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Protein

Homeobox protein Hox-B5b

Gene

hoxb5b

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
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.By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi201 – 26060HomeoboxPROSITE-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. brain development Source: ZFIN
  2. cardioblast differentiation Source: ZFIN
  3. cell fate specification Source: ZFIN
  4. 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-B5b
Alternative name(s):
Homeobox protein Zf-54
Hox-B5-like
Gene namesi
Name:hoxb5b
Synonyms:zf54
ORF Names:zgc:101134
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
ProteomesiUP000000437 Componenti: Chromosome 12

Organism-specific databases

ZFINiZDB-GENE-000823-6. hoxb5b.

Subcellular locationi

GO - Cellular componenti

  1. nucleus Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 276276Homeobox protein Hox-B5bPRO_0000200133Add
BLAST

Expressioni

Developmental stagei

At the 10-somite stage, barely detectable in the paraxial mesoderm. At the 20-somite stage, expressed within the developing CNS with an anterior expression limit at somite 1.1 Publication

Gene expression databases

BgeeiP09013.

Structurei

3D structure databases

ProteinModelPortaliP09013.
SMRiP09013. Positions 181-261.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi183 – 1886Antp-type hexapeptide

Sequence similaritiesi

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

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiNOG236516.
HOGENOMiHOG000231178.
HOVERGENiHBG016849.
InParanoidiP09013.
OrthoDBiEOG780RP4.
PhylomeDBiP09013.
TreeFamiTF316310.

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.

P09013-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSSYFLNSFS GRYPNGSDYQ LLNYGTNGAM NASYRDSTSM HSGSFGYNYN
60 70 80 90 100
GIDLSVNRPN NGHFGAVGDN SRAFQNPSQE TRYRQSSCSL SSPDPLSCAT
110 120 130 140 150
SDTLELKGSS PPSDQSTPTG NSRLTNSNNL TSSNSTHFAD TDETNVSSET
160 170 180 190 200
EEGAQTTTTS HTQKQESVAT STTTPNDGQT PQIFPWMRKL HISHDMTGPD
210 220 230 240 250
GKRARTAYTR YQTLELEKEF HFNRYLTRRR RIEIAHALCL SERQIKIWFQ
260 270
NRRMKWKKDN KLKSMSLATA GSAFQN
Length:276
Mass (Da):30,912
Last modified:January 31, 2005 - v2
Checksum:i07BD5B28FFEECFE6
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti47 – 471Y → N in AAD15946 (PubMed:9831563).Curated
Sequence conflicti161 – 1611H → R (Ref. 3) Curated
Sequence conflicti161 – 1611H → R (PubMed:16174031).Curated
Sequence conflicti198 – 1981G → K in CAA31291 (PubMed:2902580).Curated
Sequence conflicti201 – 2022GK → EN in CAA31291 (PubMed:2902580).Curated
Sequence conflicti213 – 2131T → A in CAA31291 (PubMed:2902580).Curated
Sequence conflicti235 – 2351A → R in CAA31291 (PubMed:2902580).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF071253 Genomic DNA. Translation: AAD15946.1.
AL645798 Genomic DNA. Translation: CAD44458.1.
BC078285 mRNA. Translation: AAH78285.1.
DQ060547 mRNA. Translation: AAY67925.1.
X12803 Genomic DNA. Translation: CAA31291.1.
Y14526 mRNA. Translation: CAA74861.1.
RefSeqiNP_571612.2. NM_131537.3.
UniGeneiDr.75783.

Genome annotation databases

GeneIDi58052.
KEGGidre:58052.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF071253 Genomic DNA. Translation: AAD15946.1.
AL645798 Genomic DNA. Translation: CAD44458.1.
BC078285 mRNA. Translation: AAH78285.1.
DQ060547 mRNA. Translation: AAY67925.1.
X12803 Genomic DNA. Translation: CAA31291.1.
Y14526 mRNA. Translation: CAA74861.1.
RefSeqiNP_571612.2. NM_131537.3.
UniGeneiDr.75783.

3D structure databases

ProteinModelPortaliP09013.
SMRiP09013. Positions 181-261.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi58052.
KEGGidre:58052.

Organism-specific databases

CTDi58052.
ZFINiZDB-GENE-000823-6. hoxb5b.

Phylogenomic databases

eggNOGiNOG236516.
HOGENOMiHOG000231178.
HOVERGENiHBG016849.
InParanoidiP09013.
OrthoDBiEOG780RP4.
PhylomeDBiP09013.
TreeFamiTF316310.

