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 AT4G23750.2
Common NameCRF2, ERF064, F9D16.220, TMO3
Organism
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 ERF
Protein Properties Length: 343aa    MW: 37872.5 Da    PI: 6.6849
Description cytokinin response factor 2
Gene Model
Gene Model ID Type Source Coding Sequence
AT4G23750.2genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP259.86.3e-19120170155
          AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                  ++++GVr+++ +g+W+AeIrdp +   r r +lg++ taeeAa  +++a+ +l+g
  AT4G23750.2 120 KKFRGVRQRP-WGKWAAEIRDPLK---RVRLWLGTYNTAEEAAMVYDNAAIQLRG 170
                  59********.**********754...5*************************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.13E-32120177No hitNo description
SuperFamilySSF541711.11E-21121179IPR016177DNA-binding domain
PfamPF008476.8E-12121170IPR001471AP2/ERF domain
PROSITE profilePS5103223.406121178IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.0E-29121178IPR001471AP2/ERF domain
SMARTSM003802.1E-37121184IPR001471AP2/ERF domain
PRINTSPR003677.7E-10122133IPR001471AP2/ERF domain
PRINTSPR003677.7E-10144160IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009736Biological Processcytokinin-activated signaling pathway
GO:0009873Biological Processethylene-activated signaling pathway
GO:0042991Biological Processtranscription factor import into nucleus
GO:0048364Biological Processroot development
GO:0048825Biological Processcotyledon development
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0042802Molecular Functionidentical protein binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000037anatomyshoot apex
PO:0000293anatomyguard cell
PO:0008019anatomyleaf lamina base
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009030anatomycarpel
PO:0009031anatomysepal
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0009052anatomyflower pedicel
PO:0020038anatomypetiole
PO:0020137anatomyleaf apex
PO:0025022anatomycollective leaf structure
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:0007115developmental stageLP.04 four leaves visible stage
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 343 aa     Download sequence    Send to blast
MEAEKKMVLP RIKFTEHKTN TTTIVSELTN THQTRILRIS VTDPDATDSS SDDEEEEHQR  60
FVSKRRRVKK FVNEVYLDSG AVVTGSCGQM ESKKRQKRAV KSESTVSPVV SATTTTTGEK  120
KFRGVRQRPW GKWAAEIRDP LKRVRLWLGT YNTAEEAAMV YDNAAIQLRG PDALTNFSVT  180
PTTATEKKAP PPSPVKKKKK KNNKSKKSVT ASSSISRSSS NDCLCSPVSV LRSPFAVDEF  240
SGISSSPVAA VVVKEEPSMT TVSETFSDFS APLFSDDDVF DFRSSVVPDY LGGDLFGEDL  300
FTADMCTDMN FGFDFGSGLS SWHMEDHFQD IGDLFGSDPL LAV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gcc_A2e-20120177159ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
16367KRRRV
2196206KKKKKNNKSKK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
At.263230.0flower| seed
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible254235_at0.0
Expression AtlasAT4G23750-
AtGenExpressAT4G23750-
ATTED-IIAT4G23750-
Functional Description ? help Back to Top
Source Description
TAIRencodes a member of the ERF (ethylene response factor) subfamily B-5 of ERF/AP2 transcription factor family. The protein contains one AP2 domain. There are 7 members in this subfamily. Monopteros target gene.
UniProtComponent of the cytokinin signaling pathway involved in cotyledons, leaves, and embryos development. Probably 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). {ECO:0000250, ECO:0000269|PubMed:16832061}.
Function -- GeneRIF ? help Back to Top
  1. Findings indicate that CRF2 signaling controls cellular organization and may promote metastatic potential of human CRC cells through an epithelial-mesenchymal transition like process.
    [PMID: 24260200]
  2. Results suggest that CRF2 and CRF3 respond to cold via TCS-dependent and TCS-independent pathways and control LR initiation and development, contributing to LR adaptation to cold stress.
    [PMID: 27432872]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00027PBM25215497Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT4G23750.2
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By cytokinins. {ECO:0000269|PubMed:16832061}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Regulation -- ATRM (Manually Curated Upstream Regulators) ? help Back to Top
Source Upstream Regulator (A: Activate/R: Repress)
ATRM AT2G20180 (R)
Interaction ? help Back to Top
Source Intact With
BioGRIDAT4G23750, AT4G27950, AT5G53290, AT1G22985, AT1G71130
IntActSearch Q9SUQ2
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT4G23750
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL0353940.0AL035394.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F9D16 (ESSAII project).
GenBankAL1615600.0AL161560.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 60.
GenBankAY0574750.0AY057475.1 Arabidopsis thaliana AT4g23750/F9D16_220 mRNA, complete cds.
GenBankBT0150380.0BT015038.1 Arabidopsis thaliana At4g23750 gene, complete cds.
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_194106.10.0cytokinin response factor 2
RefseqNP_974599.10.0cytokinin response factor 2
SwissprotQ9SUQ20.0CRF2_ARATH; Ethylene-responsive transcription factor CRF2
TrEMBLA0A178V3190.0A0A178V319_ARATH; TMO3
STRINGAT4G23750.10.0(Arabidopsis thaliana)
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. Ma L, et al.
