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 AT3G54990.1
Common NameF28P10.30, SMZ
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 AP2
Protein Properties Length: 346aa    MW: 38671.5 Da    PI: 9.6964
Description AP2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT3G54990.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP256.19.4e-18121170155
          AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                  s+y+GV++++++grW+++I+d      + k+++lg f+ta+ Aa+a+++a+ k++g
  AT3G54990.1 121 SQYRGVTFYRRTGRWESHIWD------CgKQVYLGGFDTAYAAARAYDRAAIKFRG 170
                  78*******************......55************************998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541712.42E-15121178IPR016177DNA-binding domain
PfamPF008471.9E-9121170IPR001471AP2/ERF domain
PROSITE profilePS5103217.332122178IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.8E-16122177IPR001471AP2/ERF domain
SMARTSM003801.6E-29122184IPR001471AP2/ERF domain
CDDcd000183.61E-11122177No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0007275Biological Processmulticellular organism development
GO:0009658Biological Processchloroplast organization
GO:0009873Biological Processethylene-activated signaling pathway
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: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:0025022anatomycollective leaf structure
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001185developmental stageplant embryo globular stage
PO:0004507developmental stageplant embryo bilateral stage
PO:0007095developmental stageLP.08 eight 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: 346 aa     Download sequence    Send to blast
MLDLNLKIFS SYNEDQDRKV PLMISTTGEE ESNSSSSSTT DSAARDAFIA FGILKRDDDL  60
VPPPPPPPHK ETGDLFPVVA DARRNIEFSV EDSHWLNLSS LQRNTQKMVK KSRRGPRSRS  120
SQYRGVTFYR RTGRWESHIW DCGKQVYLGG FDTAYAAARA YDRAAIKFRG LDADINFVVD  180
DYRHDIDKMK NLNKVEFVQT LRRESASFGR GSSKYKGLAL QKCTQFKTHD QIHLFQNRGW  240
DAAAIKYNEL GKGEGAMKFG AHIKGNGHND LELSLGISSS SESIKLTTGD YYKGINRSTM  300
GLYGKQSSIF LPMATMKPLK TVAASSGFPF ISMTSSSSSM SNCFDP
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO794454770.0
Genevisible251811_at0.0
Expression AtlasAT3G54990-
AtGenExpressAT3G54990-
ATTED-IIAT3G54990-
Functional Description ? help Back to Top
Source Description
TAIREncodes a AP2 domain transcription factor that can repress flowering. SMZ and its paralogous gene, SNARCHZAPFEN (SNZ), share a signature with partial complementarity to the miR172 microRNA, whose precursor is induced upon flowering.
UniProtProbably acts as a transcriptional activator. Binds to the GCC-box pathogenesis-related promoter element. May be involved in the regulation of gene expression by stress factors and by components of stress signal transduction pathways (By similarity). Repressor of flowering. {ECO:0000250, ECO:0000269|PubMed:14573523}.
Function -- GeneRIF ? help Back to Top
  1. Expression of SMZ is developmentally regulated and tissue specific. SMZ represses flowering (via FT and other genes) under long-day photoperiod; SMZ repression of flowering is dependent on FLM but independent of FLC. SMZ represses FT transcription.
    [PMID: 19582143]
  2. Repressors of flowering time belonging to the AP2-type transcription factor family including SCHLAFMUTZE (SMZ) and SCHNARCHZAPFEN (SNZ) are important regulators of flowering time in response to nitrate. The results support a model whereby nitrate activates SMZ and SNZ via the gibberellin pathway to repress flowering time in Arabidopsis thaliana.
    [PMID: 29309650]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00075ChIP-chip26531826Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT3G54990.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by miR172 after photoperiod changement. {ECO:0000269|PubMed:14573523}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Regulation -- MicroRNA ? help Back to Top
Source Description
miRTarBaseRegulated by ath-miR172b
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT3G54990
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY5762750.0AY576275.1 Arabidopsis thaliana AP2 domain transcription factor (SMZ) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_191059.20.0Integrase-type DNA-binding superfamily protein
SwissprotQ6PV680.0SMZ_ARATH; AP2-like ethylene-responsive transcription factor SMZ
TrEMBLA0A178VF640.0A0A178VF64_ARATH; SMZ
STRINGAT3G54990.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM108581832
Representative plantOGRP4971784
Publications ? help Back to Top
  1. Krizek BA,Prost V,Macias A
    AINTEGUMENTA promotes petal identity and acts as a negative regulator of AGAMOUS.
