PlantTFDB
Plant Transcription Factor Database
v4.0
Previous version: v1.0, v2.0, v3.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT4G11140.1
Common NameCRF1, ERF063, F2P3.5, T22B4.120
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: 287aa    MW: 31545.3 Da    PI: 4.6423
Description cytokinin response factor 1
Gene Model
Gene Model ID Type Source Coding Sequence
AT4G11140.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP264.12.9e-2086135255
          AP2   2 gykGVrwdkkrgrWvAeIrdpsengkr.krfslgkfgtaeeAakaaiaarkkleg 55 
                  +++GVr+++ +g+W+AeIrdps    r  r++lg+f+taeeAa  +++a+ +l+g
  AT4G11140.1  86 KFRGVRQRP-WGKWAAEIRDPS----RrVRVWLGTFDTAEEAAIVYDNAAIQLRG 135
                  89*******.**********84....34*************************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.730.102.0E-3185143IPR001471AP2/ERF domain
PROSITE profilePS5103223.81586143IPR001471AP2/ERF domain
PfamPF008471.0E-1286135IPR001471AP2/ERF domain
SuperFamilySSF541716.54E-2286143IPR016177DNA-binding domain
SMARTSM003804.2E-4086149IPR001471AP2/ERF domain
CDDcd000181.34E-3386143No hitNo description
PRINTSPR003671.1E-108798IPR001471AP2/ERF domain
PRINTSPR003671.1E-10109125IPR001471AP2/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:0048825Biological Processcotyledon development
GO:0005634Cellular Componentnucleus
GO:0005737Cellular Componentcytoplasm
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0005515Molecular Functionprotein binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000037anatomyshoot apex
PO:0000084anatomyplant sperm cell
PO:0009005anatomyroot
PO:0009006anatomyshoot system
PO:0009009anatomyplant embryo
PO:0009010anatomyseed
PO:0009025anatomyvascular leaf
PO:0009029anatomystamen
PO:0009030anatomycarpel
PO:0009032anatomypetal
PO:0009046anatomyflower
PO:0020038anatomypetiole
PO:0025022anatomycollective leaf structure
PO:0001078developmental stageplant embryo cotyledonary stage
PO:0001081developmental stagemature plant embryo 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: 287 aa     Download sequence    Send to blast
METEKKVSLP RILRISVTDP YATDSSSDEE EEVDFDALST KRRRVKKYVK EVVLDSVVSD  60
KEKPMKKKRK KRVVTVPVVV TTATRKFRGV RQRPWGKWAA EIRDPSRRVR VWLGTFDTAE  120
EAAIVYDNAA IQLRGPNAEL NFPPPPVTEN VEEASTEVKG VSDFIIGGGE CLRSPVSVLE  180
SPFSGESTAV KEEFVGVSTA EIVVKKEPSF NGSDFSAPLF SDDDVFGFST SMSESFGGDL  240
FGDNLFADMS FGSGFGFGSG SGFSSWHVED HFQDIGDLFG SDPVLTV
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gcc_A3e-2285143160ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
14044KRRRV
26471MKKKRKKR
36571KKKRKKR
46670KKRKK
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO1453400950.0
Genevisible254934_at0.0
Expression AtlasAT4G11140-
AtGenExpressAT4G11140-
ATTED-IIAT4G11140-
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. Also named as CRF1 (cytokinin response factor 1).
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT4G11140.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
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
BioGRIDAT4G11140, AT4G23750, AT4G27950, AT5G11260, AT5G53290, AT1G22985, AT1G71130
IntActSearch O82503
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT4G11140
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankF2P30.0AF080120.1 Arabidopsis thaliana BAC F2P3.
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBankBT0251760.0BT025176.1 Arabidopsis thaliana At4g11140 mRNA, complete cds.
GenBankAY5608490.0AY560849.1 Arabidopsis thaliana putative AP2/EREBP transcription factor (At4g11140) mRNA, complete cds.
GenBankAL1615310.0AL161531.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 31.
GenBankAL0498760.0AL049876.1 Arabidopsis thaliana DNA chromosome 4, BAC clone T22B4 (ESSA project).
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_192852.10.0ethylene-responsive transcription factor CRF1
SwissprotO825030.0CRF1_ARATH; Ethylene-responsive transcription factor CRF1
TrEMBLD7LYX21e-125D7LYX2_ARALL; Putative uncharacterized protein (Fragment)
STRINGAT4G11140.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP6161718
MalvidsOGEM10281650
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. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. Gong W, et al.
    The development of protein microarrays and their applications in DNA-protein and protein-protein interaction analyses of Arabidopsis transcription factors.
    Mol Plant, 2008. 1(1): p. 27-41
    [PMID:19802365]
  8. 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]
  9. 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]