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 Medtr5g053920.1
Common NameMTR_5g053920
Organism
Medicago truncatula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Trifolieae; Medicago
Family RAV
Protein Properties Length: 379aa    MW: 41776.1 Da    PI: 9.5604
Description RAV family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Medtr5g053920.1genomeMtView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1AP242.61.5e-1364112155
              AP2   1 sgykGVrwdkkrgrWvAeIrdpsengkrkrfslgkfgtaeeAakaaiaarkkleg 55 
                      s+ykGV   + +grW A+I++      ++r++lg+f  ++eAaka++ a+++++g
  Medtr5g053920.1  64 SKYKGVVPQP-NGRWGAQIYEK-----HQRVWLGTFNQEDEAAKAYDVAAQRFRG 112
                      89****9888.8*********3.....5**********99************998 PP
2B399.12.7e-31195302196
                      EEEE-..-HHHHTT-EE--HHH.HTT............---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEE CS
               B3   1 ffkvltpsdvlksgrlvlpkkfaeeh............ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvF 82 
                      f+kv tpsdv+k++rlv+pk++ae+h             +   +++ l +ed  g++W+++++y+++s++yvltkGW++Fvk+++Lk+gD+v F
  Medtr5g053920.1 195 FEKVVTPSDVGKLNRLVIPKQHAEKHfplqkadcvqgsASAAGKGVLLNFEDIGGKVWRFRYSYWNSSQSYVLTKGWSRFVKEKNLKAGDTVCF 288
                      99*************************9888888877644555999************************************************ PP

                      EE-SSSEE..EEEE CS
               B3  83 kldgrsefelvvkv 96 
                      +++   e++l++ +
  Medtr5g053920.1 289 QRSTGPEKQLFIDW 302
                      *8766666677665 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000183.08E-2564119No hitNo description
PfamPF008476.4E-964112IPR001471AP2/ERF domain
SuperFamilySSF541714.9E-1764120IPR016177DNA-binding domain
PROSITE profilePS5103220.0265120IPR001471AP2/ERF domain
Gene3DG3DSA:3.30.730.102.0E-2065120IPR001471AP2/ERF domain
SMARTSM003807.5E-2965126IPR001471AP2/ERF domain
Gene3DG3DSA:2.40.330.105.6E-41189306IPR015300DNA-binding pseudobarrel domain
CDDcd100171.05E-27194291No hitNo description
SuperFamilySSF1019364.97E-31194303IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.592195305IPR003340B3 DNA binding domain
SMARTSM010191.2E-24195306IPR003340B3 DNA binding domain
PfamPF023628.7E-29195302IPR003340B3 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 379 aa     Download sequence    Send to blast
MDGGSCIDES TTTESFSITI SPTKKPSTPP PPNSLCRVGS GASAVVDSDG SGVGEAESRK  60
LPSSKYKGVV PQPNGRWGAQ IYEKHQRVWL GTFNQEDEAA KAYDVAAQRF RGKDAVTNFK  120
PLSDHNNDDM ELEFLNSHSK SEIVDMLRKH TYNDELEQSK RSHGFVSRRS HGCSDSVNFA  180
SSAYNTDKKA REALFEKVVT PSDVGKLNRL VIPKQHAEKH FPLQKADCVQ GSASAAGKGV  240
LLNFEDIGGK VWRFRYSYWN SSQSYVLTKG WSRFVKEKNL KAGDTVCFQR STGPEKQLFI  300
DWKARKNVNE VGLFVPVGPV VEPVQMVRLF GVNILKQLPG SDVNSNGNVI AGFCNGKRKE  360
LNMFTFDSCK KPKIIGAL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1wid_A5e-5519230511117DNA-binding protein RAV1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1356372KRKELNMFTFDSCKKPK
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Mtr.125390.0root| stem
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00024PBMTransfer from AT1G25560Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapMedtr5g053920.1
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
GenBankCU9141340.0CU914134.2 Medicago truncatula chromosome 5 clone mte1-13k8, COMPLETE SEQUENCE.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003614455.20.0AP2/ERF and B3 domain-containing transcription factor RAV1
SwissprotQ9C6M51e-138RAVL1_ARATH; AP2/ERF and B3 domain-containing transcription repressor TEM1
TrEMBLA0A396HTJ60.0A0A396HTJ6_MEDTR; Putative transcription factor RAV family
TrEMBLG7JY940.0G7JY94_MEDTR; AP2/ERF and B3 domain transcription factor
STRINGAES974130.0(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-136RAV family protein
Publications ? help Back to Top
  1. Young ND, et al.
    The Medicago genome provides insight into the evolution of rhizobial symbioses.
    Nature, 2011. 480(7378): p. 520-4
    [PMID:22089132]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. 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]