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 Carubv10020567m
Common NameCARUB_v10020567mg
Organism
Capsella rubella
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: 351aa    MW: 37974.2 Da    PI: 6.5149
Description ERF family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10020567mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP2651.5e-20159208255
              AP2   2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                       y+GVr+++ +g+WvAeIr p++   r+r +lg+f+taeeAa a+++a+ kl+g
  Carubv10020567m 159 LYRGVRQRH-WGKWVAEIRLPRN---RTRLWLGTFDTAEEAALAYDKAAYKLRG 208
                      59******9.**********955...5*************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.26E-33158218No hitNo description
PROSITE profilePS5103223.169159216IPR001471AP2/ERF domain
SuperFamilySSF541712.88E-23159217IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.104.6E-32159217IPR001471AP2/ERF domain
SMARTSM003801.0E-37159222IPR001471AP2/ERF domain
PfamPF008472.4E-14160208IPR001471AP2/ERF domain
PRINTSPR003673.3E-11160171IPR001471AP2/ERF domain
PRINTSPR003673.3E-11182198IPR001471AP2/ERF domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009409Biological Processresponse to cold
GO:0009414Biological Processresponse to water deprivation
GO:0009611Biological Processresponse to wounding
GO:0009736Biological Processcytokinin-activated signaling pathway
GO:0009873Biological Processethylene-activated signaling pathway
GO:0010017Biological Processred or far-red light signaling pathway
GO:0045595Biological Processregulation of cell differentiation
GO:0071472Biological Processcellular response to salt stress
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 351 aa     Download sequence    Send to blast
MAAAMNMYSS STTFQESSDS FGGGGELMDA LVPFIRSVSD DAPSSAFLHP AASASAFSLP  60
PLPGYYPVNV DSSSTTFLTQ PFSYGSDLQQ TGSLIGLNNL SSSQIHQIQS QIHHPLPPTH  120
HSNTFSNLLS PKPLLMKQSG VAGSCFAYGS GVPPKPTKLY RGVRQRHWGK WVAEIRLPRN  180
RTRLWLGTFD TAEEAALAYD KAAYKLRGDF ARLNFPNLRH NGSHIGGDFG EYKPLHSSVD  240
AKLEAICKSM AETQKQDKQT KSSSSSKKRG SSVKPEKVVS SPDPSEEKVK AEENSVSIGG  300
SPTLEESTAG SSPLSDLTFA DPEEPSQWAE TTFSLEKYPS YEIDWDSILA *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gcc_A5e-21158216160ETHYLENE RESPONSIVE ELEMENT BINDING FACTOR 1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
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). {ECO:0000250}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00026PBMTransfer from AT1G78080Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10020567m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0092430.0AC009243.3 Genomic sequence for Arabidopsis thaliana BAC F28K19 from chromosome I, complete sequence.
GenBankAY1504680.0AY150468.1 Arabidopsis thaliana putative AP2 domain containing protein (At1g78080) mRNA, complete cds.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006302477.10.0ethylene-responsive transcription factor RAP2-4
SwissprotQ8H1E40.0RAP24_ARATH; Ethylene-responsive transcription factor RAP2-4
TrEMBLR0IB560.0R0IB56_9BRAS; Uncharacterized protein
STRINGXP_006302477.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM27162670
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G78080.11e-129related to AP2 4
Publications ? help Back to Top
  1. Pati A,Vasquez-Robinet C,Heath LS,Grene R,Murali TM
    XcisClique: analysis of regulatory bicliques.
    BMC Bioinformatics, 2006. 7: p. 218
    [PMID:16630346]
  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. Iwase A, et al.
    WIND1-based acquisition of regeneration competency in Arabidopsis and rapeseed.
    J. Plant Res., 2015. 128(3): p. 389-97
    [PMID:25810222]
  4. Ikeuchi M, et al.
    PRC2 represses dedifferentiation of mature somatic cells in Arabidopsis.
    Nat Plants, 2015. 1: p. 15089
    [PMID:27250255]
  5. Iwase A, et al.
    WIND1 Promotes Shoot Regeneration through Transcriptional Activation of ENHANCER OF SHOOT REGENERATION1 in Arabidopsis.
    Plant Cell, 2017. 29(1): p. 54-69
    [PMID:28011694]