Skip Header

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

Q17381

- PHA4_CAEEL

UniProt

Q17381 - PHA4_CAEEL

(max 400 entries)x

Your basket is currently empty.

Select item(s) and click on "Add to basket" to create your own collection here
(400 entries max)

Protein

Defective pharyngeal development protein 4

Gene

pha-4

Organism
Caenorhabditis elegans
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli

Functioni

Acts as a transcription factor required for formation of the pharyngeal primordium. Binds to the consensus sequence 5'-T[AG]TT[TG][AG][TC]-3' with variations of the sequence affecting onset of target gene expression. Activates a wide array of pharyngeal genes including ceh-22 and myo-2 and represses ectodermal genes lin-26 and elt-3, ensuring pharyngeal cell fate. Required for recruitment of htz-1 to a subset of pharyngeal promoters to ensure gene activation and also acts synergistically with tbx-2 in pharyngeal development. Acts in the regulation of diet-restriction-mediated longevity by increasing expression of sod-1, sod-2, sod-4 and sod-5 but not sod-3.10 Publications

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi236 – 33095Fork-headPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. sequence-specific DNA binding Source: WormBase
  2. sequence-specific DNA binding RNA polymerase II transcription factor activity Source: WormBase

GO - Biological processi

  1. cell differentiation Source: WormBase
  2. cell fate specification involved in pattern specification Source: WormBase
  3. determination of adult lifespan Source: WormBase
  4. embryonic morphogenesis Source: WormBase
  5. pharynx development Source: WormBase
  6. positive regulation of macroautophagy Source: WormBase
  7. positive regulation of transcription from RNA polymerase II promoter Source: WormBase
  8. positive regulation of translation Source: WormBase
  9. transcription from RNA polymerase II promoter Source: GOC
Complete GO annotation...

Keywords - Molecular functioni

Activator, Developmental protein, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Enzyme and pathway databases

ReactomeiREACT_229685. Regulation of gene expression in early pancreatic precursor cells.
REACT_254189. Regulation of gene expression in beta cells.
SignaLinkiQ17381.

Names & Taxonomyi

Protein namesi
Recommended name:
Defective pharyngeal development protein 4
Alternative name(s):
Ce-fkh-1
Fork head-HNF-3 homolog
Gene namesi
Name:pha-4Imported
Synonyms:fkh-1Imported
ORF Names:F38A6.1
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
ProteomesiUP000001940: Chromosome V

Organism-specific databases

WormBaseiF38A6.1a; CE15998; WBGene00004013; pha-4.
F38A6.1b; CE40228; WBGene00004013; pha-4.
F38A6.1c; CE40229; WBGene00004013; pha-4.

Subcellular locationi

Nucleus 3 PublicationsPROSITE-ProRule annotation
Note: Present in nuclei of all cells of larval and adult pharynx but variable in neuronal nuclei.3 Publications

GO - Cellular componenti

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

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Disruption phenotypei

Worms are unable to form the pharyngeal primordium with the pharyngeal precursor cells, ABaraapapaa and ABaraapppaa showing arrested development prior to terminal cell division. Some mutants exhibit malformed rectal tissues and fail to undergo proper embryonic elongation.1 Publication

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi158 – 1581L → F in q400; induces embryonic developmental arrest and lack of a pharynx. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 506506Defective pharyngeal development protein 4PRO_0000294935Add
BLAST

Proteomic databases

PaxDbiQ17381.

Expressioni

Tissue specificityi

Strongly expressed in the embryonic pharynx, particularly pharyngeal primordium precursor cells. Expression less strong in the embryonic gut.2 Publications

Developmental stagei

Expression first seen at the 8E cell stage in the embryonic gut. After hatching, expression is almost diminished in the pharynx and gut. Expressed in L3/L4 larvae in cells of the developing gonad. At the 8-12E stage, expression is seen for the first time in the rectal precursors. Intestinal expression is down-regulated during the larval to adult transition.4 Publications

Interactioni

Protein-protein interaction databases

BioGridi45314. 29 interactions.
DIPiDIP-27474N.
IntActiQ17381. 74 interactions.
MINTiMINT-1038224.

Structurei

3D structure databases

ProteinModelPortaliQ17381.
SMRiQ17381. Positions 234-334.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili38 – 6629Sequence AnalysisAdd
BLAST

Sequence similaritiesi

Contains 1 fork-head DNA-binding domain.PROSITE-ProRule annotation

Keywords - Domaini

Coiled coil

Phylogenomic databases

eggNOGiCOG5025.
GeneTreeiENSGT00760000118904.
HOGENOMiHOG000115523.
InParanoidiQ17381.
OMAiQKRFKVK.
OrthoDBiEOG7C8GHD.
PhylomeDBiQ17381.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR001766. TF_fork_head.
IPR018122. TF_fork_head_CS.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view]
PfamiPF00250. Fork_head. 1 hit.
[Graphical view]
PRINTSiPR00053. FORKHEAD.
SMARTiSM00339. FH. 1 hit.
[Graphical view]
PROSITEiPS00657. FORK_HEAD_1. 1 hit.
PS00658. FORK_HEAD_2. 1 hit.
PS50039. FORK_HEAD_3. 1 hit.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. Align

