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 Lj5g3v1776170.1
Organism
Lotus japonicus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus
Family RAV
Protein Properties Length: 372aa    MW: 40208.4 Da    PI: 7.9497
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lj5g3v1776170.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP238.82.3e-1260101955
              AP2   9 dkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                      +k +grW A+I++      ++r++lg+f  ++eAa+a++ a+++++g
  Lj5g3v1776170.1  60 RKPTGRWGAQIYEK-----HQRVWLGTFNEEDEAARAYDIAAQRFRG 101
                      5669*********3.....5**********99*************98 PP
2B395.34e-30187289192
                      EEEE-..-HHHHTT-EE--HHH.HTT...........---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEE CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh...........ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFk 83 
                      f+k+ tpsdv+k++rlv+pk++ae+h               ++++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+++L++gD v F+
  Lj5g3v1776170.1 187 FEKTVTPSDVGKLNRLVIPKQHAERHfplgavavtddATAAAKGMLLNFEDVGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLRAGDAVRFH 280
                      99***************************999998875556699************************************************** PP

                      E-SSSEE.. CS
               B3  84 ldgrsefel 92 
                      ++   +++l
  Lj5g3v1776170.1 281 RSTGPDRQL 289
                      775566655 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5103217.99152109IPR001471AP2/ERF domain
SMARTSM003805.6E-2060115IPR001471AP2/ERF domain
SuperFamilySSF541715.23E-1460109IPR016177DNA-binding domain
Gene3DG3DSA:3.30.730.103.0E-1760109IPR001471AP2/ERF domain
CDDcd000186.77E-2060111No hitNo description
PfamPF008473.7E-760101IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.101.7E-38182297IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.83E-29185293IPR015300DNA-binding pseudobarrel domain
CDDcd100178.29E-28186282No hitNo description
PROSITE profilePS5086313.437187297IPR003340B3 DNA binding domain
PfamPF023623.1E-27187289IPR003340B3 DNA binding domain
SMARTSM010192.3E-23187296IPR003340B3 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: 372 aa     Download sequence    Send to blast
MEVGSCTDET SITSDSLSAS ITPAKLSPPP PNTLCRVGSG ASTVIDAECC GGGPGEAESR  60
KPTGRWGAQI YEKHQRVWLG TFNEEDEAAR AYDIAAQRFR GKDAVTNFKP VAGAGDSADD  120
EAEAEFLNSH SKSEIVDMLR KHTYHDELQQ SKRGGACGGM KRRRIGEGAG NELFPGACDE  180
RAREILFEKT VTPSDVGKLN RLVIPKQHAE RHFPLGAVAV TDDATAAAKG MLLNFEDVGG  240
KVWRFRYSYW NSSQSYVLTK GWSRFVKEKN LRAGDAVRFH RSTGPDRQLY IDCKASSSSG  300
GGVGEVVDVS IKTGGLFIPV GPVVEPVQMV RLFGVNLLKL PGSDGGCNGK RKEMDLFSLE  360
CSKKPKMMVG AL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A2e-5418429911120DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1160164KRRRI
2349365KRKEMDLFSLECSKKPK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Lja.108050.0root
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
PlantRegMapLj5g3v1776170.1
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003591822.11e-179AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9C6M51e-121RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A2Z6MDH20.0A0A2Z6MDH2_TRISU; Uncharacterized protein
STRINGAES620731e-179(Medicago truncatula)
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-115RAV 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]