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 EcS783656.10
Organism
Eucalyptus camaldulensis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Myrtales; Myrtaceae; Myrtoideae; Eucalypteae; Eucalyptus
Family B3
Protein Properties Length: 132aa    MW: 15139.5 Da    PI: 8.738
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
EcS783656.10genomeECGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B366.93e-2129119498
                   E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
            B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                   vl ps+  + ++++lp  fae+h +g++     ++l++++g++W v++ yr+++    l++GW +F  +n+L+egD++vF+l++ +e  l v+vfr
  EcS783656.10  29 VLRPSYLYRGCIMYLPSCFAEKHlNGVSG---FIKLQSTDGKQWPVRCLYRGGR--AKLSQGWYDFSLENNLEEGDVCVFELMRAREVVLQVTVFR 119
                   7889*******************877744...5***************665555..66*************************9988889999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.103.3E-2617119IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019366.8E-2719119IPR015300DNA-binding pseudobarrel domain
CDDcd100172.85E-2524119No hitNo description
PROSITE profilePS5086314.2426121IPR003340B3 DNA binding domain
SMARTSM010191.9E-2026121IPR003340B3 DNA binding domain
PfamPF023629.6E-1929119IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009909Biological Processregulation of flower development
GO:0010048Biological Processvernalization response
GO:0034613Biological Processcellular protein localization
GO:0005654Cellular Componentnucleoplasm
GO:0005886Cellular Componentplasma membrane
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 132 aa     Download sequence    Send to blast
KRLVTAEERE KAINAAKMFE PPNPFCRVVL RPSYLYRGCI MYLPSCFAEK HLNGVSGFIK  60
LQSTDGKQWP VRCLYRGGRA KLSQGWYDFS LENNLEEGDV CVFELMRARE VVLQVTVFRV  120
VEEGGLLSHH GR
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-66112224144B3 domain-containing transcription factor VRN1
4i1k_B2e-66112224144B3 domain-containing transcription factor VRN1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtInvolved in the regulation of vernalization. Acts as transcriptional repressor of FLC, a major target of the vernalization pathway. Binds DNA in vitro in a non-sequence-specific manner. {ECO:0000269|PubMed:12114624}.
UniProtInvolved in the regulation of vernalization (By similarity). Binds to DNA in vitro in a non-sequence-specific manner. XLG2 promotes the DNA binding activity of RTV1 specifically to promoter regions of FT and SOC1 in vivo and thus leads to the activation of floral integrator genes. {ECO:0000250, ECO:0000269|PubMed:22232549}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00192DAPTransfer from AT1G49480Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By cold. {ECO:0000269|PubMed:22232549}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_010066068.11e-93PREDICTED: B3 domain-containing transcription factor VRN1
SwissprotQ8L3W15e-64VRN1_ARATH; B3 domain-containing transcription factor VRN1
SwissprotQ9XIB56e-65REM19_ARATH; B3 domain-containing protein REM19
TrEMBLA0A088AWV03e-77A0A088AWV0_SOYBN; Reduced vernalization response 1
STRINGXP_010066068.14e-93(Eucalyptus grandis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM112428103
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49480.12e-67related to vernalization1 1
Publications ? help Back to Top
  1. Conte MG,Gaillard S,Droc G,Perin C
    Phylogenomics of plant genomes: a methodology for genome-wide searches for orthologs in plants.
    BMC Genomics, 2008. 9: p. 183
    [PMID:18426584]
  2. Mantegazza O, et al.
    Analysis of the arabidopsis REM gene family predicts functions during flower development.
    Ann. Bot., 2014. 114(7): p. 1507-15
    [PMID:25002525]
  3. Kumar A,Singh A,Panigrahy M,Sahoo PK,Panigrahi KCS
    Carbon nanoparticles influence photomorphogenesis and flowering time in Arabidopsis thaliana.
    Plant Cell Rep., 2018. 37(6): p. 901-912
    [PMID:29541883]