Skip Header

You are using a version of browser that may not display all the features of this website. Please consider upgrading your browser.
Protein

Homeobox protein Hox-D9

Gene

Hoxd9

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Sequence-specific transcription factor which is part of a developmental regulatory system that provides cells with specific positional identities on the anterior-posterior axis.

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi272 – 33160HomeoboxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. DNA binding Source: MGI
  2. RNA polymerase II regulatory region sequence-specific DNA binding Source: MGI
  3. RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription Source: MGI
  4. sequence-specific DNA binding transcription factor activity Source: MGI

GO - Biological processi

  1. adult locomotory behavior Source: MGI
  2. anterior/posterior pattern specification Source: MGI
  3. embryonic forelimb morphogenesis Source: MGI
  4. embryonic skeletal system development Source: MGI
  5. embryonic skeletal system morphogenesis Source: MGI
  6. forelimb morphogenesis Source: MGI
  7. hindlimb morphogenesis Source: MGI
  8. mammary gland development Source: MGI
  9. negative regulation of transcription from RNA polymerase II promoter Source: MGI
  10. peripheral nervous system neuron development Source: MGI
  11. positive regulation of transcription from RNA polymerase II promoter Source: MGI
  12. proximal/distal pattern formation Source: MGI
  13. regulation of gene expression Source: MGI
  14. single fertilization Source: MGI
  15. skeletal muscle tissue development Source: MGI
Complete GO annotation...

Keywords - Molecular functioni

Developmental protein

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Homeobox protein Hox-D9
Alternative name(s):
Homeobox protein Hox-4.4
Homeobox protein Hox-5.2
Gene namesi
Name:Hoxd9
Synonyms:Hox-4.4, Hoxd-9
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
ProteomesiUP000000589 Componenti: Chromosome 2

Organism-specific databases

MGIiMGI:96210. Hoxd9.

Subcellular locationi

GO - Cellular componenti

  1. nucleus Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 339339Homeobox protein Hox-D9PRO_0000200221Add
BLAST

Proteomic databases

PRIDEiP28357.

PTM databases

PhosphoSiteiP28357.

Expressioni

Developmental stagei

Expressed in the developing limb buds. Expressed in the posterior-most regions of the fetus. Strongly expressed in 12.5 day old fetuses in both spinal cord and pre-vertebral column with an anterior boundary of expression lying at the level of the first lumbar pre-vetrebrae.1 Publication

Gene expression databases

BgeeiP28357.
CleanExiMM_HOXD9.
GenevestigatoriP28357.

Interactioni

Protein-protein interaction databases

BioGridi200399. 3 interactions.

Structurei

3D structure databases

ProteinModelPortaliP28357.
SMRiP28357. Positions 246-332.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi113 – 14028Gly-richAdd
BLAST
Compositional biasi119 – 13113Poly-GlyAdd
BLAST
Compositional biasi163 – 17614Ser/Thr-richAdd
BLAST

Sequence similaritiesi

Belongs to the Abd-B homeobox family.Curated
Contains 1 homeobox DNA-binding domain.PROSITE-ProRule annotation

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiNOG286554.
GeneTreeiENSGT00760000118834.
HOGENOMiHOG000231180.
HOVERGENiHBG016849.
InParanoidiP28357.
KOiK09294.
OMAiSGPEFSC.
OrthoDBiEOG722J9F.
PhylomeDBiP28357.
TreeFamiTF317819.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
IPR006711. Hox9_activation_N.
[Graphical view]
PfamiPF00046. Homeobox. 1 hit.
PF04617. Hox9_act. 1 hit.
[Graphical view]
PRINTSiPR00024. HOMEOBOX.
SMARTiSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P28357-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSSGTLSNY YVDSLIGHEG DEVFAARFGP PGPGTQGRPA GVADGPAAAT
60 70 80 90 100
AEFASCSFAP KSSVFSASWS AVAAQPPAAA TMSGLYHPYV SPPPLAAAEP
110 120 130 140 150
GRYVRSWMEP LPGFPGGAGG GGGSGGGGGG GPGPVPSPGG PANGRHYGIK
160 170 180 190 200
PETGAAPAPA AASTSSSSST SSSSSSKRTE CSAARESQGS GGPEFPCNSF
210 220 230 240 250
LRDKAAAATG NGPGVGIGTG PGAVGSSEPS ACSDHPSPGC SLKEEEKQPP
260 270 280 290 300
QPPQQQLDPN NPAANWIHAR STRKKRCPYT KYQTLELEKE FLFNMYLTRD
310 320 330
RRYEVARILN LTERQVKIWF QNRRMKMKKM SKEKCPKGD
Length:339
Mass (Da):34,992
Last modified:December 1, 1992 - v1
Checksum:i370DC47C6929F7E1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X62669 Genomic DNA. Translation: CAA44542.1.
AK134427 mRNA. Translation: BAE22140.1.
AK144746 mRNA. Translation: BAE26045.1.
AL928644 Genomic DNA. Translation: CAM20529.1.
BC019150 mRNA. Translation: AAH19150.1.
X14714 Genomic DNA. Translation: CAB57813.1.
CCDSiCCDS16142.1.
PIRiS20880.
RefSeqiNP_038583.1. NM_013555.4.
UniGeneiMm.26544.

