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Protein

Homeobox protein Hox-D4

Gene

HOXD4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 3 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 bindingi154 – 21360HomeoboxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. sequence-specific DNA binding Source: InterPro
  2. sequence-specific DNA binding transcription factor activity Source: InterPro

GO - Biological processi

  1. multicellular organismal development Source: UniProtKB
  2. transcription, DNA-templated Source: UniProtKB-KW
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-D4
Alternative name(s):
Homeobox protein HHO.C13
Homeobox protein Hox-4B
Homeobox protein Hox-5.1
Gene namesi
Name:HOXD4
Synonyms:HOX4B
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640: Chromosome 2

Organism-specific databases

HGNCiHGNC:5138. HOXD4.

Subcellular locationi

GO - Cellular componenti

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

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

MIMi142981. gene+phenotype.
PharmGKBiPA29412.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 255255Homeobox protein Hox-D4PRO_0000200210Add
BLAST

Proteomic databases

PaxDbiP09016.
PRIDEiP09016.

PTM databases

PhosphoSiteiP09016.

Expressioni

Gene expression databases

BgeeiP09016.
CleanExiHS_HOXD4.
GenevestigatoriP09016.

Interactioni

Protein-protein interaction databases

BioGridi109473. 17 interactions.
STRINGi9606.ENSP00000302548.

Structurei

3D structure databases

ProteinModelPortaliP09016.
SMRiP09016. Positions 128-214.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi133 – 1386Antp-type hexapeptide

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi222 – 23413Poly-SerAdd
BLAST

Sequence similaritiesi

Contains 1 homeobox DNA-binding domain.PROSITE-ProRule annotation

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiNOG314883.
GeneTreeiENSGT00760000118945.
HOGENOMiHOG000231179.
HOVERGENiHBG016849.
InParanoidiP09016.
KOiK09304.
OMAiGLYPRPD.
OrthoDBiEOG780RP4.
PhylomeDBiP09016.
TreeFamiTF352857.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017995. Homeobox_antennapedia.
IPR001827. Homeobox_Antennapedia_CS.
IPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
[Graphical view]
PfamiPF00046. Homeobox. 1 hit.
[Graphical view]
PRINTSiPR00025. ANTENNAPEDIA.
PR00024. HOMEOBOX.
SMARTiSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS00032. ANTENNAPEDIA. 1 hit.
PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P09016-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVMSSYMVNS KYVDPKFPPC EEYLQGGYLG EQGADYYGGG AQGADFQPPG
60 70 80 90 100
LYPRPDFGEQ PFGGSGPGPG SALPARGHGQ EPGGPGGHYA APGEPCPAPP
110 120 130 140 150
APPPAPLPGA RAYSQSDPKQ PPSGTALKQP AVVYPWMKKV HVNSVNPNYT
160 170 180 190 200
GGEPKRSRTA YTRQQVLELE KEFHFNRYLT RRRRIEIAHT LCLSERQIKI
210 220 230 240 250
WFQNRRMKWK KDHKLPNTKG RSSSSSSSSS CSSSVAPSQH LQPMAKDHHT

DLTTL
Length:255
Mass (Da):27,885
Last modified:January 23, 2002 - v3
Checksum:i39205343CDB0142F
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti142 – 1421V → A in CAA28411 (PubMed:2879245).Curated

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti123 – 1231S → P.2 Publications
Corresponds to variant rs34727427 [ dbSNP | Ensembl ].
VAR_067445

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X17360 Genomic DNA. Translation: CAA35237.1.
X04706 mRNA. Translation: CAA28411.1.
AK313885 mRNA. Translation: BAG36610.1.
BC016763 mRNA. Translation: AAH16763.1.
BC074797 mRNA. Translation: AAH74797.1.
CCDSiCCDS2269.1.
PIRiS10985. WJHU4B.
RefSeqiNP_055436.2. NM_014621.2.
UniGeneiHs.591609.

Genome annotation databases

EnsembliENST00000306324; ENSP00000302548; ENSG00000170166.
GeneIDi3233.
KEGGihsa:3233.
UCSCiuc002uks.3. human.

Polymorphism databases

DMDMi20141491.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X17360 Genomic DNA. Translation: CAA35237.1.
X04706 mRNA. Translation: CAA28411.1.
AK313885 mRNA. Translation: BAG36610.1.
BC016763 mRNA. Translation: AAH16763.1.
BC074797 mRNA. Translation: AAH74797.1.
CCDSiCCDS2269.1.
PIRiS10985. WJHU4B.
RefSeqiNP_055436.2. NM_014621.2.
UniGeneiHs.591609.

3D structure databases

ProteinModelPortaliP09016.
SMRiP09016. Positions 128-214.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi109473. 17 interactions.
STRINGi9606.ENSP00000302548.

PTM databases

PhosphoSiteiP09016.

Polymorphism databases

DMDMi20141491.

