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.007G102800.1
Common NamePHAVU_007G102800g
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: 362aa    MW: 39472.3 Da    PI: 9.0956
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Phvul.007G102800.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.86.3e-1453101155
                 AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                         s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  Phvul.007G102800.1  53 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDIAAQRFRG 101
                         89****9888.8*********3.....5**********99*************98 PP

2B3924.5e-29174271183
                         EEEE-..-HHHHTT-EE--HHH.HTT...............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--T CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLke 76 
                         f+k+ tpsdv+k++rlv+pk++ae+h                   ++++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+n+L++
  Phvul.007G102800.1 174 FEKTVTPSDVGKLNRLVIPKQHAEKHfplstgsgsgvslctAAAAAKGVLLNFEDVGGKVWRFRYSYWNSSQSYVLTKGWSRFVKENNLRA 264
                         99***************************9999988888885566799******************************************* PP

                         T-EEEEE CS
                  B3  77 gDfvvFk 83 
                         gD v F 
  Phvul.007G102800.1 265 GDAVRFF 271
                         ****986 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF541712.42E-1753109IPR016177DNA-binding domain
PfamPF008476.9E-953101IPR001471AP2/ERF domain
CDDcd000189.36E-2653108No hitNo description
PROSITE profilePS5103220.3554109IPR001471AP2/ERF domain
SMARTSM003805.1E-2954115IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.1E-2054109IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.104.0E-39167289IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019363.27E-29172284IPR015300DNA-binding pseudobarrel domain
CDDcd100174.78E-28173282No hitNo description
SMARTSM010194.0E-22174287IPR003340B3 DNA binding domain
PROSITE profilePS5086313.437174288IPR003340B3 DNA binding domain
PfamPF023622.6E-26174271IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 362 aa     Download sequence    Send to blast
MDAGSSTDET TTTSDSLSLP PNQSPPPLIR VGSGGVDPDA VSGEAESRKL PSSKYKGVVP  60
QPNGRWGAQI YEKHQRVWLG TFNEEDEAAR AYDIAAQRFR GRDAVTNFKP LAGAGDDAES  120
EFLNSHSKSE IVDMLRKHTY DDELQQSTRC GRRRRAAEAA SSGAFDPQAR EQLFEKTVTP  180
SDVGKLNRLV IPKQHAEKHF PLSTGSGSGV SLCTAAAAAK GVLLNFEDVG GKVWRFRYSY  240
WNSSQSYVLT KGWSRFVKEN NLRAGDAVRF FKSTGPDRQL YIDCKARSSG GICELNNNNA  300
GGLFVPVGPV VEQVQMVRLF GVNLLKLPGS DGVRVGYEGK RKEMELFAFE CSKKLKVIGA  360
L*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A3e-5317128811118DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1339355KRKEMELFAFECSKKLK
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
PlantRegMapPhvul.007G102800.1
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
GenBankAP0150410.0AP015041.1 Vigna angularis var. angularis DNA, chromosome 8, almost complete sequence, cultivar: Shumari.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007143801.10.0hypothetical protein PHAVU_007G102800g
SwissprotQ9C6M51e-131RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLV7BDZ90.0V7BDZ9_PHAVU; Uncharacterized protein
STRINGXP_007143801.10.0(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-126RAV 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]