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 Lus10021006
Organism
Linum usitatissimum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Linaceae; Linum
Family B3
Protein Properties Length: 129aa    MW: 14650.8 Da    PI: 9.1493
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10021006genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B355.69.8e-18899298
                 EEE-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
           B3  2 fkvltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                  k+ +p   + +  l+lp  fae++ +g++     ++l+ ++g++W v++ yr+++    l++GW eF  +n++ egD++vF+l+++++  l+++vfr
  Lus10021006  8 HKIILPRTLHDR-KLYLPSCFAEKNlNGVSG---FIKLQYTDGKQWPVRCLYRGGR--AKLSQGWFEFTLENNIGEGDVCVFELMKSRDVVLKLTVFR 99
                 555555555555.5***********877743...5***************665555..66*************************9888888988887 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.8E-23399IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.14E-23499IPR015300DNA-binding pseudobarrel domain
CDDcd100176.04E-19599No hitNo description
PROSITE profilePS5086313.5786101IPR003340B3 DNA binding domain
SMARTSM010191.0E-187101IPR003340B3 DNA binding domain
PfamPF023627.9E-161499IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 129 aa     Download sequence    Send to blast
MPARPYFHKI ILPRTLHDRK LYLPSCFAEK NLNGVSGFIK LQYTDGKQWP VRCLYRGGRA  60
KLSQGWFEFT LENNIGEGDV CVFELMKSRD VVLKLTVFRV MDENGGGGGG YVNHHQHYDA  120
VLQPPTQH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-41210244144B3 domain-containing transcription factor VRN1
4i1k_B1e-41210244144B3 domain-containing transcription factor VRN1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLus10021006
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By cold. {ECO:0000269|PubMed:22232549}.
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_021643267.18e-50B3 domain-containing transcription factor VRN1-like isoform X5
RefseqXP_021643268.18e-50B3 domain-containing transcription factor VRN1-like isoform X5
RefseqXP_021643269.12e-50B3 domain-containing protein REM19-like isoform X6
SwissprotQ9XIB53e-41REM19_ARATH; B3 domain-containing protein REM19
TrEMBLA0A2C9U6Q94e-47A0A2C9U6Q9_MANES; Uncharacterized protein
TrEMBLA0A392NNH33e-47A0A392NNH3_9FABA; B3 domain-containing transcription factor VRN1-like
TrEMBLI3SUI21e-47I3SUI2_LOTJA; Uncharacterized protein
STRINGLus100210069e-93(Linum usitatissimum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF21473485
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G49480.15e-44related 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]