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 AT5G51990.1
Common NameCBF4, DREB1D, ERF028, MSG15.7
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: 224aa    MW: 24955.9 Da    PI: 5.4406
Description C-repeat-binding factor 4
Gene Model
Gene Model ID Type Source Coding Sequence
AT5G51990.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP257.53.4e-1853102255
          AP2   2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                   y+GVr++  +g+Wv+e+r+p   +k+ r++lg+f t e+Aa+a++ a+++l+g
  AT5G51990.1  53 IYRGVRQRN-SGKWVCEVREP---NKKSRIWLGTFPTVEMAARAHDVAALALRG 102
                  69****999.7******9998...347*************************98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000183.62E-3152112No hitNo description
PfamPF008473.2E-1452102IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.105.7E-3253112IPR001471AP2/ERF domain
SuperFamilySSF541712.55E-2153112IPR016177DNA-binding domain
PROSITE profilePS5103222.24753110IPR001471AP2/ERF domain
SMARTSM003806.8E-3153116IPR001471AP2/ERF domain
PRINTSPR003678.4E-95465IPR001471AP2/ERF domain
PRINTSPR003678.4E-97692IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009738Biological Processabscisic acid-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:0000293anatomyguard cell
PO:0009005anatomyroot
PO:0009030anatomycarpel
PO:0009047anatomystem
PO:0009052anatomyflower pedicel
PO:0007611developmental stagepetal differentiation and expansion stage
PO:0007616developmental stageflowering stage
Sequence ? help Back to Top
Protein Sequence    Length: 224 aa     Download sequence    Send to blast
MNPFYSTFPD SFLSISDHRS PVSDSSECSP KLASSCPKKR AGRKKFRETR HPIYRGVRQR  60
NSGKWVCEVR EPNKKSRIWL GTFPTVEMAA RAHDVAALAL RGRSACLNFA DSAWRLRIPE  120
TTCPKEIQKA ASEAAMAFQN ETTTEGSKTA AEAEEAAGEG VREGERRAEE QNGGVFYMDD  180
EALLGMPNFF ENMAEGMLLP PPEVGWNHND FDGVGDVSLW SFDE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5wx9_A6e-14511091271Ethylene-responsive transcription factor ERF096
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
Genevisible248389_at0.0
Expression AtlasAT5G51990-
AtGenExpressAT5G51990-
ATTED-IIAT5G51990-
Functional Description ? help Back to Top
Source Description
TAIRencodes a member of the DREB subfamily A-1 of ERF/AP2 transcription factor family (CBF4). The protein contains one AP2 domain. There are six members in this subfamily, including CBF1, CBF2, and CBF3. This gene is involved in response to drought stress and abscisic acid treatment, but not to low temperature.
UniProtTranscriptional activator that binds specifically to the DNA sequence 5'-[AG]CCGAC-3'. Binding to the C-repeat/DRE element mediates abscisic acid- and dehydration-inducible transcription. CBF/DREB1 factors play a key role in freezing tolerance and cold acclimation. {ECO:0000269|PubMed:11798174, ECO:0000269|PubMed:12376631}.
Function -- GeneRIF ? help Back to Top
  1. Vascular plant one-zinc-finger proteins (VOZs) negatively affect CBF4 expression in an activating abscisic acid-mediated (ABA)-independent manner.
    [PMID: 23167462]
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00557DAP27203113Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT5G51990.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By high-salt stress, drought stress and abscisic acid (ABA) treatment. {ECO:0000269|PubMed:11798174, ECO:0000269|PubMed:12376631}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Regulation -- ATRM (Manually Curated Target Genes) ? help Back to Top
Source Target Gene (A: Activate/R: Repress)
ATRM AT2G42540(A), AT5G52310(A)
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT5G51990
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEF5231690.0EF523169.1 Arabidopsis thaliana ecotype Oy-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231700.0EF523170.1 Arabidopsis thaliana ecotype Yo-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231710.0EF523171.1 Arabidopsis thaliana ecotype Ag-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231720.0EF523172.1 Arabidopsis thaliana ecotype Ak-1 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231740.0EF523174.1 Arabidopsis thaliana ecotype Bs-1 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231750.0EF523175.1 Arabidopsis thaliana ecotype Gre-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231760.0EF523176.1 Arabidopsis thaliana ecotype Co-1 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231770.0EF523177.1 Arabidopsis thaliana ecotype Can-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231780.0EF523178.1 Arabidopsis thaliana ecotype Cvi-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231790.0EF523179.1 Arabidopsis thaliana ecotype Kin-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231800.0EF523180.1 Arabidopsis thaliana ecotype Lip-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231810.0EF523181.1 Arabidopsis thaliana ecotype Pog-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231820.0EF523182.1 Arabidopsis thaliana ecotype Van-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231830.0EF523183.1 Arabidopsis thaliana ecotype Bla-1 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231850.0EF523185.1 Arabidopsis thaliana ecotype Hau-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231860.0EF523186.1 Arabidopsis thaliana ecotype Mv-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231880.0EF523188.1 Arabidopsis thaliana ecotype Bur-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231890.0EF523189.1 Arabidopsis thaliana ecotype Per-3 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231910.0EF523191.1 Arabidopsis thaliana ecotype Sapporo-0 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
GenBankEF5231920.0EF523192.1 Arabidopsis thaliana ecotype Tscha-1 C-repeat binding factor 4 (CBF4) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_200012.11e-167C-repeat-binding factor 4
SwissprotQ9FJ931e-168DRE1D_ARATH; Dehydration-responsive element-binding protein 1D
TrEMBLB2BJ261e-166B2BJ26_ARATH; C-repeat binding factor 4
STRINGAT5G51990.11e-167(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM35528187
Representative plantOGRP6161718
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. Sakuma Y, et al.
