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 Thecc1EG000513t2
Common NameTCM_000513
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: 411aa    MW: 46700.3 Da    PI: 9.0076
Description B3 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG000513t2genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1B356.45.4e-18351101798
                       E--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSSEE..EEEEE- CS
                B3  17 vlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrsefelvvkvfr 98 
                       ++p+kf++++ ++   s t+ l+ +sg  W v++  ++  +++v+++GW++Fvk++ L + DfvvF++dg+s+f  +v +f+
  Thecc1EG000513t2  35 RIPRKFMSNFREN--LSGTVYLRGPSGFMWAVEV--ERMFDEVVFGNGWQNFVKDHSLADADFVVFRYDGNSTF--NVVIFD 110
                       79*****777755..788****************..**********************************9999..787776 PP
2B338.61.9e-12293375388
                       EE-..-HHHHTT-EE--HHH.HTT---..--SEEEEEETTS-EEEEEE..EEETTEEEE-TTHHHHHHHHT--TT-EEEEEE-SSS CS
                B3   3 kvltpsdvlksgrlvlpkkfaeehggkkeesktltledesgrsWevkliyrkksgryvltkGWkeFvkangLkegDfvvFkldgrs 88 
                        v++p +v k   + +  k ++ h  +k + + l    ++ ++W v++    ++ r  +++GW +Fv +n+L+e D++vF+l+++ 
  Thecc1EG000513t2 293 IVMKPTHVCKAFTVNIREKWLDMHVPDKVR-IALLRVAPDEKRWPVRIMR--TKWRRGFARGWGKFVLDNNLEEHDVCVFELNEEG 375
                       577788888888888888888888444444.2333345999*******44..44444589*********************98753 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM010191.4E-1229112IPR003340B3 DNA binding domain
SuperFamilySSF1019361.18E-2133114IPR015300DNA-binding pseudobarrel domain
Gene3DG3DSA:2.40.330.101.1E-2134114IPR015300DNA-binding pseudobarrel domain
CDDcd100176.80E-1635110No hitNo description
PfamPF023627.4E-1535110IPR003340B3 DNA binding domain
PROSITE profilePS5086313.77536112IPR003340B3 DNA binding domain
Gene3DG3DSA:2.40.330.102.2E-18282390IPR015300DNA-binding pseudobarrel domain
SuperFamilySSF1019361.65E-16284390IPR015300DNA-binding pseudobarrel domain
CDDcd100171.15E-14289390No hitNo description
SMARTSM010192.7E-5291380IPR003340B3 DNA binding domain
PROSITE profilePS5086310.997291392IPR003340B3 DNA binding domain
PfamPF023629.9E-10292376IPR003340B3 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
Sequence ? help Back to Top
Protein Sequence    Length: 411 aa     Download sequence    Send to blast
MMNDEPLSMN MIPVLASLLL SNAFGLTNFL LVLQRIPRKF MSNFRENLSG TVYLRGPSGF  60
MWAVEVERMF DEVVFGNGWQ NFVKDHSLAD ADFVVFRYDG NSTFNVVIFD LSGCEREGSY  120
FVKKHTSACS NGRCGFRRED GEGSEEVIDL DKVHENHMQK EKLTKGKGNT ISKAVDTISQ  180
LKATQEKHLR VGKSAIASGV IEILMDESEE SSGSATEASE DWSNNSVSLK CKSKKKEVGC  240
LTNDSGKMKR PLDLPGSYNL YFISNRRKIT EEEKQRPRRL AKQYSSTRPS FSIVMKPTHV  300
CKAFTVNIRE KWLDMHVPDK VRIALLRVAP DEKRWPVRIM RTKWRRGFAR GWGKFVLDNN  360
LEEHDVCVFE LNEEGQANKK SIGFNVVIFR VLDEIVPLTR FSNTQPNASD *
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
4i1k_A1e-1526437122127B3 domain-containing transcription factor VRN1
4i1k_B1e-1526437122127B3 domain-containing transcription factor VRN1
Search in ModeBase
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_017969605.10.0PREDICTED: B3 domain-containing transcription factor VRN1
TrEMBLA0A061DGN90.0A0A061DGN9_THECC; Thioredoxin superfamily protein isoform 2
STRINGEOX912660.0(Theobroma cacao)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G18990.17e-33B3 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]