PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Potri.004G045800.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family B3
Protein Properties Length: 398aa    MW: 44696.1 Da    PI: 8.1879
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.004G045800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B358.99.3e-19174269396
                         EE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEE.TTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                  B3   3 kvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltled.esgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                         k l++sdv+++gr+vlpk+ +ee+   ++ +e++ l l+d  s+++W +k+++  ++ks++yvl+ ++ eFvk+ngL++gDf++++  +++
  Potri.004G045800.1 174 KDLKNSDVGSLGRIVLPKREVEENlpVLNDKEGILLFLRDvYSNQEWALKFKFwsNNKSRMYVLE-NTGEFVKQNGLETGDFLTLY--EDE 261
                         7799**********************66666899******8888*******98888888889999.********************..568 PP

                         EE..EEEE CS
                  B3  89 efelvvkv 96 
                         +++l++++
  Potri.004G045800.1 262 SKNLYFSI 269
                         88888877 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.2E-24167274IPR015300DNA-binding pseudobarrel domain
SMARTSM010193.9E-18172273IPR003340B3 DNA binding domain
PROSITE profilePS5086310.884172273IPR003340B3 DNA binding domain
SuperFamilySSF1019363.27E-20173269IPR015300DNA-binding pseudobarrel domain
PfamPF023622.3E-15174269IPR003340B3 DNA binding domain
CDDcd100174.88E-20176271No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010262Biological Processsomatic embryogenesis
GO:0010344Biological Processseed oilbody biogenesis
GO:0010431Biological Processseed maturation
GO:0010601Biological Processpositive regulation of auxin biosynthetic process
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 398 aa     Download sequence    Send to blast
MGCPQNSQFS SMYGPLSYHS TVPSNSVTQS NCVPPQYYMP APCESRQNPY THSLEKPSHH  60
TPSADPFRLA MAGQNAFEMQ RSCILQPNAF QLEQERRALD AYKTKVARCK RKLARQRSLS  120
KTSIGASSTQ IMDARRLALH GASTCGQRSR SNTSKDLYEF LTPDNKRLRA VLRKDLKNSD  180
VGSLGRIVLP KREVEENLPV LNDKEGILLF LRDVYSNQEW ALKFKFWSNN KSRMYVLENT  240
GEFVKQNGLE TGDFLTLYED ESKNLYFSIT KVGKPASVPS QTPQPINHNS NCLYTPHMYQ  300
ARDEEKSSLA LLIEQLDQKE QEEANSLVAV PPDSAYTNNE LTNNPFNNSS TYSQPASSAM  360
QPSSPNGKMK AVDDSHVDDC YTGLGVLPDV YRFNFSL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9c_A9e-541622693110B3 domain-containing transcription factor LEC2
6j9c_D9e-541622693110B3 domain-containing transcription factor LEC2
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed during embryo development. {ECO:0000269|PubMed:11573014}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription regulator that plays a central role in embryo development. Required for the maintenance of suspensor morphology, specification of cotyledon identity, progression through the maturation phase and suppression of premature germination. Ectopic expression is sufficient to promote somatic embryogenesis. {ECO:0000269|PubMed:11573014, ECO:0000269|PubMed:16492731, ECO:0000269|PubMed:18287041}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00032PBMTransfer from AT1G28300Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.004G045800.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024454872.10.0B3 domain-containing transcription factor LEC2
RefseqXP_024454873.10.0B3 domain-containing transcription factor LEC2
RefseqXP_024454874.10.0B3 domain-containing transcription factor LEC2
RefseqXP_024454875.10.0B3 domain-containing transcription factor LEC2
RefseqXP_024454877.10.0B3 domain-containing transcription factor LEC2
RefseqXP_024454878.10.0B3 domain-containing transcription factor LEC2
RefseqXP_024454879.10.0B3 domain-containing transcription factor LEC2
SwissprotQ1PFR73e-60LEC2_ARATH; B3 domain-containing transcription factor LEC2
TrEMBLA0A2K2APX30.0A0A2K2APX3_POPTR; Uncharacterized protein
STRINGPOPTR_0004s04560.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF123482127
Representative plantOGRP7881766
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G28300.12e-62B3 family protein
Publications ? help Back to Top
  1. Yang C, et al.
    VAL- and AtBMI1-mediated H2Aub initiate the switch from embryonic to postgerminative growth in Arabidopsis.
    Curr. Biol., 2013. 23(14): p. 1324-9
    [PMID:23810531]
  2. Guo F, et al.
    Induced expression of AtLEC1 and AtLEC2 differentially promotes somatic embryogenesis in transgenic tobacco plants.
    PLoS ONE, 2013. 8(8): p. e71714
    [PMID:23951228]
  3. Jia H,McCarty DR,Suzuki M
    Distinct roles of LAFL network genes in promoting the embryonic seedling fate in the absence of VAL repression.
    Plant Physiol., 2013. 163(3): p. 1293-305
    [PMID:24043445]
  4. Feeney M,Frigerio L,Kohalmi SE,Cui Y,Menassa R
    Reprogramming cells to study vacuolar development.
