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 Vradi11g12920.1
Organism
Vigna radiata
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna
Family B3
Protein Properties Length: 302aa    MW: 33077.8 Da    PI: 10.8397
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Vradi11g12920.1genomeSNUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B399.61.9e-31113217196
                      EEEE-..-HHHHTT-EE--HHH.HTT.........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE- CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkld 85 
                      f+k+ tpsdv+k++rlv+pk++ae+h         +   ++++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++
  Vradi11g12920.1 113 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqsvngvSATAAKGVLLNFEDVAGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDTVCFHRS 206
                      89***************************9998886666799**************************************************87 PP

                      SSSEE..EEEE CS
               B3  86 grsefelvvkv 96 
                         +++l++ +
  Vradi11g12920.1 207 TGPDKQLYIDW 217
                      66777777766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.104.8E-40108222IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.76E-30111216IPR015300DNA-binding pseudobarrel domain
CDDcd100172.06E-28112206No hitNo description
SMARTSM010194.3E-25113221IPR003340B3 DNA binding domain
PROSITE profilePS5086313.507113221IPR003340B3 DNA binding domain
PfamPF023621.6E-28113218IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048573Biological Processphotoperiodism, flowering
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 302 aa     Download sequence    Send to blast
MRRERLLLLS STNLSPPPPS TTLCRVGSAA SAILDPEGAA AGNTEAESRK LPSSKYKGVV  60
PQPNGRWGAQ IYEKHQRSKR SRGVVRRRGG AAAAGTGNSI SGACFVKARE QLFEKAVTPS  120
DVGKLNRLVI PKQHAEKHFP LQSVNGVSAT AAKGVLLNFE DVAGKVWRFR YSYWNSSQSY  180
VLTKGWSRFV KEKNLKAGDT VCFHRSTGPD KQLYIDWKAR NNNVNEVGLF GPVGPVVEPI  240
QMVRLFGVNI LKLPGSEPNG NNNASGTIPG FCNGKRREME LFSIWNSDFA RNMFFPLPIS  300
F*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A4e-5811022111118DNA-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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapVradi11g12920.1
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAP0150430.0AP015043.1 Vigna angularis var. angularis DNA, chromosome 10, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_014521390.11e-137AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9C6M54e-67RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A1S3VSV91e-136A0A1S3VSV9_VIGRR; AP2/ERF and B3 domain-containing transcription factor RAV1
STRINGXP_007154354.11e-126(Phaseolus vulgaris)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF29203274
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.18e-68RAV 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]