Isoform a1 Publication (identifier: Q17381-1) [UniParc]FASTAAdd to Basket

Also known as: I

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MTSPSSDEDI IDIRVIKEEP ESEPDSEAEP ATTTNSTDSE DSVEQENKKL
60 70 80 90 100
LETEKNRKRE QKHKMLPNGT TSGTSDTGNQ VPATSSAASS VDYTAMNAQD
110 120 130 140 150
YLPTYSNTTL NYQPYQYQTA ANGLLNYNNY SQYATANQLG SNYISPANFM
160 170 180 190 200
QGGGISPLGF TTGTTGATTA AASVATSSAS AVIGRSNGRS SSTVAASPAD
210 220 230 240 250
RSYSGVSGGQ GQELTIQEFE TVTEKIRRHG TYGQSKPPYS YISLITMAIQ
260 270 280 290 300
KSNSRQLTLS EIYNWIMDLF PYYQNNQQRW QNSIRHSLSF NDCFVKVARS
310 320 330 340 350
PDKPGKGSFW TLHEHCGNMF ENGCYLRRQK RFKVKEREPS RKKRNANSQQ
360 370 380 390 400
LHQQQHIPKM EIKEEDPTSI TTTSSLGAYS LIPQISTKKE IKEELKAVQD
410 420 430 440 450
ATAAAANLGL IDPSGTPSAV NHSQPTSVIS SVGTLGTTQA QMTLNGQYAS
460 470 480 490 500
PYLYSSDFAT ILPQSQNFLN NTLYNTTSSY PGIDYTNGVY QNTLYSSTNP

NSAANL
Length:506
Mass (Da):55,427
Last modified:November 1, 1996 - v1
Checksum:iB9AF5D1A846F2A5E
GO
Isoform b1 Publication (identifier: Q17381-2) [UniParc]FASTAAdd to Basket

Also known as: II

The sequence of this isoform differs from the canonical sequence as follows:
     1-64: Missing.

Show »
Length:442
Mass (Da):48,114
Checksum:iC7BEF1674EEB5A19
GO
Isoform c1 Publication (identifier: Q17381-3) [UniParc]FASTAAdd to Basket

Also known as: III

The sequence of this isoform differs from the canonical sequence as follows:
     1-95: Missing.

Show »
Length:411
Mass (Da):45,143
Checksum:i79DAC4026BE69CD3
GO

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 9595Missing in isoform c. 1 PublicationVSP_052483Add
BLAST
Alternative sequencei1 – 6464Missing in isoform b. 1 PublicationVSP_052482Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U51163 Genomic DNA. Translation: AAA96319.1.
Z92833 Genomic DNA. Translation: CAB07378.1.
Z92833 Genomic DNA. Translation: CAK12559.1.
Z92833 Genomic DNA. Translation: CAK12560.1.
PIRiT21941.
RefSeqiNP_001041114.1. NM_001047649.2. [Q17381-1]
NP_001041115.1. NM_001047650.2. [Q17381-2]
NP_001041116.1. NM_001047651.3. [Q17381-3]
UniGeneiCel.17389.

Genome annotation databases

EnsemblMetazoaiF38A6.1a; F38A6.1a; WBGene00004013. [Q17381-1]
GeneIDi180357.
KEGGicel:CELE_F38A6.1.
UCSCiF38A6.1a. c. elegans. [Q17381-1]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U51163 Genomic DNA. Translation: AAA96319.1 .
Z92833 Genomic DNA. Translation: CAB07378.1 .
Z92833 Genomic DNA. Translation: CAK12559.1 .
Z92833 Genomic DNA. Translation: CAK12560.1 .
PIRi T21941.
RefSeqi NP_001041114.1. NM_001047649.2. [Q17381-1 ]
NP_001041115.1. NM_001047650.2. [Q17381-2 ]
NP_001041116.1. NM_001047651.3. [Q17381-3 ]
UniGenei Cel.17389.

3D structure databases

ProteinModelPortali Q17381.
SMRi Q17381. Positions 234-334.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

BioGridi 45314. 29 interactions.
DIPi DIP-27474N.
IntActi Q17381. 74 interactions.
MINTi MINT-1038224.

Proteomic databases

PaxDbi Q17381.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblMetazoai F38A6.1a ; F38A6.1a ; WBGene00004013 . [Q17381-1 ]
GeneIDi 180357.
KEGGi cel:CELE_F38A6.1.
UCSCi F38A6.1a. c. elegans. [Q17381-1 ]

Organism-specific databases

CTDi 180357.
WormBasei F38A6.1a ; CE15998 ; WBGene00004013 ; pha-4.
F38A6.1b ; CE40228 ; WBGene00004013 ; pha-4.
F38A6.1c ; CE40229 ; WBGene00004013 ; pha-4.