    Front Plant Sci, 2013. 4: p. 493
    [PMID:24348496]
  5. Kim HU, et al.
    Ectopic overexpression of castor bean LEAFY COTYLEDON2 (LEC2) in Arabidopsis triggers the expression of genes that encode regulators of seed maturation and oil body proteins in vegetative tissues.
    FEBS Open Bio, 2013. 4: p. 25-32
    [PMID:24363987]
  6. Nookaraju A, et al.
    Enhanced accumulation of fatty acids and triacylglycerols in transgenic tobacco stems for enhanced bioenergy production.
    Plant Cell Rep., 2014. 33(7): p. 1041-52
    [PMID:24585187]
  7. Zhang Y,Clemens A,Maximova SN,Guiltinan MJ
    The Theobroma cacao B3 domain transcription factor TcLEC2 plays a duel role in control of embryo development and maturation.
    BMC Plant Biol., 2014. 14: p. 106
    [PMID:24758406]
  8. Rikiishi K,Maekawa M
    Seed maturation regulators are related to the control of seed dormancy in wheat (Triticum aestivum L.).
    PLoS ONE, 2014. 9(9): p. e107618
    [PMID:25211528]
  9. Yamamoto A, et al.
    Cell-by-cell developmental transition from embryo to post-germination phase revealed by heterochronic gene expression and ER-body formation in Arabidopsis leafy cotyledon mutants.
    Plant Cell Physiol., 2014. 55(12): p. 2112-25
    [PMID:25282558]
  10. Shen Y,Devic M,Lepiniec L,Zhou DX
    Chromodomain, Helicase and DNA-binding CHD1 protein, CHR5, are involved in establishing active chromatin state of seed maturation genes.
    Plant Biotechnol. J., 2015. 13(6): p. 811-20
    [PMID:25581843]
  11. Kim HU, et al.
    Senescence-inducible LEC2 enhances triacylglycerol accumulation in leaves without negatively affecting plant growth.
    Plant Biotechnol. J., 2015. 13(9): p. 1346-59
    [PMID:25790072]
  12. Schneider A, et al.
    Potential targets of VIVIPAROUS1/ABI3-LIKE1 (VAL1) repression in developing Arabidopsis thaliana embryos.
    Plant J., 2016. 85(2): p. 305-19
    [PMID:26678037]
  13. Baud S, et al.
    Deciphering the Molecular Mechanisms Underpinning the Transcriptional Control of Gene Expression by Master Transcriptional Regulators in Arabidopsis Seed.
    Plant Physiol., 2016. 171(2): p. 1099-112
    [PMID:27208266]
  14. Ikeuchi M, et al.
    PRC2 represses dedifferentiation of mature somatic cells in Arabidopsis.
    Nat Plants, 2015. 1: p. 15089
    [PMID:27250255]
  15. Fatihi A, et al.
    Deciphering and modifying LAFL transcriptional regulatory network in seed for improving yield and quality of storage compounds.
    Plant Sci., 2016. 250: p. 198-204
    [PMID:27457996]
  16. Tang LP, et al.
    FUSCA3 interacting with LEAFY COTYLEDON2 controls lateral root formation through regulating YUCCA4 gene expression in Arabidopsis thaliana.
    New Phytol., 2017. 213(4): p. 1740-1754
    [PMID:27878992]
  17. Vanhercke T, et al.
    Step changes in leaf oil accumulation via iterative metabolic engineering.
    Metab. Eng., 2017. 39: p. 237-246
    [PMID:27993560]
  18. Han JD, et al.
    Evolutionary Analysis of the LAFL Genes Involved in the Land Plant Seed Maturation Program.
    Front Plant Sci, 2017. 8: p. 439
    [PMID:28421087]
  19. Horstman A, et al.
    The BABY BOOM Transcription Factor Activates the LEC1-ABI3-FUS3-LEC2 Network to Induce Somatic Embryogenesis.
    Plant Physiol., 2017. 175(2): p. 848-857
    [PMID:28830937]
  20. Liu C,Tong S,Zhang W,Hou H
    [Expression of Leafy Cotyledon 2 from Arabidopsis increased the content of lipid in Chlorella sorokiniana].
    Sheng Wu Gong Cheng Xue Bao, 2017. 33(6): p. 1037-1045
    [PMID:28895365]
  21. Wójcik AM,Nodine MD,Gaj MD
    miR160 and miR166/165 Contribute to the LEC2-Mediated Auxin Response Involved in the Somatic Embryogenesis Induction in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 2024
    [PMID:29321785]
  22. Chen N,Veerappan V,Abdelmageed H,Kang M,Allen RD
    HSI2/VAL1 Silences AGL15 to Regulate the Developmental Transition from Seed Maturation to Vegetative Growth in Arabidopsis.
    Plant Cell, 2018. 30(3): p. 600-619
    [PMID:29475938]
  23. Boulard C, et al.
    LEC1 (NF-YB9) directly interacts with LEC2 to control gene expression in seed.
    Biochim Biophys Acta Gene Regul Mech, 2018. 1861(5): p. 443-450
    [PMID:29580949]