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 AT4G32010.1
Common NameF10N7.180, HSI2-L1, HSL1, VAL2
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: 780aa    MW: 86012.4 Da    PI: 7.8214
Description HSI2-like 1
Gene Model
Gene Model ID Type Source Coding Sequence
AT4G32010.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B356.74.3e-18286385198
                  EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE....EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliy..rkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                  f+kvl+ sd+++ grlvlpk +ae++    ++++     l+++d +g++W +++++  +++s++yvl+ G     ++ +L++gD+v+F++++  e++l
  AT4G32010.1 286 FEKVLSASDAGRIGRLVLPKACAEAYfppiSLPEGL--PLKIQDIKGKEWVFQFRFwpNNNSRMYVLE-GVTPCIQSMQLQAGDTVTFSRTE-PEGKL 379
                  99**************************88777555..5***************9989999999***9.********************654.77777 PP

                  EEEEE- CS
           B3  93 vvkvfr 98 
                  v++ ++
  AT4G32010.1 380 VMGYRK 385
                  777665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.106.7E-29281390IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.58E-20283386IPR015300DNA-binding pseudobarrel domain
CDDcd100171.66E-22284385No hitNo description
SMARTSM010196.9E-20286386IPR003340B3 DNA binding domain
PfamPF023622.1E-15286385IPR003340B3 DNA binding domain
PROSITE profilePS5086310.955286387IPR003340B3 DNA binding domain
PROSITE profilePS5105014.59515565IPR011124Zinc finger, CW-type
PfamPF074968.0E-13520562IPR011124Zinc finger, CW-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010030Biological Processpositive regulation of seed germination
GO:2000034Biological Processregulation of seed maturation
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
GO:0008270Molecular Functionzinc ion binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000013anatomycauline leaf
PO:0000037anatomyshoot apex
PO:0000230anatomyinflorescence meristem
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0020030anatomycotyledon
PO:0020038anatomypetiole
PO:0020100anatomyhypocotyl
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
PO:0025281anatomypollen
PO:0001054developmental stagevascular leaf senescent stage
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:0007064developmental stageLP.12 twelve leaves visible stage
PO:0007095developmental stageLP.08 eight leaves visible stage
PO:0007098developmental stageLP.02 two leaves visible stage
PO:0007103developmental stageLP.10 ten leaves visible stage
PO:0007115developmental stageLP.04 four leaves visible stage
PO:0007123developmental stageLP.06 six leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 780 aa     Download sequence    Send to blast
MESIKVCMNA LCGAASTSGE WKKGWPMRSG DLASLCDKCG CAYEQSIFCE VFHAKESGWR  60
ECNSCDKRLH CGCIASRFMM ELLENGGVTC ISCAKKSGLI SMNVSHESNG KDFPSFASAE  120
HVGSVLERTN LKHLLHFQRI DPTHSSLQMK QEESLLPSSL DALRHKTERK ELSAQPNLSI  180
SLGPTLMTSP FHDAAVDDRS KTNSIFQLAP RSRQLLPKPA NSAPIAAGME PSGSLVSQIH  240
VARPPPEGRG KTQLLPRYWP RITDQELLQL SGQYPHLSNS KIIPLFEKVL SASDAGRIGR  300
LVLPKACAEA YFPPISLPEG LPLKIQDIKG KEWVFQFRFW PNNNSRMYVL EGVTPCIQSM  360
QLQAGDTVTF SRTEPEGKLV MGYRKATNST ATQMFKGSSE PNLNMFSNSL NPGCGDINWS  420
KLEKSEDMAK DNLFLQSSLT SARKRVRNIG TKSKRLLIDS VDVLELKITW EEAQELLRPP  480
QSTKPSIFTL ENQDFEEYDE PPVFGKRTLF VSRQTGEQEQ WVQCDACGKW RQLPVDILLP  540
PKWSCSDNLL DPGRSSCSAP DELSPREQDT LVRQSKEFKR RRLASSNEKL NQSQDASALN  600
SLGNAGITTT GEQGEITVAA TTKHPRHRAG CSCIVCSQPP SGKGKHKPSC TCTVCEAVKR  660
RFRTLMLRKR NKGEAGQASQ QAQSQSECRD ETEVESIPAV ELAAGENIDL NSDPGASRVS  720
MMRLLQAAAF PLEAYLKQKA ISNTAGEQQS SDMVSTEHGS SSAAQETEKD TTNGAHDPVN
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5z28_A9e-6831051103B3 domain-containing transcription repressor VAL2
5z28_B9e-6831051103B3 domain-containing transcription repressor VAL2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1578582KRRRL
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.18850.0bud| flower| root| silique
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO425673180.0
Genevisible253501_at0.0
Expression AtlasAT4G32010-
AtGenExpressAT4G32010-
ATTED-IIAT4G32010-
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor of gene expression involved in embryonic pathways, such as LEC1, ABI3, and FUS3. Repressor of the sugar-inducible genes involved in the seed maturation program in seedlings. Plays an essential role in regulating the transition from seed maturation to seedling growth. Functionally redundant with VAL1/HSI2. {ECO:0000269|PubMed:17158584, ECO:0000269|PubMed:17267611}.
