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 Rsa1.0_04734.1_g00001.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family RAV
Protein Properties Length: 377aa    MW: 41226.3 Da    PI: 10.1683
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_04734.1_g00001.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP239.81.1e-1268116155
                      AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                              s++kGV   + +grW A+I++      ++r++lg+f  +eeAa+ ++ a+++++g
  Rsa1.0_04734.1_g00001.1  68 SKFKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEEEAAASYDIAARRFRG 116
                              79****9888.8*********3.....5*************************98 PP
2B3102.91.7e-32201312197
                              EEEE-..-HHHHTT-EE--HHH.HTT...............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHH CS
                       B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvka 71 
                              f+k+ tpsdv+k++rlv+pk++ae+h               + ++++++ + led++g++W+++++y+++s++yvltkGW++Fvk+
  Rsa1.0_04734.1_g00001.1 201 FEKAVTPSDVGKLNRLVIPKQHAEKHfplpamttatavtamSPSPTKGVLINLEDRTGKVWRFRYSYWNSSQSYVLTKGWSRFVKE 286
                              89******************************999999998667789*************************************** PP

                              HT--TT-EEEEEE-SSSEE..EEEEE CS
                       B3  72 ngLkegDfvvFkldgrsefelvvkvf 97 
                              ++L++gD+v F+++   +++l++ ++
  Rsa1.0_04734.1_g00001.1 287 KNLRAGDVVCFERSTGPDRQLYIDWR 312
                              ************88778888888886 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000182.26E-2468123No hitNo description
PfamPF008478.6E-768116IPR001471AP2/ERF domain
SuperFamilySSF541713.4E-1668124IPR016177DNA-binding domain
PROSITE profilePS5103219.45469124IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.101.5E-1969124IPR001471AP2/ERF domain
SMARTSM003803.9E-2769130IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.107.1E-40195314IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.45E-31199303IPR015300DNA-binding pseudobarrel domain
CDDcd100171.16E-29200300No hitNo description
SMARTSM010191.5E-25201315IPR003340B3 DNA binding domain
PROSITE profilePS5086313.944201315IPR003340B3 DNA binding domain
PfamPF023623.3E-29201312IPR003340B3 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: 377 aa     Download sequence    Send to blast
MDNSCIDDST SNNTSGSLSI STPSAKKKLS PPPPQATMRL YRMGSGGSSV VLDSENGVET  60
ESRKLPSSKF KGVVPQPNGR WGAQIYEKHQ RVWLGTFNEE EEAAASYDIA ARRFRGRDAV  120
TNFKSPPATT ALDGAADAES AFLEAHSKAE IVDMLRKHTY ADELQQSKRK FLDGNGNGKS  180
GTAMSNSRGN DGVSRAREVL FEKAVTPSDV GKLNRLVIPK QHAEKHFPLP AMTTATAVTA  240
MSPSPTKGVL INLEDRTGKV WRFRYSYWNS SQSYVLTKGW SRFVKEKNLR AGDVVCFERS  300
TGPDRQLYID WRVQSGTEGI TPVRSVVRLF GVNISNAATN AKSNDVAAEY GGGKKRSREV  360
DLFASGCSKK QTMINAL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5719831811121DNA-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
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_04734.1_g00001.1
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018458192.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription repressor TEM1
SwissprotQ9C6M50.0RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A0D3CD610.0A0A0D3CD61_BRAOL; Uncharacterized protein
STRINGBo5g043120.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM84827121
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.10.0RAV 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]