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 Cagra.1226s0039.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family ERF
Protein Properties Length: 349aa    MW: 38153.8 Da    PI: 8.3148
Description ERF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.1226s0039.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP259.86.5e-19119169155
                  AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                          ++++GVr+++ +g+W+AeIrdp +   r r +lg++ taeeAa  +++a+ +l+g
  Cagra.1226s0039.1.p 119 KKFRGVRQRP-WGKWAAEIRDPLK---RVRLWLGTYNTAEEAAMVYDNAAIQLRG 169
                          59********.**********754...5*************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000184.45E-32119176No hitNo description
SuperFamilySSF541719.15E-22120178IPR016177DNA-binding domain
PROSITE profilePS5103223.406120177IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.1E-29120177IPR001471AP2/ERF domain
SMARTSM003803.9E-37120183IPR001471AP2/ERF domain
PfamPF008476.9E-12120169IPR001471AP2/ERF domain
PRINTSPR003677.9E-10121132IPR001471AP2/ERF domain
PRINTSPR003677.9E-10143159IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0042991Biological Processtranscription factor import into nucleus
GO:0048364Biological Processroot development
GO:0048825Biological Processcotyledon development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0042802Molecular Functionidentical protein binding
Sequence ? help Back to Top
Protein Sequence    Length: 349 aa     Download sequence    Send to blast
MEAEKKMVVP RIKFTEHKTN TTRIVPDLTN THQTRVLRIS VTDPDATDSS SDDEDEARNR  60
FVSKRRRVKK FVNEVVLDSR AVSGSCSQIE SKKSRKRAVK SESTASQVVS ATTATTGEKK  120
FRGVRQRPWG KWAAEIRDPL KRVRLWLGTY NTAEEAAMVY DNAAIQLRGP DALTNFSVNP  180
TTTTKTEKKS PPPSPVKKKK KKNNKIKKSV TASSSVSGSS SNDCLCSPVS VLRSPFTVDD  240
FSGSSSPAAA AVVVKEEPSM TTVSEAFSDF SAPLFSDDDL FDFRSSVVPD YLGLGGGDLF  300
GEDIFTAEMC TDMNFGFDFG SSGLSSWHME DHFQDIGDLF GSDPLLAV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gcc_A4e-20119176159ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
16367KRRRV
2197207KKKKKNNKIKK
Functional Description ? help Back to Top
Source Description
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00027PBMTransfer from AT4G23750Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.1226s0039.1.p
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
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006284039.10.0ethylene-responsive transcription factor CRF2
SwissprotQ9SUQ20.0CRF2_ARATH; Ethylene-responsive transcription factor CRF2
TrEMBLR0F5920.0R0F592_9BRAS; Uncharacterized protein
STRINGCagra.1226s0039.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM10281650
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G23750.21e-112cytokinin response factor 2
Publications ? help Back to Top
  1. 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]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Ckurshumova W,Berleth T
    Overcoming recalcitrance - Auxin response factor functions in plant regeneration.
    Plant Signal Behav, 2015. 10(7): p. e993293
    [PMID:26098229]
  4. 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]
  5. 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]