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Protein

Forkhead box protein D3

Gene

Foxd3

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Binds to the consensus sequence 5'-A[AT]T[AG]TTTGTTT-3' and acts as a transcriptional repressor. Also acts as a transcriptional activator. Promotes development of neural crest cells from neural tube progenitors. Restricts neural progenitor cells to the neural crest lineage while suppressing interneuron differentiation. Required for maintenance of pluripotent cells in the pre-implantation and peri-implantation stages of embryogenesis (By similarity).By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
DNA bindingi3 – 9795Fork-headPROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

  1. DNA binding Source: RGD
  2. double-stranded DNA binding Source: RGD
  3. RNA polymerase II regulatory region sequence-specific DNA binding Source: Ensembl
  4. RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription Source: Ensembl
  5. sequence-specific DNA binding RNA polymerase II transcription factor activity Source: GO_Central
  6. sequence-specific DNA binding transcription factor activity Source: UniProtKB

GO - Biological processi

  1. anatomical structure morphogenesis Source: GO_Central
  2. cell differentiation Source: GO_Central
  3. embryonic placenta development Source: Ensembl
  4. in utero embryonic development Source: UniProtKB
  5. negative regulation of transcription from RNA polymerase II promoter Source: UniProtKB
  6. positive regulation of transcription from RNA polymerase II promoter Source: UniProtKB
  7. regulation of transcription, DNA-templated Source: RGD
  8. regulation of transcription from RNA polymerase II promoter Source: GO_Central
  9. transcription from RNA polymerase II promoter Source: GOC
  10. trophectodermal cell differentiation Source: Ensembl
Complete GO annotation...

Keywords - Molecular functioni

Activator, Developmental protein, Repressor

Keywords - Biological processi

Transcription, Transcription regulation

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
Forkhead box protein D3
Alternative name(s):
HNF3/FH transcription factor genesis
Hepatocyte nuclear factor 3 forkhead homolog 2
Short name:
HFH-2
Gene namesi
Name:Foxd3
Synonyms:Hfh2
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
ProteomesiUP000002494 Componenti: Unplaced

Organism-specific databases

RGDi621715. Foxd3.

Subcellular locationi

  1. Nucleus PROSITE-ProRule annotation

GO - Cellular componenti

  1. nuclear chromatin Source: Ensembl
  2. nucleus Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini‹1 – ›101›101Forkhead box protein D3PRO_0000091819Add
BLAST

Proteomic databases

PaxDbiQ63245.

PTM databases

PhosphoSiteiQ63245.

Expressioni

Gene expression databases

ExpressionAtlasiQ63245. baseline and differential.
GenevestigatoriQ63245.

Interactioni

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000054694.

Structurei

Secondary structure

1
101
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi8 – 1710Combined sources
Turni20 – 223Combined sources
Helixi26 – 3611Combined sources
Helixi38 – 436Combined sources
Helixi47 – 5913Combined sources
Beta strandi62 – 643Combined sources
Beta strandi71 – 733Combined sources
Beta strandi76 – 783Combined sources
Helixi83 – 897Combined sources
Beta strandi94 – 963Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2HDCNMR-A2-98[»]
2HFHNMR-A2-101[»]
ProteinModelPortaliQ63245.
SMRiQ63245. Positions 2-98.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ63245.

Family & Domainsi

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG5025.
HOGENOMiHOG000231285.
HOVERGENiHBG083674.
InParanoidiQ63245.
PhylomeDBiQ63245.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR001766. TF_fork_head.
IPR018122. TF_fork_head_CS_1.
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]

Sequencei

Sequence statusi: Fragment.

Q63245-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
LVKPPYSYIA LITMAILQSP QKKLTLSGIC EFISNRFPYY REKFPAWQNS
60 70 80 90 100
IRHNLSLNDC FVKIPREPGN PGKGNYWTLD PQSEDMFDNG SFLRRRKRFK

R
Length:101
Mass (Da):11,943
Last modified:November 1, 1996 - v1
Checksum:iDC0ADEC15A1DD143
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Non-terminal residuei1 – 11
Non-terminal residuei101 – 1011

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L13202 mRNA. Translation: AAA41319.1.
PIRiI60917.
UniGeneiRn.92964.

Genome annotation databases

UCSCiRGD:621715. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
L13202 mRNA. Translation: AAA41319.1.
PIRiI60917.
UniGeneiRn.92964.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2HDCNMR-A2-98[»]
2HFHNMR-A2-101[»]
ProteinModelPortaliQ63245.
SMRiQ63245. Positions 2-98.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000054694.

PTM databases

PhosphoSiteiQ63245.

Proteomic databases

PaxDbiQ63245.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

UCSCiRGD:621715. rat.

Organism-specific databases

RGDi621715. Foxd3.

Phylogenomic databases

eggNOGiCOG5025.
HOGENOMiHOG000231285.
HOVERGENiHBG083674.
InParanoidiQ63245.
PhylomeDBiQ63245.

Miscellaneous databases

EvolutionaryTraceiQ63245.

Gene expression databases

ExpressionAtlasiQ63245. baseline and differential.
GenevestigatoriQ63245.

Family and domain databases

Gene3Di1.10.10.10. 1 hit.
InterProiIPR001766. TF_fork_head.
IPR018122. TF_fork_head_CS_1.
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]
ProtoNetiSearch...

Publicationsi

  1. "Identification of nine tissue-specific transcription factors of the hepatocyte nuclear factor 3/forkhead DNA-binding-domain family."
    Clevidence D.E., Overdier D.G., Tao W., Qian X., Pani L., Lai E., Costa R.H.
    Proc. Natl. Acad. Sci. U.S.A. 90:3948-3952(1993) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: Sprague-Dawley.
  2. "Structural changes in the region directly adjacent to the DNA-binding helix highlight a possible mechanism to explain the observed changes in the sequence-specific binding of winged helix proteins."
    Marsden I., Jin C., Liao X.
    J. Mol. Biol. 278:293-299(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: STRUCTURE BY NMR OF 3-97.

Entry informationi

Entry nameiFOXD3_RAT
AccessioniPrimary (citable) accession number: Q63245
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 15, 1998
Last sequence update: November 1, 1996
Last modified: April 29, 2015
This is version 122 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

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.