    DNA-binding specificity of the ERF/AP2 domain of Arabidopsis DREBs, transcription factors involved in dehydration- and cold-inducible gene expression.
    Biochem. Biophys. Res. Commun., 2002. 290(3): p. 998-1009
    [PMID:11798174]
  3. Hanano S, et al.
    Analysis of gene expression in Arabidopsis thaliana by array hybridization with genomic DNA fragments aligned along chromosomal regions.
    Plant J., 2002. 30(2): p. 247-55
    [PMID:12000460]
  4. Haake V, et al.
    Transcription factor CBF4 is a regulator of drought adaptation in Arabidopsis.
    Plant Physiol., 2002. 130(2): p. 639-48
    [PMID:12376631]
  5. Vandepoele K,Simillion C,Van de Peer Y
    Detecting the undetectable: uncovering duplicated segments in Arabidopsis by comparison with rice.
    Trends Genet., 2002. 18(12): p. 606-8
    [PMID:12446138]
  6. Dal Bosco C, et al.
    Inactivation of the chloroplast ATP synthase gamma subunit results in high non-photochemical fluorescence quenching and altered nuclear gene expression in Arabidopsis thaliana.
    J. Biol. Chem., 2004. 279(2): p. 1060-9
    [PMID:14576160]
  7. Navarro L, et al.
    The transcriptional innate immune response to flg22. Interplay and overlap with Avr gene-dependent defense responses and bacterial pathogenesis.
    Plant Physiol., 2004. 135(2): p. 1113-28
    [PMID:15181213]
  8. Lee BH,Henderson DA,Zhu JK
    The Arabidopsis cold-responsive transcriptome and its regulation by ICE1.
    Plant Cell, 2005. 17(11): p. 3155-75
    [PMID:16214899]
  9. Suzuki N, et al.
    Enhanced tolerance to environmental stress in transgenic plants expressing the transcriptional coactivator multiprotein bridging factor 1c.
    Plant Physiol., 2005. 139(3): p. 1313-22
    [PMID:16244138]
  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. Xiong Y,Fei SZ
    Functional and phylogenetic analysis of a DREB/CBF-like gene in perennial ryegrass (Lolium perenne L.).
    Planta, 2006. 224(4): p. 878-88
    [PMID:16614820]
  12. Underwood BA,Vanderhaeghen R,Whitford R,Town CD,Hilson P
    Simultaneous high-throughput recombinational cloning of open reading frames in closed and open configurations.
    Plant Biotechnol. J., 2006. 4(3): p. 317-24
    [PMID:17147637]
  13. Zhou N,Robinson SJ,Huebert T,Bate NJ,Parkin IA
    Comparative genome organization reveals a single copy of CBF in the freezing tolerant crucifer Thlaspi arvense.
    Plant Mol. Biol., 2007. 65(5): p. 693-705
    [PMID:17899397]
  14. Jung C, et al.
    Overexpression of AtMYB44 enhances stomatal closure to confer abiotic stress tolerance in transgenic Arabidopsis.
    Plant Physiol., 2008. 146(2): p. 623-35
    [PMID:18162593]
  15. Welling A,Palva ET
    Involvement of CBF transcription factors in winter hardiness in birch.
    Plant Physiol., 2008. 147(3): p. 1199-211
    [PMID:18467468]
  16. Lin YH, et al.
    Molecular population genetics and gene expression analysis of duplicated CBF genes of Arabidopsis thaliana.
    BMC Plant Biol., 2008. 8: p. 111
    [PMID:18990244]
  17. Wang Y,Hua J
    A moderate decrease in temperature induces COR15a expression through the CBF signaling cascade and enhances freezing tolerance.
    Plant J., 2009. 60(2): p. 340-9
    [PMID:19563440]
  18. Abdeen A,Schnell J,Miki B
    Transcriptome analysis reveals absence of unintended effects in drought-tolerant transgenic plants overexpressing the transcription factor ABF3.
    BMC Genomics, 2010. 11: p. 69
    [PMID:20105335]
  19. Causier B,Ashworth M,Guo W,Davies B
    The TOPLESS interactome: a framework for gene repression in Arabidopsis.
    Plant Physiol., 2012. 158(1): p. 423-38
    [PMID:22065421]
  20. Nakai Y, et al.
    Vascular plant one-zinc-finger protein 1/2 transcription factors regulate abiotic and biotic stress responses in Arabidopsis.
    Plant J., 2013. 73(5): p. 761-75
    [PMID:23167462]
  21. Efroni I, et al.
    Regulation of leaf maturation by chromatin-mediated modulation of cytokinin responses.
    Dev. Cell, 2013. 24(4): p. 438-45
    [PMID:23449474]
  22. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  23. Guttikonda SK, et al.
    Overexpression of AtDREB1D transcription factor improves drought tolerance in soybean.
    Mol. Biol. Rep., 2014. 41(12): p. 7995-8008
    [PMID:25192890]
  24. 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]
  25. Zhang T, et al.
    Overexpression of a NF-YB3 transcription factor from Picea wilsonii confers tolerance to salinity and drought stress in transformed Arabidopsis thaliana.
    Plant Physiol. Biochem., 2015. 94: p. 153-64
    [PMID:26093308]
  26. Carlow CE, et al.
    Nuclear localization and transactivation by Vitis CBF transcription factors are regulated by combinations of conserved amino acid domains.
    Plant Physiol. Biochem., 2017. 118: p. 306-319
    [PMID:28675818]
  27. Li B, et al.
    Network-Guided Discovery of Extensive Epistasis between Transcription Factors Involved in Aliphatic Glucosinolate Biosynthesis.
    Plant Cell, 2018. 30(1): p. 178-195
    [PMID:29317470]