Miscellaneous databases

NextBioi20892316.

Gene expression databases

BgeeiP09013.

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].
  2. "The zebrafish reference genome sequence and its relationship to the human genome."
    Howe K., Clark M.D., Torroja C.F., Torrance J., Berthelot C., Muffato M., Collins J.E., Humphray S., McLaren K., Matthews L., McLaren S., Sealy I., Caccamo M., Churcher C., Scott C., Barrett J.C., Koch R., Rauch G.J.
    , White S., Chow W., Kilian B., Quintais L.T., Guerra-Assuncao J.A., Zhou Y., Gu Y., Yen J., Vogel J.H., Eyre T., Redmond S., Banerjee R., Chi J., Fu B., Langley E., Maguire S.F., Laird G.K., Lloyd D., Kenyon E., Donaldson S., Sehra H., Almeida-King J., Loveland J., Trevanion S., Jones M., Quail M., Willey D., Hunt A., Burton J., Sims S., McLay K., Plumb B., Davis J., Clee C., Oliver K., Clark R., Riddle C., Eliott D., Threadgold G., Harden G., Ware D., Mortimer B., Kerry G., Heath P., Phillimore B., Tracey A., Corby N., Dunn M., Johnson C., Wood J., Clark S., Pelan S., Griffiths G., Smith M., Glithero R., Howden P., Barker N., Stevens C., Harley J., Holt K., Panagiotidis G., Lovell J., Beasley H., Henderson C., Gordon D., Auger K., Wright D., Collins J., Raisen C., Dyer L., Leung K., Robertson L., Ambridge K., Leongamornlert D., McGuire S., Gilderthorp R., Griffiths C., Manthravadi D., Nichol S., Barker G., Whitehead S., Kay M., Brown J., Murnane C., Gray E., Humphries M., Sycamore N., Barker D., Saunders D., Wallis J., Babbage A., Hammond S., Mashreghi-Mohammadi M., Barr L., Martin S., Wray P., Ellington A., Matthews N., Ellwood M., Woodmansey R., Clark G., Cooper J., Tromans A., Grafham D., Skuce C., Pandian R., Andrews R., Harrison E., Kimberley A., Garnett J., Fosker N., Hall R., Garner P., Kelly D., Bird C., Palmer S., Gehring I., Berger A., Dooley C.M., Ersan-Urun Z., Eser C., Geiger H., Geisler M., Karotki L., Kirn A., Konantz J., Konantz M., Oberlander M., Rudolph-Geiger S., Teucke M., Osoegawa K., Zhu B., Rapp A., Widaa S., Langford C., Yang F., Carter N.P., Harrow J., Ning Z., Herrero J., Searle S.M., Enright A., Geisler R., Plasterk R.H., Lee C., Westerfield M., de Jong P.J., Zon L.I., Postlethwait J.H., Nusslein-Volhard C., Hubbard T.J., Roest Crollius H., Rogers J., Stemple D.L.
    Nature 496:498-503(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Tuebingen.
  3. NIH - Zebrafish Gene Collection (ZGC) project
    Submitted (JUN-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Embryo.
  4. "Genomic annotation and transcriptome analysis of the zebrafish (Danio rerio) hox complex with description of a novel member, hoxb13a."
    Corredor-Adamez M., Welten M.C.M., Spaink H.P., Jeffery J.E., Schoon R.T., de Bakker M.A.G., Bagowski C.P., Meijer A.H., Verbeek F.J., Richardson M.K.
    Evol. Dev. 7:362-375(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 101-203.
    Strain: Tuebingen.
  5. "Primary structure, developmentally regulated expression and potential duplication of the zebrafish homeobox gene ZF-21."
    Njolstad P.R., Molven A., Hordvik I., Apold J., Fjose A.
    Nucleic Acids Res. 16:9097-9111(1987) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 196-276.
  6. "Zebrafish hox genes: genomic organization and modified colinear expression patterns in the trunk."
    Prince V.E., Joly L., Ekker M., Ho R.K.
    Development 125:407-420(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 234-276, DEVELOPMENTAL STAGE.
    Tissue: Embryo.

Entry informationi

Entry nameiHXB5B_DANRE
AccessioniPrimary (citable) accession number: P09013
Secondary accession number(s): O57359
, Q4PR96, Q6DC10, Q8JH53, Q9PWM0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 31, 1988
Last sequence update: January 31, 2005
Last modified: March 3, 2015
This is version 123 of the entry and version 2 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. 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.