PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
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(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT5G06250.2
Common NameDPA4, MHF15.23
Organism
Arabidopsis thaliana
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family B3
Protein Properties Length: 282aa    MW: 31648.7 Da    PI: 6.9721
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G06250.2genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3110.95.8e-3546158199
                  EEEE-..-HHHHTT-EE--HHH.HTT..............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh..............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkl 84 
                  f+k ltpsdv+k++rlv+pk++ae++               +++e+++ l++edesg+sW+++++y+++s++yvltkGW++Fvk+++L+ gD+v F++
  AT5G06250.2  46 FEKSLTPSDVGKLNRLVIPKQHAEKYfplnavlvssaaadTSSSEKGMLLSFEDESGKSWRFRYSYWNSSQSYVLTKGWSRFVKDKQLDPGDVVFFQR 143
                  99**********************************99996667899**************************************************9 PP

                  -SSSEE..EEEEE-S CS
           B3  85 dgrsefelvvkvfrk 99 
                  +++++++l+++++r+
  AT5G06250.2 144 HRSDSRRLFIGWRRR 158
                  8889999******97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.9E-4142167IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.71E-3144158IPR015300DNA-binding pseudobarrel domain
CDDcd100178.09E-2945149No hitNo description
PfamPF023623.2E-3246158IPR003340B3 DNA binding domain
SMARTSM010193.0E-2746159IPR003340B3 DNA binding domain
PROSITE profilePS5086314.57946159IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010073Biological Processmeristem maintenance
GO:0010358Biological Processleaf shaping
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000037anatomyshoot apex
PO:0000293anatomyguard cell
PO:0009001anatomyfruit
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0025022anatomycollective leaf structure
PO:0025384anatomyleaf sinus
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 282 aa     Download sequence    Send to blast
MSVNHYSTDH HHTLLWQQQQ HRHTTDTSET TTTATWLHDD LKESLFEKSL TPSDVGKLNR  60
LVIPKQHAEK YFPLNAVLVS SAAADTSSSE KGMLLSFEDE SGKSWRFRYS YWNSSQSYVL  120
TKGWSRFVKD KQLDPGDVVF FQRHRSDSRR LFIGWRRRGQ GSSSSVAATN SAVNTSSMGA  180
LSYHQIHATS NYSNPPSHSE YSHYGAAVAT AAETHSTPSS SVVGSSRTVR LFGVNLECQM  240
DENDGDDSVA VATTVESPDG YYGQNMYYYY SHPHNMVILT LL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5os9_A5e-52421584113B3 domain-containing transcription factor NGA1
5os9_B5e-52421584113B3 domain-containing transcription factor NGA1
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible250719_at0.0
Expression AtlasAT5G06250-
AtGenExpressAT5G06250-
ATTED-IIAT5G06250-
Function -- GeneRIF ? help Back to Top
  1. Findings identify SOD7 and DPA4 as negative regulators of seed size and define the genetic and molecular mechanisms of SOD7, DPA4, and KLU in seed size control. [DPA4]
    [PMID: 25783029]
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G06250.2
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G06250
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB0067000.0AB006700.2 Arabidopsis thaliana genomic DNA, chromosome 5, P1 clone:MHF15.
GenBankCP0026880.0CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001119177.10.0AP2/B3-like transcriptional factor family protein
SwissprotQ9FNI30.0Y5625_ARATH; B3 domain-containing protein At5g06250
TrEMBLA0A178UF660.0A0A178UF66_ARATH; AP2/B3-like transcriptional factor family protein
TrEMBLA0A384L0Y10.0A0A384L0Y1_ARATH; DPA4
STRINGAT5G06250.20.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM122028100
Representative plantOGRP36516108
Publications ? help Back to Top
  1. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  2. Swaminathan K,Peterson K,Jack T
    The plant B3 superfamily.
    Trends Plant Sci., 2008. 13(12): p. 647-55
    [PMID:18986826]
  3. Ikeda M,Ohme-Takagi M
    A novel group of transcriptional repressors in Arabidopsis.
    Plant Cell Physiol., 2009. 50(5): p. 970-5
    [PMID:19324928]
  4. Causier B,Ashworth M,Guo W,Davies B
    The TOPLESS interactome: a framework for gene repression in Arabidopsis.
    Plant Physiol., 2012. 158(1): p. 423-38
    [PMID:22065421]
  5. Engelhorn J, et al.
    Development-related PcG target in the apex 4 controls leaf margin architecture in Arabidopsis thaliana.
    Development, 2012. 139(14): p. 2566-75
    [PMID:22675210]
  6. Zhang Y, et al.
    Transcription factors SOD7/NGAL2 and DPA4/NGAL3 act redundantly to regulate seed size by directly repressing KLU expression in Arabidopsis thaliana.
    Plant Cell, 2015. 27(3): p. 620-32
    [PMID:25783029]