PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Thecc1EG036409t1
Common NameTCM_036409
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 C2H2
Protein Properties Length: 362aa    MW: 41456 Da    PI: 8.2011
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG036409t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H220.99.2e-076283223
                      EETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2  2 kCpdCgksFsrksnLkrHirtH 23
                      +C+ Cg++F+ + +Lk+H+++H
  Thecc1EG036409t1 62 TCEECGTTFKKPAYLKQHLQSH 83
                      6*******************99 PP
2zf-C2H216.72.1e-0589113123
                       EEET..TTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                       ++C+  dC+  ++rk++L+rH+ +H
  Thecc1EG036409t1  89 FVCSvdDCHANYRRKDHLNRHLLRH 113
                       89*********************99 PP
3zf-C2H215.93.6e-05118143123
                       EEET..TTTEEESSHHHHHHHHHH.T CS
           zf-C2H2   1 ykCp..dCgksFsrksnLkrHirt.H 23 
                       +kCp  +C++ F  + n+krH +  H
  Thecc1EG036409t1 118 FKCPieNCNREFAFQGNMKRHVKEfH 143
                       89********************9988 PP
4zf-C2H216.62.2e-05159183123
                       EEET..TTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCp..dCgksFsrksnLkrHirtH 23 
                       ++C+   Cgk+F+  s L++H   H
  Thecc1EG036409t1 159 HVCQevGCGKVFKFASKLRKHEDAH 183
                       789999***************8766 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SMARTSM00355201941IPR015880Zinc finger, C2H2-like
PROSITE profilePS501578.6631946IPR007087Zinc finger, C2H2
SMARTSM003550.0166183IPR015880Zinc finger, C2H2-like
PROSITE profilePS5015713.2976188IPR007087Zinc finger, C2H2
SuperFamilySSF576671.33E-962113No hitNo description
Gene3DG3DSA:3.30.160.601.3E-76288IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE patternPS0002806383IPR007087Zinc finger, C2H2
SMARTSM003550.0389113IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.606.3E-1089115IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS501579.28689118IPR007087Zinc finger, C2H2
PROSITE patternPS00028091113IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.605.2E-6116140IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576672.99E-6116144No hitNo description
PROSITE profilePS5015711.198118148IPR007087Zinc finger, C2H2
SMARTSM003550.0077118143IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280120143IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.3E-6155183IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.097159188IPR007087Zinc finger, C2H2
SMARTSM003550.07159183IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280161183IPR007087Zinc finger, C2H2
SMARTSM0035510191216IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280193216IPR007087Zinc finger, C2H2
SMARTSM0035516219240IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.609.7E-6230271IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576674.86E-8231287No hitNo description
PROSITE profilePS5015711.593249279IPR007087Zinc finger, C2H2
SMARTSM003550.0052249274IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280251274IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.605.7E-5273302IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SMARTSM003556.3280306IPR015880Zinc finger, C2H2-like
PROSITE patternPS000280282306IPR007087Zinc finger, C2H2
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005730Cellular Componentnucleolus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008097Molecular Function5S rRNA binding
GO:0046872Molecular Functionmetal ion binding
GO:0080084Molecular Function5S rDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 362 aa     Download sequence    Send to blast
MEEEGEGVEG AIFRDIRRYF CEYCGICRSK KSLIASHILI HHPEERSNGG KEEEGVSLSN  60
NTCEECGTTF KKPAYLKQHL QSHSLERPFV CSVDDCHANY RRKDHLNRHL LRHKGKLFKC  120
PIENCNREFA FQGNMKRHVK EFHDDEDSSS PGLGSQKQHV CQEVGCGKVF KFASKLRKHE  180
DAHVKLDSVE AFCSEPSCMK YFTNEQCLRA HVQSCHQYIS CEICGTKQLK KNIKRHLRSH  240
EPGDVSERIK CDFEGCCHTF STKSNLRQHV KAVHEELKPF ACSFSGCGMR FSYKHVRDNH  300
EKSGCHIYVP GDFVESDEHF LSRPRGGRKR TFPSVEMLIR KRVSPPQMDT MTDLGPNLGC  360
S*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1tf6_A5e-136521119155PROTEIN (TRANSCRIPTION FACTOR IIIA)
1tf6_D5e-136521119155PROTEIN (TRANSCRIPTION FACTOR IIIA)
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtEssential protein (PubMed:22353599). Isoform 1 is a transcription activator the binds both 5S rDNA and 5S rRNA and stimulates the transcription of 5S rRNA gene (PubMed:12711688, PubMed:22353599). Isoform 1 regulates 5S rRNA levels during development (PubMed:22353599). {ECO:0000269|PubMed:12711688, ECO:0000269|PubMed:22353599}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00229DAPTransfer from AT1G72050Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007020041.20.0PREDICTED: transcription factor IIIA
SwissprotQ84MZ41e-153TF3A_ARATH; Transcription factor IIIA
TrEMBLA0A061FJM20.0A0A061FJM2_THECC; Transcription factor IIIA, putative isoform 1
STRINGEOY172660.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM47142852
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G72050.21e-155transcription factor IIIA
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]