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 Thecc1EG006971t1
Common NameTCM_006971
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: 306aa    MW: 35302.6 Da    PI: 10.1748
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG006971t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B354.32.5e-17594194
                      EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
                B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94
                      ff +l+ s++l+ + l++p +f++++  +   s+   l+ ++g +W+v +  +k ++++++++GW+eFv+   +++g f++F+++g+s f+ ++
  Thecc1EG006971t1  5 FFHKLILSSTLQDKKLRIPDNFVKKFRDE--LSVAAALTVPDGHVWRVGI--KKADNKVWFQEGWQEFVERYYIRVGYFLIFRYEGNSAFSNLF 94
                      8899999****************999755..999****************..**********************************99997766 PP
2B363.24.1e-20203293498
                       E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
                B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 
                       vl ps+  + ++++lp  fae+h +g++     ++l+ ++g++W v++ yr+++    +++GW eF  +n+L egD++vF+l +++ef l+v+
  Thecc1EG006971t1 203 VLRPSYLYRGCIMYLPSCFAEKHlSGVSG---FIKLQLPDGKQWPVRCLYRGGR--AKFSQGWYEFTLENNLGEGDVCVFELLRSREFVLKVT 290
                       7889*******************866743...5***************666665..5699**********************999******** PP

                       EE- CS
                B3  96 vfr 98 
                       vfr
  Thecc1EG006971t1 291 VFR 293
                       *98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.102.1E-20391IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.12E-19390IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086312.929598IPR003340B3 DNA binding domain
CDDcd100173.71E-16588No hitNo description
PfamPF023623.3E-14594IPR003340B3 DNA binding domain
SMARTSM010191.9E-12697IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.9E-25192293IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019369.02E-26193293IPR015300DNA-binding pseudobarrel domain
CDDcd100175.18E-23198293No hitNo description
SMARTSM010195.6E-23200295IPR003340B3 DNA binding domain
PROSITE profilePS5086313.465200295IPR003340B3 DNA binding domain
PfamPF023624.7E-18203293IPR003340B3 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: 306 aa     Download sequence    Send to blast
MPRPFFHKLI LSSTLQDKKL RIPDNFVKKF RDELSVAAAL TVPDGHVWRV GIKKADNKVW  60
FQEGWQEFVE RYYIRVGYFL IFRYEGNSAF SNLFGGTKLN NCINWTGEVN LHTSKGVNNQ  120
PIRVKLHSSG AELPKPKKPG RKKRKFDPNE QDSSVGHEDE VEMRFRFYES ASARKRTVTA  180
EERERAINAA KAFEPTNPFC RVVLRPSYLY RGCIMYLPSC FAEKHLSGVS GFIKLQLPDG  240
KQWPVRCLYR GGRAKFSQGW YEFTLENNLG EGDVCVFELL RSREFVLKVT VFRVLESTGL  300
MNRPQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A4e-7816629615144B3 domain-containing transcription factor VRN1
4i1k_B4e-7816629615144B3 domain-containing transcription factor VRN1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1135144PKKPGRKKRK
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankGU9296951e-137GU929695.1 Gossypium hirsutum reduced vernalization response 1 (V1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007042309.10.0PREDICTED: B3 domain-containing transcription factor VRN1 isoform X3
SwissprotQ8L3W11e-142VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A061DZK10.0A0A061DZK1_THECC; DNA binding protein, putative isoform 1
STRINGEOX981410.0(Theobroma cacao)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.17e-84B3 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]