. HTH_lambrepressr.
[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.
PR00031. HTHREPRESSR.

ProDom

PD000010. Homeobox. 1 hit.
[Graphical view] [Entries sharing at least one domain]

SMART

SM00389. HOX. 1 hit.
[Graphical view]

PROSITE

PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]

BLOCKS

Search...

Other Resources

SOURCE

Search...

ProtoNet

Search...

Entry information

Entry name

HXA9_MOUSE

Accession

Primary (citable) accession number: P09631
Secondary accession number(s): O70154, O70155

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 1, 1989
Last sequence update:	July 15, 1999
Last modified:	September 2, 2008
This is version 84 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)