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 Peaxi162Scf00380g00041.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Petunioideae; Petunia
Family RAV
Protein Properties Length: 369aa    MW: 41425.9 Da    PI: 9.5269
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Peaxi162Scf00380g00041.1genomeSGNView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP242.91.2e-1363111155
                       AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                               s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  Peaxi162Scf00380g00041.1  63 SRYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEENEAARAYDIAAQRFRG 111
                               78****9888.8*********3.....5*************************98 PP

2B3104.65.1e-33196293194
                               EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEE CS
                        B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvv 81 
                               f+k+ tpsdv+k++rlv+pk++ae+h    +g++ +++ l +ed++g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v 
  Peaxi162Scf00380g00041.1 196 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqNGNTSKGVLLNFEDLNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVS 280
                               89****************************99999************************************************** PP

                               EEE-SSSEE..EE CS
                        B3  82 Fkldgrsefelvv 94 
                               F+++   +++l++
  Peaxi162Scf00380g00041.1 281 FQRSTGGDKQLYI 293
                               **77556665665 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008471.0E-863111IPR001471AP2/ERF domain
SuperFamilySSF541714.84E-1763119IPR016177DNA-binding domain
CDDcd000187.21E-2663118No hitNo description
Gene3DG3DSA:3.30.730.103.4E-2064119IPR001471AP2/ERF domain
PROSITE profilePS5103220.16564119IPR001471AP2/ERF domain
SMARTSM003802.5E-3064125IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.107.4E-42190302IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.06E-31194293IPR015300DNA-binding pseudobarrel domain
CDDcd100172.12E-29195284No hitNo description
PfamPF023623.7E-30196295IPR003340B3 DNA binding domain
PROSITE profilePS5086315.199196299IPR003340B3 DNA binding domain
SMARTSM010195.2E-26196299IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048573Biological Processphotoperiodism, flowering
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 369 aa     Download sequence    Send to blast
MDGSSCIDAE STTSDSLSIT PASTSTLPVT KTPESLCRMG SGTSVLIDAE NGVEAESRKL  60
PSSRYKGVVP QPNGRWGAQI YEKHQRVWLG TFNEENEAAR AYDIAAQRFR GRDAVTNFKP  120
LLENEDNDDM EIAFLNSHSK AEIVDMLRKH TYGDELEQSK KHFGFTKDGK RACTKDGLMS  180
SLFTIDKVNK AREQLFEKAV TPSDVGKLNR LVIPKQHAEK HFPLQNGNTS KGVLLNFEDL  240
NGKVWRFRYS YWNSSQSYVL TKGWSRFVKE KNLKAGDIVS FQRSTGGDKQ LYIDFKARNV  300
TPTSVVTTTQ VQVPQVKMVR LFGVDICKVP AVSNVVDNNM TSCSGGKRKI EMELLAFEYR  360
KKQRVIDAL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A3e-5919329911118DNA-binding protein RAV1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor of flowering time on long day plants. Acts directly on FT expression by binding 5'-CAACA-3' and 5'-CACCTG-3 sequences. Functionally redundant with TEM2. {ECO:0000269|PubMed:18718758}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00024PBMTransfer from AT1G25560Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing a peak at dawn. {ECO:0000269|PubMed:18718758}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankEU8705180.0EU870518.1 Nicotiana tabacum RAV mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009613275.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1
RefseqXP_016512131.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1-like
SwissprotQ9C6M51e-147RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A1S4DFM00.0A0A1S4DFM0_TOBAC; AP2/ERF and B3 domain-containing transcription factor RAV1-like
STRINGXP_009613275.10.0(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA29582453
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-149RAV family protein
Publications ? help Back to Top
  1. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  2. Choi D, et al.
    iNID: an analytical framework for identifying network models for interplays among developmental signaling in Arabidopsis.
    Mol Plant, 2014. 7(5): p. 792-813
    [PMID:24380880]
  3. Sgamma T,Jackson A,Muleo R,Thomas B,Massiah A
    TEMPRANILLO is a regulator of juvenility in plants.
    Sci Rep, 2014. 4: p. 3704
    [PMID:24424565]
  4. Matías-Hernández L,Aguilar-Jaramillo AE,Marín-González E,Suárez-López P,Pelaz S
    RAV genes: regulation of floral induction and beyond.
    Ann. Bot., 2014. 114(7): p. 1459-70
    [PMID:24812253]
  5. Marín-González E, et al.
    SHORT VEGETATIVE PHASE Up-Regulates TEMPRANILLO2 Floral Repressor at Low Ambient Temperatures.
    Plant Physiol., 2015. 169(2): p. 1214-24
    [PMID:26243615]
  6. Matías-Hernández L, et al.
    TEMPRANILLO Reveals the Mesophyll as Crucial for Epidermal Trichome Formation.
    Plant Physiol., 2016. 170(3): p. 1624-39
    [PMID:26802039]