    Genomic evidence for COP1 as a repressor of light-regulated gene expression and development in Arabidopsis.
    Plant Cell, 2002. 14(10): p. 2383-98
    [PMID:12368493]
  3. Che P,Gingerich DJ,Lall S,Howell SH
    Global and hormone-induced gene expression changes during shoot development in Arabidopsis.
    Plant Cell, 2002. 14(11): p. 2771-85
    [PMID:12417700]
  4. Rashotte AM,Carson SD,To JP,Kieber JJ
    Expression profiling of cytokinin action in Arabidopsis.
    Plant Physiol., 2003. 132(4): p. 1998-2011
    [PMID:12913156]
  5. Yamada K, et al.
    Empirical analysis of transcriptional activity in the Arabidopsis genome.
    Science, 2003. 302(5646): p. 842-6
    [PMID:14593172]
  6. Wang R, et al.
    Genomic analysis of the nitrate response using a nitrate reductase-null mutant of Arabidopsis.
    Plant Physiol., 2004. 136(1): p. 2512-22
    [PMID:15333754]
  7. Kiba T,Aoki K,Sakakibara H,Mizuno T
    Arabidopsis response regulator, ARR22, ectopic expression of which results in phenotypes similar to the wol cytokinin-receptor mutant.
    Plant Cell Physiol., 2004. 45(8): p. 1063-77
    [PMID:15356332]
  8. Kiba T, et al.
    Combinatorial microarray analysis revealing arabidopsis genes implicated in cytokinin responses through the His->Asp Phosphorelay circuitry.
    Plant Cell Physiol., 2005. 46(2): p. 339-55
    [PMID:15695462]
  9. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  10. 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]
  11. Rashotte AM, et al.
    A subset of Arabidopsis AP2 transcription factors mediates cytokinin responses in concert with a two-component pathway.
    Proc. Natl. Acad. Sci. U.S.A., 2006. 103(29): p. 11081-5
    [PMID:16832061]
  12. Lee DJ, et al.
    Genome-wide expression profiling of ARABIDOPSIS RESPONSE REGULATOR 7(ARR7) overexpression in cytokinin response.
    Mol. Genet. Genomics, 2007. 277(2): p. 115-37
    [PMID:17061125]
  13. Soitamo AJ,Piippo M,Allahverdiyeva Y,Battchikova N,Aro EM
    Light has a specific role in modulating Arabidopsis gene expression at low temperature.
    BMC Plant Biol., 2008. 8: p. 13
    [PMID:18230142]
  14. 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]
  15. Day RC,Herridge RP,Ambrose BA,Macknight RC
    Transcriptome analysis of proliferating Arabidopsis endosperm reveals biological implications for the control of syncytial division, cytokinin signaling, and gene expression regulation.
    Plant Physiol., 2008. 148(4): p. 1964-84
    [PMID:18923020]
  16. Oh E, et al.
    Genome-wide analysis of genes targeted by PHYTOCHROME INTERACTING FACTOR 3-LIKE5 during seed germination in Arabidopsis.
    Plant Cell, 2009. 21(2): p. 403-19
    [PMID:19244139]
  17. Schlereth A, et al.
    MONOPTEROS controls embryonic root initiation by regulating a mobile transcription factor.
    Nature, 2010. 464(7290): p. 913-6
    [PMID:20220754]
  18. Cutcliffe JW,Hellmann E,Heyl A,Rashotte AM
    CRFs form protein-protein interactions with each other and with members of the cytokinin signalling pathway in Arabidopsis via the CRF domain.
    J. Exp. Bot., 2011. 62(14): p. 4995-5002
    [PMID:21705390]
  19. Ducarouge B, et al.
    CRF2 signaling is a novel regulator of cellular adhesion and migration in colorectal cancer cells.
    PLoS ONE, 2013. 8(11): p. e79335
    [PMID:24260200]
  20. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  21. Jin J, et al.
    An Arabidopsis Transcriptional Regulatory Map Reveals Distinct Functional and Evolutionary Features of Novel Transcription Factors.
    Mol. Biol. Evol., 2015. 32(7): p. 1767-73
    [PMID:25750178]
  22. Ckurshumova W,Berleth T
    Overcoming recalcitrance - Auxin response factor functions in plant regeneration.
    Plant Signal Behav, 2015. 10(7): p. e993293
    [PMID:26098229]
  23. Raines T, et al.
    The cytokinin response factors modulate root and shoot growth and promote leaf senescence in Arabidopsis.
    Plant J., 2016. 85(1): p. 134-47
    [PMID:26662515]
  24. Jeon J,Cho C,Lee MR,Van Binh N,Kim J
    CYTOKININ RESPONSE FACTOR2 (CRF2) and CRF3 Regulate Lateral Root Development in Response to Cold Stress in Arabidopsis.
    Plant Cell, 2016. 28(8): p. 1828-43
    [PMID:27432872]