PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Jcr4S04166.20
Common NameJCGZ_10017, LOC105631633
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Crotonoideae; Jatropheae; Jatropha
Family B3
Protein Properties Length: 391aa    MW: 45199.3 Da    PI: 8.1952
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Jcr4S04166.20genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B335.61.7e-115861198
                   HHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
             B3 11 lksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                    k+ + ++p +f++++g++   s   +l  + g +W v l   k ++++++ +GW+eF +   ++ g f+vF+++g+  f  +v++f+
  Jcr4S04166.20  5 EKLYLQRIPDNFVRKFGND--LSAFGRLSVPGGPVWPVGL--IKADDKFWFHEGWQEFMERYSIRIGYFLVFRYEGHAVF--TVHIFN 86
                   5556668*********877..77788999***********..9*******************************998888..888885 PP

2B358.89.9e-19290380498
                    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 eF  +n+L egD++vF+l ++++  l+v+vfr
  Jcr4S04166.20 290 VLRPSYLYRGCIMYLPSCFAEKHlQGVSG---FIKLQFSDGKQWPVRCLYRGGR--AKLSQGWYEFSLENNLGEGDVCVFELLRSRDIVLKVTVFR 380
                    78899******************977744...59999999********665555..66***********************999999999999997 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086311.533188IPR003340B3 DNA binding domain
SMARTSM010191.3E-6488IPR003340B3 DNA binding domain
PfamPF023621.4E-8986IPR003340B3 DNA binding domain
SuperFamilySSF1019361.63E-17987IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.104.2E-171088IPR015300DNA-binding pseudobarrel domain
CDDcd100171.32E-121186No hitNo description
Gene3DG3DSA:2.40.330.107.4E-24280380IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019364.05E-24281380IPR015300DNA-binding pseudobarrel domain
CDDcd100172.87E-21285380No hitNo description
SMARTSM010197.5E-18287382IPR003340B3 DNA binding domain
PROSITE profilePS5086313.479287382IPR003340B3 DNA binding domain
PfamPF023621.1E-16290380IPR003340B3 DNA binding domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
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: 391 aa     Download sequence    Send to blast
MEYNEKLYLQ RIPDNFVRKF GNDLSAFGRL SVPGGPVWPV GLIKADDKFW FHEGWQEFME  60
RYSIRIGYFL VFRYEGHAVF TVHIFNLSAS EINYQSNALS GRRYLVFEEM EDDDFIEHLS  120
SSSPCLIPNS LKSKVFDERL DQMTIKKSCN PPALQNLFHE SKLNYINWSG EGNLHLSKGA  180
SISHMVDQDT RDVGVQFNAI EGKNCIEDVK FYSPDGVGEM QKPKKQGRKK RKLDPNEQHP  240
SSQQEDEADV RFRFYESASA RKRTVTAEER ERAINAAKTF EPVNPFCRVV LRPSYLYRGC  300
IMYLPSCFAE KHLQGVSGFI KLQFSDGKQW PVRCLYRGGR AKLSQGWYEF SLENNLGEGD  360
VCVFELLRSR DIVLKVTVFR VLENAGRMNR P
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A3e-7525338315144B3 domain-containing transcription factor VRN1
4i1k_B3e-7525338315144B3 domain-containing transcription factor VRN1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1222231PKKQGRKKRK
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}.
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_012069205.10.0B3 domain-containing transcription factor VRN1 isoform X1
SwissprotQ8L3W11e-122VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A067LCQ10.0A0A067LCQ1_JATCU; Uncharacterized protein
STRINGcassava4.1_006855m0.0(Manihot esculenta)
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
AT3G18990.12e-79B3 family protein
Publications ? help Back to Top
  1. Zhang L, et al.
    Global analysis of gene expression profiles in physic nut (Jatropha curcas L.) seedlings exposed to salt stress.
    PLoS ONE, 2014. 9(5): p. e97878
    [PMID:24837971]
  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]