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 Thecc1EG006971t2
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: 351aa    MW: 40443.2 Da    PI: 9.4918
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG006971t2genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B355.11.4e-17595197
                      EEEE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
                B3  1 ffkvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95
                      ff +l+ s++l+ + l++p +f++++  +   s+   l+ ++g +W+v +  +k ++++++++GW+eFv+   +++g f++F+++g+s f   v+
  Thecc1EG006971t2  5 FFHKLILSSTLQDKKLRIPDNFVKKFRDE--LSVAAALTVPDGHVWRVGI--KKADNKVWFQEGWQEFVERYYIRVGYFLIFRYEGNSAF--SVS 93
                      8899999****************999755..999****************..**********************************9999..888 PP

                      EE CS
                B3 96 vf 97
                      +f
  Thecc1EG006971t2 94 IF 95
                      87 PP
2B362.95.3e-20248338498
                       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+
  Thecc1EG006971t2 248 VLRPSYLYRGCIMYLPSCFAEKHlSGVSG---FIKLQLPDGKQWPVRCLYRGGR--AKFSQGWYEFTLENNLGEGDVCVFELLRSREFVLKVT 335
                       78899******************866743...5***************666665..5699**********************999******** PP

                       EE- CS
                B3  96 vfr 98 
                       vfr
  Thecc1EG006971t2 336 VFR 338
                       *98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019368.83E-22396IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.107.2E-23396IPR015300DNA-binding pseudobarrel domain
PROSITE profilePS5086313.888598IPR003340B3 DNA binding domain
CDDcd100171.23E-18596No hitNo description
PfamPF023621.7E-14595IPR003340B3 DNA binding domain
SMARTSM010191.7E-15698IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.103.9E-25237338IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.18E-25238338IPR015300DNA-binding pseudobarrel domain
CDDcd100171.38E-23243338No hitNo description
SMARTSM010195.6E-23245340IPR003340B3 DNA binding domain
PROSITE profilePS5086313.465245340IPR003340B3 DNA binding domain
PfamPF023626.1E-18248338IPR003340B3 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: 351 aa     Download sequence    Send to blast
MPRPFFHKLI LSSTLQDKKL RIPDNFVKKF RDELSVAAAL TVPDGHVWRV GIKKADNKVW  60
FQEGWQEFVE RYYIRVGYFL IFRYEGNSAF SVSIFNLINS EINYQSNPLI GSQYNHGKQY  120
PFEELEDDEC ISPALQNLFG GTKLNNCINW TGEVNLHTSK GVNNQPIRVK LHSSGAELPK  180
PKKPGRKKRK FDPNEQDSSV GHEDEVEMRF RFYESASARK RTVTAEERER AINAAKAFEP  240
TNPFCRVVLR PSYLYRGCIM YLPSCFAEKH LSGVSGFIKL QLPDGKQWPV RCLYRGGRAK  300
FSQGWYEFTL ENNLGEGDVC VFELLRSREF VLKVTVFRVL ESTGLMNRPQ *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-7721134115144B3 domain-containing transcription factor VRN1
4i1k_B1e-7721134115144B3 domain-containing transcription factor VRN1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1180189PKKPGRKKRK
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_007042310.10.0PREDICTED: B3 domain-containing transcription factor VRN1 isoform X1
SwissprotQ8L3W11e-159VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A061E1E90.0A0A061E1E9_THECC; DNA binding protein, putative isoform 2
STRINGEOX981410.0(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
AT3G18990.11e-156B3 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]