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 Achn251751
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; Ericales; Actinidiaceae; Actinidia
Family RAV
Protein Properties Length: 361aa    MW: 39852.3 Da    PI: 10.0201
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Achn251751genomeIKGCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.11.1e-1361109155
         AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                 s++kGV   + +grW A+I++      ++r++lg+f  +eeAa+a++ a+++++g
  Achn251751  61 SRFKGVVPQP-KGRWGAQIYEK-----HQRVWLGTFNEEEEAARAYDVAAQRFRG 109
                 689***9888.7*********3.....5*************************98 PP

2B399.32.4e-31189288195
                 EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS.SEE..EE CS
          B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr.sefelvv 94 
                 f+k+ tpsdv+k++rlv+pk++ae+h    +g++ +++ l ++d  g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++ + ++++l++
  Achn251751 189 FEKTVTPSDVGKLNRLVIPKQHAERHfplqSGSTSKGVLLNFKDVVGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDVVSFHRSTTvHDKQLFI 287
                 99****************************888899***************************************************887767776666 PP

                 E CS
          B3  95 k 95 
                  
  Achn251751 288 D 288
                 5 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008473.2E-961109IPR001471AP2/ERF domain
SuperFamilySSF541713.47E-1761117IPR016177DNA-binding domain
CDDcd000181.36E-2561116No hitNo description
SMARTSM003804.7E-3162123IPR001471AP2/ERF domain
PROSITE profilePS5103220.29762117IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.2E-2062117IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.105.2E-39185293IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.01E-30188277IPR015300DNA-binding pseudobarrel domain
CDDcd100176.45E-28188277No hitNo description
SMARTSM010191.2E-22189284IPR003340B3 DNA binding domain
PfamPF023621.3E-28189289IPR003340B3 DNA binding domain
PROSITE profilePS5086313.733189293IPR003340B3 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: 361 aa     Download sequence    Send to blast
MESCCIDEST TSDLLSFSPA RTPPATVKSP PESLCRMGSG TSVVLDAEGG IEAESRKLPS  60
SRFKGVVPQP KGRWGAQIYE KHQRVWLGTF NEEEEAARAY DVAAQRFRGR DAVTNFKPLS  120
ENETGDEAEF AFLSAHSKAE IVDMLRKHTY GDELEQSRRS FGGKKQCKEK ISNPSGSDKT  180
IGKATQQLFE KTVTPSDVGK LNRLVIPKQH AERHFPLQSG STSKGVLLNF KDVVGKVWRF  240
RYSYWNSSQS YVLTKGWSRF VKEKNLKAGD VVSFHRSTTV HDKQLFIDWK VRGDGPGVAA  300
FPVQVQPVHM VRLFGVNIFK VPVSGGVVES SGGCGGNKRI REKEMLGFGC SKKQMVIGAL  360
*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A6e-5318529210117DNA-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
GenBankAK0650085e-33AK065008.1 Oryza sativa Japonica Group cDNA clone:J013001E21, full insert sequence.
GenBankAP0029135e-33AP002913.1 Oryza sativa Japonica Group genomic DNA, chromosome 1, PAC clone:P0480E02.
GenBankAP0149575e-33AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.
GenBankCT8288865e-33CT828886.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCEA058B11, full insert sequence.
GenBankCU4062715e-33CU406271.1 Oryza rufipogon (W1943) cDNA clone: ORW1943C113A09, full insert sequence.
GenBankCU4064515e-33CU406451.1 Oryza rufipogon (W1943) cDNA clone: ORW1943C110I16, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_028117439.10.0AP2/ERF and B3 domain-containing transcription factor RAV1-like
SwissprotQ9C6M51e-145RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A2R6PH460.0A0A2R6PH46_ACTCH; AP2/ERF and B3 domain-containing transcription repressor like
STRINGVIT_01s0011g03070.t011e-178(Vitis vinifera)
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-145RAV 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]