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Protein

Homeobox protein Hox-C1a

Gene

hoxc1a

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 2 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 bindingi215 – 27460HomeoboxPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. sequence-specific DNA binding Source: InterPro

GO - Biological processi

  1. multicellular organismal development Source: UniProtKB-KW
  2. regulation of transcription, DNA-templated Source: UniProtKB-KW
  3. 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-C1a
Gene namesi
Name:hoxc1a
ORF Names:si:dkey-81p22.13
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
ProteomesiUP000000437: Chromosome 23

Organism-specific databases

ZFINiZDB-GENE-000822-2. hoxc1a.

Subcellular locationi

Nucleus PROSITE-ProRule annotation

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 – 302302Homeobox protein Hox-C1aPRO_0000200162Add
BLAST

Expressioni

Developmental stagei

Expressed both maternally and zygotically, from ova through to 48 hours post-fertilization.1 Publication

Gene expression databases

BgeeiQ98SH9.

Structurei

3D structure databases

ProteinModelPortaliQ98SH9.
SMRiQ98SH9. Positions 219-276.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

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

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiKOG0489.
GeneTreeiENSGT00760000118940.
HOVERGENiHBG094309.
InParanoidiQ98SH9.
OrthoDBiEOG7PK91P.
PhylomeDBiQ98SH9.
TreeFamiTF317730.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
[Graphical view]
PfamiPF00046. Homeobox. 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.

Q98SH9-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MNSYHGFRDT TSLFIKGYHA TGVMRLHQDH GSTADFPSRE DVNNEADFLQ
60 70 80 90 100
YHFTNLCATA TGACSKPCED PGRANSTRPP FPQNQDFYRP VHPNRPQVPS
110 120 130 140 150
FQSCREQGLS RKGFSPSSDT FRTFSSAHCE LGPVNNTQTE VRTYDGPVRH
160 170 180 190 200
SAVEDDNTGH GALNTLNETL HSGKTFEWMR VRRNQSRAAK IQLGKCSDRE
210 220 230 240 250
LKTNHGRDSD EDTSSGGSRT NFTTKQLTEL EKEFHFNKYL TRARRIEIAN
260 270 280 290 300
PLQLSETQVK IWFQNRRMKQ KKMLREGLAQ GLMLISGCDE DSKKSDTCSS

PD
Length:302
Mass (Da):34,217
Last modified:June 1, 2001 - v1
Checksum:i9A7E6B07B9410E55
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ306432 mRNA. Translation: CAC34567.1.
BX005254 Genomic DNA. Translation: CAM16413.1.
DQ060550 mRNA. Translation: AAY67928.1.
AF071263 Genomic DNA. Translation: AAD15956.1.
RefSeqiNP_571606.1. NM_131531.1.
UniGeneiDr.83047.

Genome annotation databases

EnsembliENSDART00000103131; ENSDARP00000093905; ENSDARG00000070337.
GeneIDi58046.
KEGGidre:58046.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ306432 mRNA. Translation: CAC34567.1.
BX005254 Genomic DNA. Translation: CAM16413.1.
DQ060550 mRNA. Translation: AAY67928.1.
AF071263 Genomic DNA. Translation: AAD15956.1.
RefSeqiNP_571606.1. NM_131531.1.
UniGeneiDr.83047.

3D structure databases

ProteinModelPortaliQ98SH9.
SMRiQ98SH9. Positions 219-276.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSDART00000103131; ENSDARP00000093905; ENSDARG00000070337.
GeneIDi58046.
KEGGidre:58046.

Organism-specific databases

CTDi58046.
ZFINiZDB-GENE-000822-2. hoxc1a.

Phylogenomic databases

eggNOGiKOG0489.
GeneTreeiENSGT00760000118940.
HOVERGENiHBG094309.
InParanoidiQ98SH9.
OrthoDBiEOG7PK91P.
PhylomeDBiQ98SH9.
TreeFamiTF317730.

Miscellaneous databases

NextBioi20892310.

Gene expression databases

BgeeiQ98SH9.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR020479. Homeobox_metazoa.
IPR009057. Homeodomain-like.
[Graphical view]
PfamiPF00046. Homeobox. 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. "Consequences of Hox gene duplication in the vertebrates: an investigation of the zebrafish Hox paralogue group 1 genes."
    McClintock J.M., Carlson R., Mann D.M., Prince V.E.
    Development 128:2471-2484(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
  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(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Tuebingen.
  3. "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(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 97-197.
    Strain: Tuebingen.
  4. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 219-302.
  5. "Differences in expression pattern and function between zebrafish hoxc13 orthologs: recruitment of Hoxc13b into an early embryonic role."
    Thummel R., Li L., Tanase C., Sarras M.P. Jr., Godwin A.R.
    Dev. Biol. 274:318-333(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: DEVELOPMENTAL STAGE.

Entry informationi

Entry nameiHXC1A_DANRE
AccessioniPrimary (citable) accession number: Q98SH9
Secondary accession number(s): A2BE59, Q4PR93, Q9YGS7
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 2005
Last sequence update: June 1, 2001
Last modified: January 7, 2015
This is version 87 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. 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.