PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009113680.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family B3
Protein Properties Length: 359aa    MW: 41045.8 Da    PI: 6.1897
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009113680.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B361.41.5e-19163262299
                     EEE-..-HHHHTT-EE--HHH.HTT..---..--SEEEEEETTS.-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE. CS
              B3   2 fkvltpsdvlksgrlvlpkkfaeeh..ggkkeesktltledesg.rsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefe 91 
                     +k l++sdv+++gr+vlpk+ ae +  +++++e++ + ++d ++ + W++k+++  ++ks++yvl+ ++ +Fv +++++ gDf++++  ++++++
  XP_009113680.1 163 VKHLKNSDVGSLGRIVLPKREAEGNlpELSTKEGMIVDMRDADSmQNWSFKYKFwsNNKSRMYVLE-NTGQFVTEKRVEIGDFLTIY--EDESKN 254
                     6889***********************99999*********5555*******99888888889999.********************..669999 PP

                     .EEEEE-S CS
              B3  92 lvvkvfrk 99 
                     l+++++++
  XP_009113680.1 255 LYFSIRKH 262
                     9**99986 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.2E-24158263IPR015300DNA-binding pseudobarrel domain
CDDcd100176.39E-21161261No hitNo description
PROSITE profilePS508639.22162263IPR003340B3 DNA binding domain
SuperFamilySSF1019364.84E-19162260IPR015300DNA-binding pseudobarrel domain
SMARTSM010192.4E-19162263IPR003340B3 DNA binding domain
PfamPF023625.0E-16163262IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 359 aa     Download sequence    Send to blast
MDNFLPFSSS NANFVQELSM DLNNNRSRLS TFPTYDHHHQ AQPRSLQPYS YVACPVDQTA  60
AMNPQIPVTQ TGSEFGSLVC NPGFGQARGG FLDPHTAKMA RINRKKAMIR SRNNSSPNSS  120
SNELVGSRRQ VVLTMKNNAE IAARKDLYRY PSFDNKKLRV LLVKHLKNSD VGSLGRIVLP  180
KREAEGNLPE LSTKEGMIVD MRDADSMQNW SFKYKFWSNN KSRMYVLENT GQFVTEKRVE  240
IGDFLTIYED ESKNLYFSIR KHADKPNEGR EDESMEANDM NFYEDIAFDF IPKDEDEDSI  300
AMLIGNLNDH YPNPNNRMDL PIDLHQHHQA TSLPPADYMT NPQYGGSSND LMSFNDFVW
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
6j9c_A2e-561522593110B3 domain-containing transcription factor LEC2
6j9c_D2e-561522593110B3 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009113680.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009113680.10.0PREDICTED: B3 domain-containing transcription factor LEC2
SwissprotQ1PFR71e-155LEC2_ARATH; B3 domain-containing transcription factor LEC2
TrEMBLA0A078I9V00.0A0A078I9V0_BRANA; BnaA09g27380D protein
TrEMBLA0A397XY290.0A0A397XY29_BRACM; Uncharacterized protein
STRINGBra032890.1-P0.0(Brassica rapa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G28300.11e-149B3 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]