PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID AT1G50680.1
Common NameF17J6.20
Organism
Arabidopsis thaliana
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 RAV
Protein Properties Length: 337aa    MW: 38473.4 Da    PI: 7.0759
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
AT1G50680.1genomeTAIRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP233.97.7e-112773254
          AP2  2 gykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkle 54
                 +ykGV +   +g W A+I+       +kr++lg+f +a+eAa a++ a  kl+
  AT1G50680.1 27 KYKGVVQQQ-NGHWGAQIYAD-----HKRIWLGTFKSADEAATAYDSASIKLR 73
                 8****9888.8******9993.....4*********************99997 PP
2B388.36.4e-28157255184
                  EEEE-..-HHHHTT-EE--HHH.HTT...........---.........--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EE CS
           B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...........ggkke.......esktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfv 80 
                  f+k+ltpsdv+k++rlv+pkk+a ++           +   e       e+++++++d+  r+W+++++y+k+s+++v+t+GW++Fvk+++Lke+D++
  AT1G50680.1 157 FQKELTPSDVGKLNRLVIPKKYAVKYmpfisadqsekE---EgeivgsvEDVEVVFYDRAMRQWKFRYCYWKSSQSFVFTRGWNSFVKEKNLKEKDVI 251
                  99*****************************9975540...15566666999********************************************** PP

                  EEEE CS
           B3  81 vFkl 84 
                   F+ 
  AT1G50680.1 252 AFYT 255
                  **94 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5103217.6092784IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.8E-162784IPR001471AP2/ERF domain
SMARTSM003802.0E-162790IPR001471AP2/ERF domain
SuperFamilySSF541712.03E-142786IPR016177DNA-binding domain
CDDcd000182.92E-232786No hitNo description
PRINTSPR003678.5E-52839IPR001471AP2/ERF domain
PRINTSPR003678.5E-54864IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.105.3E-32152255IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.15E-26155256IPR015300DNA-binding pseudobarrel domain
CDDcd100171.80E-25156254No hitNo description
SMARTSM010193.5E-22157271IPR003340B3 DNA binding domain
PfamPF023622.3E-25157257IPR003340B3 DNA binding domain
PROSITE profilePS5086312.097157271IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009873Biological Processethylene-activated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 337 aa     Download sequence    Send to blast
MRLDDEPENA LVVSSSPKTV VASGNVKYKG VVQQQNGHWG AQIYADHKRI WLGTFKSADE  60
AATAYDSASI KLRSFDANSH RNFPWSTITL NEPDFQNCYT TETVLNMIRD GSYQHKFRDF  120
LRIRSQIVAS INIGGPKQAR GEVNQESDKC FSCTQLFQKE LTPSDVGKLN RLVIPKKYAV  180
KYMPFISADQ SEKEEGEIVG SVEDVEVVFY DRAMRQWKFR YCYWKSSQSF VFTRGWNSFV  240
KEKNLKEKDV IAFYTCDVPN NVKTLEGQRK NFLMIDVHCF SDNGSVVAEE VSMTVHDSSV  300
QVKKTENLVS SMLEDKETKS EENKGGFMLF GVRIECP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-2615625313100DNA-binding protein RAV1
Search in ModeBase
Expression -- Microarray ? help Back to Top
Source ID E-value
GEO184031800.0
Genevisible257581_s_at1e-128
Expression AtlasAT1G50680-
AtGenExpressAT1G50680-
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAT1G50680.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Phenotype -- Mutation ? help Back to Top
Source ID
T-DNA ExpressAT1G50680
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0792790.0AC079279.4 Arabidopsis thaliana chromosome 1 BAC F17J6 genomic sequence, complete sequence.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_175483.10.0AP2/B3 transcription factor family protein
SwissprotQ9C6P50.0RAVL2_ARATH; AP2/ERF and B3 domain-containing transcription factor At1g50680
TrEMBLA0A178WA960.0A0A178WA96_ARATH; Uncharacterized protein
STRINGAT1G50680.10.0(Arabidopsis thaliana)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17052788
Representative plantOGRP10227710
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. Hu YX,Wang YX,Liu XF,Li JY
    Arabidopsis RAV1 is down-regulated by brassinosteroid and may act as a negative regulator during plant development.
    Cell Res., 2004. 14(1): p. 8-15
    [PMID:15040885]
  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. Zhuang J, et al.
    Genome-wide analysis of the AP2/ERF gene family in Populus trichocarpa.
    Biochem. Biophys. Res. Commun., 2008. 371(3): p. 468-74
    [PMID:18442469]
  5. Swaminathan K,Peterson K,Jack T
    The plant B3 superfamily.
    Trends Plant Sci., 2008. 13(12): p. 647-55
    [PMID:18986826]
  6. 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]
  7. 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]