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 Thecc1EG037983t1
Common NameTCM_037983
Organism
Theobroma cacao
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma
Family B3
Protein Properties Length: 92aa    MW: 10458.2 Da    PI: 8.6492
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG037983t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B352.21.1e-161791698
                      EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                B3 16 lvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98
                      ++lp   ae+h +g++     ++l+ ++g++W v++ yr+++    ++++W eF  +n+L egD++vF+l +++ef l+v+vfr
  Thecc1EG037983t1  1 MYLPSCLAEKHlSGVSG---FIKLQLPDGKQWPVRCLYRGGR--AKFSQCWYEFTLENNLGEGDVCVFELLRSREFVLKVTVFR 79
                      67999999999866643...59**************666665..5699**********************999*********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5086312.647181IPR003340B3 DNA binding domain
SMARTSM010194.7E-9181IPR003340B3 DNA binding domain
CDDcd100174.90E-17179No hitNo description
Gene3DG3DSA:2.40.330.109.5E-19179IPR015300DNA-binding pseudobarrel domain
PfamPF023623.0E-15179IPR003340B3 DNA binding domain
SuperFamilySSF1019362.62E-19179IPR015300DNA-binding pseudobarrel domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 92 aa     Download sequence    Send to blast
MYLPSCLAEK HLSGVSGFIK LQLPDGKQWP VRCLYRGGRA KFSQCWYEFT LENNLGEGDV  60
CVFELLRSRE FVLKVTVFRV LESAGLMNRP Q*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A2e-4318264144B3 domain-containing transcription factor VRN1
4i1k_B2e-4318264144B3 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}.
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_007042309.17e-58PREDICTED: B3 domain-containing transcription factor VRN1 isoform X3
RefseqXP_017971809.17e-58PREDICTED: B3 domain-containing transcription factor VRN1 isoform X4
RefseqXP_021287066.11e-57LOW QUALITY PROTEIN: B3 domain-containing transcription factor VRN1-like
SwissprotQ8L3W16e-43VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A061GN345e-61A0A061GN34_THECC; DNA binding protein, putative
STRINGEOY309468e-62(Theobroma cacao)
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
AT3G18990.13e-45B3 family protein
Publications ? help Back to Top
  1. Motamayor JC, et al.
    The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color.
    Genome Biol., 2013. 14(6): p. r53
    [PMID:23731509]
  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]