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 XP_009789826.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana
Family RAV
Protein Properties Length: 362aa    MW: 41165.1 Da    PI: 8.9337
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009789826.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP241.33.9e-1359107155
             AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                     s++kGV   + +grW A+I++      ++r++lg+f  ++eAaka++ a+++++g
  XP_009789826.1  59 SRFKGVVPQP-NGRWGAQIYEK-----HQRIWLGTFNDEDEAAKAYDIAAQRFRG 107
                     689***9788.8*********3.....5**********99*************98 PP

2B399.71.7e-31189284194
                     EEEE-..-HHHHTT-EE--HHH.HTT...---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE.. CS
              B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefel 92 
                     f+k+ tpsdv+k++rlv+pk++ae++   + ++ +++ l led +g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F +++  +++l
  XP_009789826.1 189 FEKAVTPSDVGKLNRLVIPKQHAERYfplE-NNSKGMLLNLEDMNGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVCFGRSNGVDKKL 282
                     89*************************964.45689*************************************************9876666666 PP

                     EE CS
              B3  93 vv 94 
                     ++
  XP_009789826.1 283 YI 284
                     65 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008474.4E-759107IPR001471AP2/ERF domain
CDDcd000181.82E-2459114No hitNo description
SuperFamilySSF541711.24E-1659115IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.106.6E-1960115IPR001471AP2/ERF domain
PROSITE profilePS5103219.5260115IPR001471AP2/ERF domain
SMARTSM003801.5E-2660121IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.2E-40182289IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.02E-31187284IPR015300DNA-binding pseudobarrel domain
CDDcd100171.53E-28188272No hitNo description
PfamPF023626.3E-29189286IPR003340B3 DNA binding domain
SMARTSM010192.7E-22189290IPR003340B3 DNA binding domain
PROSITE profilePS5086314.847189290IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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
MDGSCCIEQE STTSDSLSFA QALISTRLSR MGSGTSCVII DAELNCTIEA ESNKKLASSR  60
FKGVVPQPNG RWGAQIYEKH QRIWLGTFND EDEAAKAYDI AAQRFRGKDA VTNFKPLCDS  120
DKVEIEISFL NARSKAEIVD MLRKHTYNDE LEHSKKVYSF DKNDKRGCEN ALVNSFDVEN  180
MSKARELMFE KAVTPSDVGK LNRLVIPKQH AERYFPLENN SKGMLLNLED MNGKVWRFRY  240
SYWNSSQSYV LTKGWSRFVK EKNLKAGDIV CFGRSNGVDK KLYIDLKARI SSTITPILDK  300
IQVQVQPVKM VRLFGVNICK VQDVNNIVVE NNMSSCSGGK RTREMELLAF ECRKKQRVID  360
VL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A5e-5518629411122DNA-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}.
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_009789826.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription repressor RAV2-like
SwissprotQ9C6M51e-135RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A1U7XJN30.0A0A1U7XJN3_NICSY; AP2/ERF and B3 domain-containing transcription repressor RAV2-like
STRINGXP_009789826.10.0(Nicotiana sylvestris)
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-138RAV 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]