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 WALNUT_00015962-RA
Organism
Juglans regia
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fagales; Juglandaceae; Juglans
Family RAV
Protein Properties Length: 370aa    MW: 40738.9 Da    PI: 9.4715
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
WALNUT_00015962-RAgenomeJHUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP243.95.8e-1464112155
                 AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                         s+ykGV   + +grW A+I++      ++r++lg+f  ++eAaka++ a+++++g
  WALNUT_00015962-RA  64 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNEEDEAAKAYDIAAQRFRG 112
                         89****9888.8*********3.....5**********99*************98 PP
2B3102.42.5e-32199299197
                         EEEE-..-HHHHTT-EE--HHH.HTT....---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SS CS
                  B3   1 ffkvltpsdvlksgrlvlpkkfaeeh....ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgr 87 
                         f+k  tpsdv+k++rlv+pk++ae+h     g++ +++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F+++  
  WALNUT_00015962-RA 199 FEKSVTPSDVGKLNRLVIPKQHAEKHfplqTGSTSKGVLLNFEDIGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDIVCFQRSTG 289
                         89***************************97778899**************************************************8877 PP

                         SEE..EEEEE CS
                  B3  88 sefelvvkvf 97 
                          +++l++ + 
  WALNUT_00015962-RA 290 PDKQLHIDWK 299
                         8888888875 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000181.04E-2564119No hitNo description
PfamPF008478.9E-964112IPR001471AP2/ERF domain
SuperFamilySSF541716.54E-1764120IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.106.4E-2065120IPR001471AP2/ERF domain
PROSITE profilePS5103220.12665120IPR001471AP2/ERF domain
SMARTSM003805.2E-2965126IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.102.5E-40193301IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019362.35E-30197299IPR015300DNA-binding pseudobarrel domain
CDDcd100171.81E-29198296No hitNo description
PROSITE profilePS5086314.085199302IPR003340B3 DNA binding domain
PfamPF023625.2E-29199298IPR003340B3 DNA binding domain
SMARTSM010194.3E-26199302IPR003340B3 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:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 370 aa     Download sequence    Send to blast
MEGSCIDEST TSTDTISISP ATLSSFPATK SPESLCRVGS GTTSTILDSE NGIEAESRGK  60
LPSSKYKGVV PQPNGRWGAQ IYEKHQRVWL GTFNEEDEAA KAYDIAAQRF RGRDAVTNFK  120
PLAAASTTEE EDIETAFLNS HSKAEIVDML RKHTYNDELE QSKRNHGLDG NGGKRSKGEG  180
FLGNSFGSGR FFKAREQLFE KSVTPSDVGK LNRLVIPKQH AEKHFPLQTG STSKGVLLNF  240
EDIGGKVWRF RYSYWNSSQS YVLTKGWSRF VKEKNLKAGD IVCFQRSTGP DKQLHIDWKG  300
RTGSGVVGLS NPVFPVQPVQ MVRLFGVNIL QVPGVGVVDH SIGGCNGKRV REMDLLALEC  360
SKKQRMVGAL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A3e-5819630611122DNA-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
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_018823697.10.0PREDICTED: AP2/ERF and B3 domain-containing transcription factor RAV1-like
SwissprotQ9C6M51e-155RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A2I4EWD90.0A0A2I4EWD9_JUGRE; AP2/ERF and B3 domain-containing transcription factor RAV1-like
STRINGVIT_01s0011g03070.t010.0(Vitis vinifera)
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-151RAV 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]