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 Phvul.003G111800.1
Common NamePHAVU_003G111800g
Organism
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; Phaseolus
Family RAV
Protein Properties Length: 388aa    MW: 42253.5 Da    PI: 9.1283
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Phvul.003G111800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.77.1e-1472120155
                 AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                         s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  Phvul.003G111800.1  72 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDIAAQRFRG 120
                         89****9888.8*********3.....5**********99*************98 PP

2B398.93.1e-31204308196
                         EEEE-..-HHHHTT-EE--HHH.HTT.........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh.........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                         f+k+ tpsdv+k++rlv+pk++ae+h         +   ++++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F
  Phvul.003G111800.1 204 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqsvngvSATAAKGVLLNFEDVGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDTVCF 294
                         89***************************9998886666799************************************************* PP

                         EE-SSSEE..EEEE CS
                  B3  83 kldgrsefelvvkv 96 
                         +++   +++l++ +
  Phvul.003G111800.1 295 HRSTGPDKQLYIDW 308
                         *8766777777766 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541713.33E-1772128IPR016177DNA-binding domain
CDDcd000182.07E-2672130No hitNo description
PfamPF008478.9E-972120IPR001471AP2/ERF domain
PROSITE profilePS5103220.15273128IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.4E-2073128IPR001471AP2/ERF domain
SMARTSM003805.5E-2973134IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.108.3E-40199313IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019365.89E-30202307IPR015300DNA-binding pseudobarrel domain
CDDcd100171.05E-28203297No hitNo description
SMARTSM010194.4E-25204312IPR003340B3 DNA binding domain
PfamPF023623.0E-28204309IPR003340B3 DNA binding domain
PROSITE profilePS5086313.521204312IPR003340B3 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 388 aa     Download sequence    Send to blast
MDCMDESTTT ESLSISLSPT ISSEDKLVPP SKNLSPPPPS NTLCRVGSGA SAIVDPDGAG  60
NTEAESRKLP SSKYKGVVPQ PNGRWGAQIY EKHQRVWLGT FNEEDEAARA YDIAAQRFRG  120
KDAVTNFKPV SGGDGDDDDG EAEFLNSHSK SEIVDMLRKH TYNDELEQSK RSRGVVRRRG  180
GAAGAGTGNS ISGACFVKAR EQLFEKAVTP SDVGKLNRLV IPKQHAEKHF PLQSVNGVSA  240
TAAKGVLLNF EDVGGKVWRF RYSYWNSSQS YVLTKGWSRF VKEKNLKAGD TVCFHRSTGP  300
DKQLYIDWKA RNNSVNEVGL FGPVGPVVEP IQMVRLFGVN ILKLPGSEAN NNNNASATIP  360
GFCNGKRREM ELFSLECSKK PKIIGAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A5e-5820131411120DNA-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
PlantRegMapPhvul.003G111800.1
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_007154354.10.0hypothetical protein PHAVU_003G111800g
SwissprotQ9C6M51e-144RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLV7CAG40.0V7CAG4_PHAVU; Uncharacterized protein
STRINGXP_007154354.10.0(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
AT1G25560.11e-132RAV 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]