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 Thecc1EG006968t1
Common NameTCM_006968
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: 417aa    MW: 47953.7 Da    PI: 7.3529
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG006968t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B3573.4e-1819105494
                       E-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EE CS
                B3   4 vltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvv 94 
                       +l+ s+ l+ + l++p kf++++g +   s  +tl ++sgr W v+l  +k ++r+++ +GW+ Fv+   + +g f+vF+++g+s f+ +v
  Thecc1EG006968t1  19 KLIVSSILQDKKLRIPHKFVKKYGDE--LSSIVTLATPSGRFWLVEL--KKDKRRMWFDSGWNVFVEYYSISVGYFLVFRYEGNSHFNVHV 105
                       566788889999***********865..7789***************..**************************************6655 PP
2B365.39.4e-21315405498
                       E-..-HHHHTT-EE--HHH.HTT.---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEE CS
                B3   4 vltpsdvlksgrlvlpkkfaeeh.ggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvk 95 
                       +l ps+v k  +l +p+ fa++h +g+  +  t+tl+ ++g++W v++iy   +g+  + kGW eFv +n+L+egD++vF+l++++e  l+v+
  Thecc1EG006968t1 315 ILRPSYVYKGILLHIPRWFARKHlNGV--N-GTITLQVSEGKKWPVRCIYV--DGHLKFCKGWAEFVLDNNLDEGDVCVFELINTEEIVLKVT 402
                       5789*******************8666..2.38***************664..44466889**********************9999999999 PP

                       EE- CS
                B3  96 vfr 98 
                       +fr
  Thecc1EG006968t1 403 IFR 405
                       998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:2.40.330.101.1E-2412107IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019367.46E-2413107IPR015300DNA-binding pseudobarrel domain
CDDcd100178.15E-2014107No hitNo description
PROSITE profilePS5086314.01516109IPR003340B3 DNA binding domain
SMARTSM010194.8E-1617111IPR003340B3 DNA binding domain
PfamPF023621.1E-1520105IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.1E-26304405IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.33E-26305405IPR015300DNA-binding pseudobarrel domain
CDDcd100172.15E-24310405No hitNo description
SMARTSM010191.1E-18312407IPR003340B3 DNA binding domain
PROSITE profilePS5086314.212312407IPR003340B3 DNA binding domain
PfamPF023621.4E-19315405IPR003340B3 DNA binding 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
GO:0016740Molecular Functiontransferase activity
Sequence ? help Back to Top
Protein Sequence    Length: 417 aa     Download sequence    Send to blast
MSQPVGPALP EKKPCIFYKL IVSSILQDKK LRIPHKFVKK YGDELSSIVT LATPSGRFWL  60
VELKKDKRRM WFDSGWNVFV EYYSISVGYF LVFRYEGNSH FNVHVYNLAA SEINYLSNGL  120
NNSEELSRDE HVKNIEDGDL AEIMGSCPKC SSSYFLTDKD SDECLDRDRK KYKNSTSGAD  180
LKNLHQKNDM HDLQATFQLT QGKGFQLNVV ELTSTADEGG PYFLNETQQI TKKIKQETEP  240
SKLHELKNFL YRVFLIDFTH PNSLKDIDEH EEELPAMNTP RNIARRWRDV TTEDKQSALH  300
AAATFKPDNP FCRIILRPSY VYKGILLHIP RWFARKHLNG VNGTITLQVS EGKKWPVRCI  360
YVDGHLKFCK GWAEFVLDNN LDEGDVCVFE LINTEEIVLK VTIFRVLEDA GPVKKL*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-4528640823144B3 domain-containing transcription factor VRN1
4i1k_B1e-4528640823144B3 domain-containing transcription factor VRN1
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
16268LKKDKRR
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_021287247.10.0B3 domain-containing transcription factor VRN1-like isoform X1
RefseqXP_021287248.10.0B3 domain-containing transcription factor VRN1-like isoform X1
SwissprotQ8L3W13e-43VRN1_ARATH; B3 domain-containing transcription factor VRN1
TrEMBLA0A061DZE20.0A0A061DZE2_THECC; Sulfotransferase, putative isoform 1
STRINGEOX981330.0(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
AT1G49480.11e-46related to vernalization1 1
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]