Function -- GeneRIF ? help Back to Top
  1. HDA19 and HSL1 may act together to repress seed maturation gene expression during germination. HDA19 and HSL1 may play a vital role during embryogenesis.
    [PMID: 23362207]
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT4G32010.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT4G32010
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB2065540.0AB206554.1 Arabidopsis thaliana HSI2-L1 mRNA for transcription factor B3-EAR motif family, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_194929.20.0HSI2-like 1
SwissprotQ5CCK40.0VAL2_ARATH; B3 domain-containing transcription repressor VAL2
TrEMBLA0A178US600.0A0A178US60_ARATH; VAL2
STRINGAT4G32010.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM72032639
Representative plantOGRP12361446
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. Tsukagoshi H,Saijo T,Shibata D,Morikami A,Nakamura K
    Analysis of a sugar response mutant of Arabidopsis identified a novel B3 domain protein that functions as an active transcriptional repressor.
    Plant Physiol., 2005. 138(2): p. 675-85
    [PMID:15894743]
  3. Suzuki M,Wang HH,McCarty DR
    Repression of the LEAFY COTYLEDON 1/B3 regulatory network in plant embryo development by VP1/ABSCISIC ACID INSENSITIVE 3-LIKE B3 genes.
    Plant Physiol., 2007. 143(2): p. 902-11
    [PMID:17158584]
  4. Tsukagoshi H,Morikami A,Nakamura K
    Two B3 domain transcriptional repressors prevent sugar-inducible expression of seed maturation genes in Arabidopsis seedlings.
    Proc. Natl. Acad. Sci. U.S.A., 2007. 104(7): p. 2543-7
    [PMID:17267611]
  5. Ascencio-Ib
    Global analysis of Arabidopsis gene expression uncovers a complex array of changes impacting pathogen response and cell cycle during geminivirus infection.
    Plant Physiol., 2008. 148(1): p. 436-54
    [PMID:18650403]
  6. Swaminathan K,Peterson K,Jack T
    The plant B3 superfamily.
    Trends Plant Sci., 2008. 13(12): p. 647-55
    [PMID:18986826]
  7. Veerappan V, et al.
    A novel HSI2 mutation in Arabidopsis affects the PHD-like domain and leads to derepression of seed-specific gene expression.
    Planta, 2012. 236(1): p. 1-17
    [PMID:22476218]
  8. Wang F,Perry SE
    Identification of direct targets of FUSCA3, a key regulator of Arabidopsis seed development.
    Plant Physiol., 2013. 161(3): p. 1251-64
    [PMID:23314941]
  9. Zhou Y, et al.
    HISTONE DEACETYLASE19 interacts with HSL1 and participates in the repression of seed maturation genes in Arabidopsis seedlings.
    Plant Cell, 2013. 25(1): p. 134-48
    [PMID:23362207]
  10. Li-Beisson Y, et al.
    Acyl-lipid metabolism.
    Arabidopsis Book, 2013. 11: p. e0161
    [PMID:23505340]
  11. 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]
  12. Chhun T, et al.
    HSI2 Repressor Recruits MED13 and HDA6 to Down-Regulate Seed Maturation Gene Expression Directly During Arabidopsis Early Seedling Growth.
    Plant Cell Physiol., 2016. 57(8): p. 1689-706
    [PMID:27335347]
  13. Yuan W, et al.
    A cis cold memory element and a trans epigenome reader mediate Polycomb silencing of FLC by vernalization in Arabidopsis.
    Nat. Genet., 2016. 48(12): p. 1527-1534
    [PMID:27819666]
  14. Li C,Cui Y
    A DNA element that remembers winter.
    Nat. Genet., 2016. 48(12): p. 1451-1452
    [PMID:27898079]