Genome annotation databases

EnsembliENSMUST00000059272; ENSMUSP00000058490; ENSMUSG00000043342.
GeneIDi15438.
KEGGimmu:15438.
UCSCiuc008kdz.1. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X62669 Genomic DNA. Translation: CAA44542.1.
AK134427 mRNA. Translation: BAE22140.1.
AK144746 mRNA. Translation: BAE26045.1.
AL928644 Genomic DNA. Translation: CAM20529.1.
BC019150 mRNA. Translation: AAH19150.1.
X14714 Genomic DNA. Translation: CAB57813.1.
CCDSiCCDS16142.1.
PIRiS20880.
RefSeqiNP_038583.1. NM_013555.4.
UniGeneiMm.26544.

3D structure databases

ProteinModelPortaliP28357.
SMRiP28357. Positions 246-332.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi200399. 3 interactions.

PTM databases

PhosphoSiteiP28357.

Proteomic databases

PRIDEiP28357.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000059272; ENSMUSP00000058490; ENSMUSG00000043342.
GeneIDi15438.
KEGGimmu:15438.
UCSCiuc008kdz.1. mouse.

Organism-specific databases

CTDi3235.
MGIiMGI:96210. Hoxd9.

Phylogenomic databases

eggNOGiNOG286554.
GeneTreeiENSGT00760000118834.
HOGENOMiHOG000231180.
HOVERGENiHBG016849.
InParanoidiP28357.
KOiK09294.
OMAiSGPEFSC.
OrthoDBiEOG722J9F.
PhylomeDBiP28357.
TreeFamiTF317819.

Miscellaneous databases

NextBioi288218.
PROiP28357.
SOURCEiSearch...

Gene expression databases

BgeeiP28357.
CleanExiMM_HOXD9.
GenevestigatoriP28357.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
IPR006711. Hox9_activation_N.
[Graphical view]
PfamiPF00046. Homeobox. 1 hit.
PF04617. Hox9_act. 1 hit.
[Graphical view]
PRINTSiPR00024. HOMEOBOX.
SMARTiSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Comparison of mouse and human HOX-4 complexes defines conserved sequences involved in the regulation of Hox-4.4."
    Renucci A.G.P., Zappavigna V., Zakany J., Izpisua-Belmonte J.-C., Buerki K., Douboule D.
    EMBO J. 11:1459-1468(1992) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  2. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
    Tissue: Lung and Testis.
  3. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  4. "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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Kidney.
  5. "Two gene members of the murine HOX-5 complex show regional and cell-type specific expression in developing limbs and gonads."
    Dolle P., Duboule D.
    EMBO J. 8:1507-1515(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE OF 272-331.
  6. "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: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 272-331, DEVELOPMENTAL STAGE.

Entry informationi

Entry nameiHXD9_MOUSE
AccessioniPrimary (citable) accession number: P28357
Secondary accession number(s): A2ASM9, Q3UMQ3, Q3UYS2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 1992
Last sequence update: December 1, 1992
Last modified: April 1, 2015
This is version 133 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Vertebrate homeotic Hox proteins
    Nomenclature of vertebrate homeotic Hox proteins and list of entries
  2. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.