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Protein

POU domain, class 4, transcription factor 3

Gene

pou4f3

Organism
Danio rerio (Zebrafish) (Brachydanio rerio)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at transcript leveli

Functioni

May play a role in specifying terminally differentiated neuronal phenotypes.By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi267 – 32660HomeoboxPROSITE-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. transcription, DNA-templated Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
POU domain, class 4, transcription factor 3
Alternative name(s):
Brain-specific homeobox/POU domain protein 3.1
Short name:
Brain-3.1
Short name:
zfBrn-3.1
Gene namesi
Name:pou4f3
Synonyms:brn-3.1, brn-3c, brn3.1, brn3c
OrganismiDanio rerio (Zebrafish) (Brachydanio rerio)
Taxonomic identifieri7955 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiActinopterygiiNeopterygiiTeleosteiOstariophysiCypriniformesCyprinidaeDanio
ProteomesiUP000000437 Componenti: Chromosome 9

Organism-specific databases

ZFINiZDB-GENE-990415-24. pou4f3.

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 – 331331POU domain, class 4, transcription factor 3PRO_0000100745Add
BLAST

Expressioni

Tissue specificityi

Expressed in the nervous system. Expressed in the otic vesicle during embryogenesis. Expressed in the adult retina in a subset of retinal ganglion cells (RGCs), and at a lower level in the adult tectum. Not expressed in the adult olfactory bulb.3 Publications

Developmental stagei

Weakly expressed during embryogenesis, with stronger expression in the adult eye.2 Publications

Gene expression databases

BgeeiQ90435.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini172 – 24978POU-specificPROSITE-ProRule annotationAdd
BLAST

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi76 – 12449Ser-richAdd
BLAST
Compositional biasi99 – 16466His-richAdd
BLAST

Sequence similaritiesi

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

Keywords - Domaini

Homeobox

Phylogenomic databases

eggNOGiNOG289030.
GeneTreeiENSGT00760000118935.
HOGENOMiHOG000116305.
HOVERGENiHBG053120.
InParanoidiQ90435.
KOiK09366.
OrthoDBiEOG7RV9G7.
PhylomeDBiQ90435.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
1.10.260.40. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR009057. Homeodomain-like.
IPR010982. Lambda_DNA-bd_dom.
IPR013847. POU.
IPR000327. POU_specific.
[Graphical view]
PfamiPF00046. Homeobox. 1 hit.
PF00157. Pou. 1 hit.
[Graphical view]
PRINTSiPR00028. POUDOMAIN.
SMARTiSM00389. HOX. 1 hit.
SM00352. POU. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
SSF47413. SSF47413. 1 hit.
PROSITEiPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
PS00035. POU_1. 1 hit.
PS00465. POU_2. 1 hit.
PS51179. POU_3. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q90435-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MMTMNGKQHF SMHPALHPSS EGMRRVCLPA PQLQGNIFSG FDESLLARAE
60 70 80 90 100
ALAAADIVSH GKSHPFKTDV TYHTMSSVPC TSSSSTVPIS HPSSNLPSHH
110 120 130 140 150
HHHLSHQTLE GDLLDHISSS LSVSGMGAPP DPSVMTTQAH QHHLQMGHLH
160 170 180 190 200
QAMAMGHPHT LSVHNGMACV NDVESDPREL EAFAERFKQR RIKLGVTQAD
210 220 230 240 250
VGSALANLKI PGVGSLSQST ICRFESLTLS HNNMIALKPV LQAWLEEAEA
260 270 280 290 300
AYREKNGKPD LFNGNERKRK RTSIAAPEKR SLEAYFAIQP RPSSEKIAAI
310 320 330
AEKLDLKKNV VRVWFCNQRQ KQKRMKYSAV H
Length:331
Mass (Da):36,550
Last modified:November 24, 2009 - v2
Checksum:i26E3487CCCC7533A
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti299 – 2991A → R in AAB00435 (PubMed:8605028).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY995217 mRNA. Translation: AAX86839.1.
U43658 Genomic DNA. Translation: AAB00435.1.
RefSeqiNP_571353.1. NM_131278.1.
UniGeneiDr.93311.

Genome annotation databases

EnsembliENSDART00000149175; ENSDARP00000124728; ENSDARG00000006206.
GeneIDi30534.
KEGGidre:30534.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AY995217 mRNA. Translation: AAX86839.1.
U43658 Genomic DNA. Translation: AAB00435.1.
RefSeqiNP_571353.1. NM_131278.1.
UniGeneiDr.93311.

3D structure databases

ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSDART00000149175; ENSDARP00000124728; ENSDARG00000006206.
GeneIDi30534.
KEGGidre:30534.

Organism-specific databases

CTDi5459.
ZFINiZDB-GENE-990415-24. pou4f3.

Phylogenomic databases

eggNOGiNOG289030.
GeneTreeiENSGT00760000118935.
HOGENOMiHOG000116305.
HOVERGENiHBG053120.
InParanoidiQ90435.
KOiK09366.
OrthoDBiEOG7RV9G7.
PhylomeDBiQ90435.

Miscellaneous databases

NextBioi20806916.
PROiQ90435.

Gene expression databases

BgeeiQ90435.

Family and domain databases

Gene3Di1.10.10.60. 1 hit.
1.10.260.40. 1 hit.
InterProiIPR017970. Homeobox_CS.
IPR001356. Homeobox_dom.
IPR009057. Homeodomain-like.
IPR010982. Lambda_DNA-bd_dom.
IPR013847. POU.
IPR000327. POU_specific.
[Graphical view]
PfamiPF00046. Homeobox. 1 hit.
PF00157. Pou. 1 hit.
[Graphical view]
PRINTSiPR00028. POUDOMAIN.
SMARTiSM00389. HOX. 1 hit.
SM00352. POU. 1 hit.
[Graphical view]
SUPFAMiSSF46689. SSF46689. 1 hit.
SSF47413. SSF47413. 1 hit.
PROSITEiPS00027. HOMEOBOX_1. 1 hit.
PS50071. HOMEOBOX_2. 1 hit.
PS00035. POU_1. 1 hit.
PS00465. POU_2. 1 hit.
PS51179. POU_3. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

  1. "A GFP-based genetic screen reveals mutations that disrupt the architecture of the zebrafish retinotectal projection."
    Xiao T., Roeser T., Staub W., Baier H.
    Development 132:2955-2967(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], TISSUE SPECIFICITY.
  2. "Developmental expression of class III and IV POU domain genes in the zebrafish."
    Sampath K., Stuart G.W.
    Biochem. Biophys. Res. Commun. 219:565-571(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 196-311, TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.
  3. "Developmental expression of the POU domain transcription factor Brn-3b (Pou4f2) in the lateral line and visual system of zebrafish."
    DeCarvalho A.C., Cappendijk S.L., Fadool J.M.
    Dev. Dyn. 229:869-876(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: TISSUE SPECIFICITY, DEVELOPMENTAL STAGE.

Entry informationi

Entry nameiPO4F3_DANRE
AccessioniPrimary (citable) accession number: Q90435
Secondary accession number(s): Q52NV5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1997
Last sequence update: November 24, 2009
Last modified: April 1, 2015
This is version 110 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. 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.