    Plant Cell, 2000. 12(8): p. 1357-66
    [PMID:10948255]
  2. Riechmann JL, et al.
    Arabidopsis transcription factors: genome-wide comparative analysis among eukaryotes.
    Science, 2000. 290(5499): p. 2105-10
    [PMID:11118137]
  3. Zik M,Irish VF
    Global identification of target genes regulated by APETALA3 and PISTILLATA floral homeotic gene action.
    Plant Cell, 2003. 15(1): p. 207-22
    [PMID:12509532]
  4. Schmid M, et al.
    Dissection of floral induction pathways using global expression analysis.
    Development, 2003. 130(24): p. 6001-12
    [PMID:14573523]
  5. Scheible WR, et al.
    Genome-wide reprogramming of primary and secondary metabolism, protein synthesis, cellular growth processes, and the regulatory infrastructure of Arabidopsis in response to nitrogen.
    Plant Physiol., 2004. 136(1): p. 2483-99
    [PMID:15375205]
  6. Nole-Wilson S,Tranby TL,Krizek BA
    AINTEGUMENTA-like (AIL) genes are expressed in young tissues and may specify meristematic or division-competent states.
    Plant Mol. Biol., 2005. 57(5): p. 613-28
    [PMID:15988559]
  7. Kim S,Soltis PS,Wall K,Soltis DE
    Phylogeny and domain evolution in the APETALA2-like gene family.
    Mol. Biol. Evol., 2006. 23(1): p. 107-20
    [PMID:16151182]
  8. Nakano T,Suzuki K,Fujimura T,Shinshi H
    Genome-wide analysis of the ERF gene family in Arabidopsis and rice.
    Plant Physiol., 2006. 140(2): p. 411-32
    [PMID:16407444]
  9. Glazińska P,Zienkiewicz A,Wojciechowski W,Kopcewicz J
    The putative miR172 target gene InAPETALA2-like is involved in the photoperiodic flower induction of Ipomoea nil.
    J. Plant Physiol., 2009. 166(16): p. 1801-13
    [PMID:19560230]
  10. Mathieu J,Yant LJ,Mürdter F,Küttner F,Schmid M
    Repression of flowering by the miR172 target SMZ.
    PLoS Biol., 2009. 7(7): p. e1000148
    [PMID:19582143]
  11. Yant L, et al.
    Orchestration of the floral transition and floral development in Arabidopsis by the bifunctional transcription factor APETALA2.
    Plant Cell, 2010. 22(7): p. 2156-70
    [PMID:20675573]
  12. Ruckle ME,Burgoon LD,Lawrence LA,Sinkler CA,Larkin RM
    Plastids are major regulators of light signaling in Arabidopsis.
    Plant Physiol., 2012. 159(1): p. 366-90
    [PMID:22383539]
  13. Gras DE, et al.
    SMZ/SNZ and gibberellin signaling are required for nitrate-elicited delay of flowering time in Arabidopsis thaliana.
    J. Exp. Bot., 2018. 69(3): p. 619-631
    [PMID:29309650]
  14. Ohme-Takagi M,Shinshi H
    Ethylene-inducible DNA binding proteins that interact with an ethylene-responsive element.
    Plant Cell, 1995. 7(2): p. 173-82
    [PMID:7756828]
  15. Jofuku KD,den Boer BG,Van Montagu M,Okamuro JK
    Control of Arabidopsis flower and seed development by the homeotic gene APETALA2.
    Plant Cell, 1994. 6(9): p. 1211-25
    [PMID:7919989]
  16. Okamuro JK,Caster B,Villarroel R,Van Montagu M,Jofuku KD
    The AP2 domain of APETALA2 defines a large new family of DNA binding proteins in Arabidopsis.
    Proc. Natl. Acad. Sci. U.S.A., 1997. 94(13): p. 7076-81
    [PMID:9192694]