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 Lus10012041
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: 368aa    MW: 41742.5 Da    PI: 9.0609
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Lus10012041genomeBGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B341.81.9e-138861397
                 TT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE CS
           B3 13 sgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvf 97
                 s++ ++p +f++++ ++   +  ++l+ ++g +W++ +   k ++++++ +GW++Fv++  +++g  +vF+++g+  f  +v++f
  Lus10012041  8 SCMQRIPDNFIKKFAND--LTHLVRLTVPDGHVWRIGI--VKADDKFWFHDGWNDFVESYSIRVGYLLVFRYEGNAIF--NVHMF 86
                 68889*********877..6668***************..********************************998777..66665 PP
2B358.81e-18248338498
                  E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
           B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                  vl ps+  + ++++lp +fae++ +g++     ++l+ ++g++W v++    k+gr  l++GW eF  +n++ egD++vF++ ++++  l+v+vfr
  Lus10012041 248 VLRPSYLYRGCIMYLPSSFAEKNlNGVSG---FIKLQFTDGKQWPVRC--LYKGGRAKLSQGWYEFTLENNIGEGDVCVFEMLKSRDVVLKVTVFR 338
                  78899******************876743...49999999********..66666778***********************888888889999998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd100175.24E-15187No hitNo description
PROSITE profilePS5086312.816189IPR003340B3 DNA binding domain
SMARTSM010191.3E-7489IPR003340B3 DNA binding domain
SuperFamilySSF1019362.94E-18788IPR015300DNA-binding pseudobarrel domain
PfamPF023622.4E-10786IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.101.4E-17889IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.8E-24236338IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.12E-24238338IPR015300DNA-binding pseudobarrel domain
CDDcd100171.53E-21243338No hitNo description
SMARTSM010198.0E-19245340IPR003340B3 DNA binding domain
PROSITE profilePS5086313.817245340IPR003340B3 DNA binding domain
PfamPF023627.9E-17248338IPR003340B3 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:0005654Cellular Componentnucleoplasm
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 368 aa     Download sequence    Send to blast
MGPNLTFSCM QRIPDNFIKK FANDLTHLVR LTVPDGHVWR IGIVKADDKF WFHDGWNDFV  60
ESYSIRVGYL LVFRYEGNAI FNVHMFNLSA SEINYQTNTL SGKRCLLFDT LDDEDSSEYL  120
NSVPVYQVPY AMKANNAHLS RVNNVPQPAS QPVVEPNLQV NAFDHQQNAS SDAAPPAKVP  180
KKRGRKRKKP DPNEEQASAA RPQEDGEMKF RFYESASARK RTVTAEERER AISAAKMFEP  240
ENPFCRVVLR PSYLYRGCIM YLPSSFAEKN LNGVSGFIKL QFTDGKQWPV RCLYKGGRAK  300
LSQGWYEFTL ENNIGEGDVC VFEMLKSRDV VLKVTVFRVM DSSAGYMNLN HHRMPIPPPP  360
AAAAGRH*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-7321133915142B3 domain-containing transcription factor VRN1
4i1k_B1e-7321133915142B3 domain-containing transcription factor VRN1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1184188RKRKK
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapLus10012041
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_021643265.11e-164B3 domain-containing transcription factor VRN1-like isoform X3
SwissprotQ8L3W11e-133VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A2C9U6Q91e-161A0A2C9U6Q9_MANES; Uncharacterized protein
STRINGLus100120410.0(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
AT3G18990.11e-128B3 family protein
Publications ? help Back to Top
  1. 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]
  2. 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]