Proteomic databases

PaxDbiP09016.
PRIDEiP09016.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000306324; ENSP00000302548; ENSG00000170166.
GeneIDi3233.
KEGGihsa:3233.
UCSCiuc002uks.3. human.

Organism-specific databases

CTDi3233.
GeneCardsiGC02P177034.
HGNCiHGNC:5138. HOXD4.
MIMi142981. gene+phenotype.
neXtProtiNX_P09016.
PharmGKBiPA29412.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG314883.
GeneTreeiENSGT00760000118945.
HOGENOMiHOG000231179.
HOVERGENiHBG016849.
InParanoidiP09016.
KOiK09304.
OMAiGLYPRPD.
OrthoDBiEOG780RP4.
PhylomeDBiP09016.
TreeFamiTF352857.

Miscellaneous databases

GeneWikiiHOXD4.
GenomeRNAii3233.
NextBioi12865.
PROiP09016.
SOURCEiSearch...

Gene expression databases

BgeeiP09016.
CleanExiHS_HOXD4.
GenevestigatoriP09016.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017995. Homeobox_antennapedia.
IPR001827. Homeobox_Antennapedia_CS.
IPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
[Graphical view]
PfamiPF00046. Homeobox. 1 hit.
[Graphical view]
PRINTSiPR00025. ANTENNAPEDIA.
PR00024. HOMEOBOX.
SMARTiSM00389. HOX. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
PROSITEiPS00032. ANTENNAPEDIA. 1 hit.
PS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], VARIANT PRO-123.
  2. "Differential and stage-related expression in embryonic tissues of a new human homoeobox gene."
    Mavilio F., Simeone A., Giampaolo A., Faiella A., Zappavigna V., Acampora D., Poiana G., Russo G., Peschle C., Boncinelli E.
    Nature 324:664-668(1986) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  3. "Complete sequencing and characterization of 21,243 full-length human cDNAs."
    Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S.
    , Yamamoto J., Saito K., Kawai Y., Isono Y., Nakamura Y., Nagahari K., Murakami K., Yasuda T., Iwayanagi T., Wagatsuma M., Shiratori A., Sudo H., Hosoiri T., Kaku Y., Kodaira H., Kondo H., Sugawara M., Takahashi M., Kanda K., Yokoi T., Furuya T., Kikkawa E., Omura Y., Abe K., Kamihara K., Katsuta N., Sato K., Tanikawa M., Yamazaki M., Ninomiya K., Ishibashi T., Yamashita H., Murakawa K., Fujimori K., Tanai H., Kimata M., Watanabe M., Hiraoka S., Chiba Y., Ishida S., Ono Y., Takiguchi S., Watanabe S., Yosida M., Hotuta T., Kusano J., Kanehori K., Takahashi-Fujii A., Hara H., Tanase T.-O., Nomura Y., Togiya S., Komai F., Hara R., Takeuchi K., Arita M., Imose N., Musashino K., Yuuki H., Oshima A., Sasaki N., Aotsuka S., Yoshikawa Y., Matsunawa H., Ichihara T., Shiohata N., Sano S., Moriya S., Momiyama H., Satoh N., Takami S., Terashima Y., Suzuki O., Nakagawa S., Senoh A., Mizoguchi H., Goto Y., Shimizu F., Wakebe H., Hishigaki H., Watanabe T., Sugiyama A., Takemoto M., Kawakami B., Yamazaki M., Watanabe K., Kumagai A., Itakura S., Fukuzumi Y., Fujimori Y., Komiyama M., Tashiro H., Tanigami A., Fujiwara T., Ono T., Yamada K., Fujii Y., Ozaki K., Hirao M., Ohmori Y., Kawabata A., Hikiji T., Kobatake N., Inagaki H., Ikema Y., Okamoto S., Okitani R., Kawakami T., Noguchi S., Itoh T., Shigeta K., Senba T., Matsumura K., Nakajima Y., Mizuno T., Morinaga M., Sasaki M., Togashi T., Oyama M., Hata H., Watanabe M., Komatsu T., Mizushima-Sugano J., Satoh T., Shirai Y., Takahashi Y., Nakagawa K., Okumura K., Nagase T., Nomura N., Kikuchi H., Masuho Y., Yamashita R., Nakai K., Yada T., Nakamura Y., Ohara O., Isogai T., Sugano S.
    Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT PRO-123.
    Tissue: Uterus.
  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. "Organization of human class I homeobox genes."
    Boncinelli E., Acampora D., Pannese M., D'Esposito M., Somma R., Gaudino G., Stornaiuolo A., Cafiero M., Faiella A., Simeone A.
    Genome 31:745-756(1989) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 154-219.

Entry informationi

Entry nameiHXD4_HUMAN
AccessioniPrimary (citable) accession number: P09016
Secondary accession number(s): B2R9R3, Q96AU0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1988
Last sequence update: January 23, 2002
Last modified: February 4, 2015
This is version 152 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

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. Human chromosome 2
    Human chromosome 2: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  6. 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.