Phylogenomic databases

eggNOGi COG5025.
GeneTreei ENSGT00760000118904.
HOGENOMi HOG000115523.
InParanoidi Q17381.
OMAi QKRFKVK.
OrthoDBi EOG7C8GHD.
PhylomeDBi Q17381.

Enzyme and pathway databases

Reactomei REACT_229685. Regulation of gene expression in early pancreatic precursor cells.
REACT_254189. Regulation of gene expression in beta cells.
SignaLinki Q17381.

Miscellaneous databases

NextBioi 909012.

Family and domain databases

Gene3Di 1.10.10.10. 1 hit.
InterProi IPR001766. TF_fork_head.
IPR018122. TF_fork_head_CS.
IPR011991. WHTH_DNA-bd_dom.
[Graphical view ]
Pfami PF00250. Fork_head. 1 hit.
[Graphical view ]
PRINTSi PR00053. FORKHEAD.
SMARTi SM00339. FH. 1 hit.
[Graphical view ]
PROSITEi PS00657. FORK_HEAD_1. 1 hit.
PS00658. FORK_HEAD_2. 1 hit.
PS50039. FORK_HEAD_3. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

« Hide 'large scale' publications
  1. "A fork head/HNF-3 homolog expressed in the pharynx and intestine of the Caenorhabditis elegans embryo."
    Azzaria M., Goszczynski B., Chung M.A., Kalb J.M., McGhee J.D.
    Dev. Biol. 178:289-303(1996) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORMS A; B AND C), TISSUE SPECIFICITY, DEVELOPMENTAL STAGE, ALTERNATIVE SPLICING.
    Strain: Bristol N2Imported.
  2. "Genome sequence of the nematode C. elegans: a platform for investigating biology."
    The C. elegans sequencing consortium
    Science 282:2012-2018(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: Bristol N2.
  3. "The pha-4 gene is required to generate the pharyngeal primordium of Caenorhabditis elegans."
    Mango S.E., Lambie E.J., Kimble J.
    Development 120:3019-3031(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DISRUPTION PHENOTYPE.
  4. "pha-4 is Ce-fkh-1, a fork head/HNF-3alpha,beta,gamma homolog that functions in organogenesis of the C. elegans pharynx."
    Kalb J.M., Lau K.K., Goszczynski B., Fukushige T., Moons D., Okkema P.G., McGhee J.D.
    Development 125:2171-2180(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
  5. "pha-4, an HNF-3 homolog, specifies pharyngeal organ identity in Caenorhabditis elegans."
    Horner M.A., Quintin S., Domeier M.E., Kimble J., Labouesse M., Mango S.E.
    Genes Dev. 12:1947-1952(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, DEVELOPMENTAL STAGE.
  6. "Regulation of organogenesis by the Caenorhabditis elegans FoxA protein PHA-4."
    Gaudet J., Mango S.E.
    Science 295:821-825(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  7. "An early pharyngeal muscle enhancer from the Caenorhabditis elegans ceh-22 gene is targeted by the forkhead factor PHA-4."
    Vilimas T., Abraham A., Okkema P.G.
    Dev. Biol. 266:388-398(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  8. "The temporal patterning microRNA let-7 regulates several transcription factors at the larval to adult transition in C. elegans."
    Grosshans H., Johnson T., Reinert K.L., Gerstein M., Slack F.J.
    Dev. Cell 8:321-330(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: DEVELOPMENTAL STAGE.
  9. "Contribution of the amino and carboxyl termini for PHA-4/FoxA function in Caenorhabditis elegans."
    Kaltenbach L.S., Updike D.L., Mango S.E.
    Dev. Dyn. 234:346-354(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, MUTAGENESIS OF LEU-158.
  10. "Temporal regulation of foregut development by HTZ-1/H2A.Z and PHA-4/FoxA."
    Updike D.L., Mango S.E.
    PLoS Genet. 2:1500-1510(2006) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  11. "Role of T-box gene tbx-2 for anterior foregut muscle development in C. elegans."
    Smith P.A., Mango S.E.
    Dev. Biol. 302:25-39(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  12. "PHA-4/FoxA cooperates with TAM-1/TRIM to regulate cell fate restriction in the C. elegans foregut."
    Kiefer J.C., Smith P.A., Mango S.E.
    Dev. Biol. 303:611-624(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, DEVELOPMENTAL STAGE.
  13. "PHA-4/Foxa mediates diet-restriction-induced longevity of C. elegans."
    Panowski S.H., Wolff S., Aguilaniu H., Durieux J., Dillin A.
    Nature 447:550-555(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION.

Entry informationi

Entry nameiPHA4_CAEEL
AccessioniPrimary (citable) accession number: Q17381
Secondary accession number(s): Q1HAZ5, Q1HAZ6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 10, 2007
Last sequence update: November 1, 1996
Last modified: November 26, 2014
This is version 130 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Caenorhabditis elegans
    Caenorhabditis elegans: entries, gene names and cross-references to WormBase
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3