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 Potri.008G117100.1
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family RAV
Protein Properties Length: 408aa    MW: 45738.6 Da    PI: 9.5073
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.008G117100.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.39.1e-14107155155
                 AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                         s+ykGV   + +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  Potri.008G117100.1 107 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDTAAQRFRG 155
                         89****9888.8*********3.....5**********99*************98 PP
2B3100.11.3e-31243344196
                         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 led sg++W+++++y+++s++yvltkGW++Fvk++ Lk+gD+v F+++
  Potri.008G117100.1 243 FEKAVTPSDVGKLNRLVIPKQHAEKHfplqstSSCSTKGVLLNLEDMSGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKSLKAGDIVCFQRS 333
                         89*************************9988855566999*************************************************88 PP

                         SSSEE..EEEE CS
                  B3  86 grsefelvvkv 96 
                            +++l++ +
  Potri.008G117100.1 334 TGPDKQLYIDW 344
                         66777777776 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF008476.9E-9107155IPR001471AP2/ERF domain
SuperFamilySSF541712.48E-17107163IPR016177DNA-binding domain
CDDcd000183.98E-26107165No hitNo description
Gene3DG3DSA:3.30.730.108.2E-21108164IPR001471AP2/ERF domain
SMARTSM003801.5E-29108169IPR001471AP2/ERF domain
PROSITE profilePS5103220.271108163IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.106.2E-41238351IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.93E-31241346IPR015300DNA-binding pseudobarrel domain
CDDcd100171.55E-29242333No hitNo description
PfamPF023629.0E-29243344IPR003340B3 DNA binding domain
SMARTSM010192.8E-24243348IPR003340B3 DNA binding domain
PROSITE profilePS5086314.339243348IPR003340B3 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: 408 aa     Download sequence    Send to blast
MWAFRRPSSS QQKHLIPLCL CLSCSSLFTT TTTTKRKEMD GSCVDESTTS STDNSISITP  60
TSLTPSPPPA TTTKSPPESL CRVGSGNSVI LDLELGVEAE SRKLPSSKYK GVVPQPNGRW  120
GAQIYEKHQR VWLGTFNEED EAARAYDTAA QRFRGRDAVT NFKQVNETED DEIEAAFLIT  180
HSKAEIVDML RKHTYSDELE QSKRNQRSNN GVNGKQYKNT ANYGSNSYDH GCGRVLKARE  240
QLFEKAVTPS DVGKLNRLVI PKQHAEKHFP LQSTSSCSTK GVLLNLEDMS GKVWRFRYSY  300
WNSSQSYVLT KGWSRFVKEK SLKAGDIVCF QRSTGPDKQL YIDWKARSGS NQVQPVQPIQ  360
MVRLFGVNIF NVPGMENGCN GKRSVREMEL LSLDHQYSKK QRIIGAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5924035111121DNA-binding protein RAV1
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Pth.121560.0bud
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in leaves. {ECO:0000269|PubMed:18718758}.
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
PlantRegMapPotri.008G117100.1
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
GenBankAC2164681e-89AC216468.1 Populus trichocarpa clone POP034-E14, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002311438.20.0AP2/ERF and B3 domain-containing transcription repressor RAV2
SwissprotQ9C6M51e-153RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A2K1ZFR10.0A0A2K1ZFR1_POPTR; Uncharacterized protein
STRINGPOPTR_0008s11600.10.0(Populus trichocarpa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF29203274
Representative plantOGRP36516108
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25560.11e-149RAV 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]