PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Thecc1EG008235t1
Common NameTCM_008235
Organism
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: 459aa    MW: 50240.4 Da    PI: 8.9541
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG008235t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H215.84.1e-055979323
                      ETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2  3 CpdCgksFsrksnLkrHirtH 23
                      C++Cgk F r  nL+ H r H
  Thecc1EG008235t1 59 CEICGKGFQRDQNLQLHRRGH 79
                      *******************88 PP

2zf-C2H213.50.00021133155123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       +kC++C+k++  +s+ k H +t+
  Thecc1EG008235t1 133 WKCEKCSKRYAVQSDWKAHSKTC 155
                       58*****************9998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576673.05E-65679No hitNo description
Gene3DG3DSA:3.30.160.603.9E-55679IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015711.4895779IPR007087Zinc finger, C2H2
SMARTSM003550.0765779IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002805979IPR007087Zinc finger, C2H2
Gene3DG3DSA:3.30.160.601.5E-4121154IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576673.05E-6128153No hitNo description
SMARTSM00355130133153IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 459 aa     Download sequence    Send to blast
MLEQMTEESI SNGFVQNPIA GSNPPLAKKK RNLPGTPDPE AEVIALSPKT LMATNRFLCE  60
ICGKGFQRDQ NLQLHRRGHN LPWKLKQRTT KEARKRVYVC PEKSCVHHHP SRALGDLTGI  120
KKHFCRKHGE KKWKCEKCSK RYAVQSDWKA HSKTCGTREY KCDCGTLFSR RDSFITHRAF  180
CDALAEETAR VNAASNMHSL ATSNINYHLM GNPLGPGMAQ HFSSIFKPIS SNDETLDQTR  240
RGLSLWMAQA SQGHDAIGKS LQEIHQFGSV NSGSIYSDPL VSTSNAPASD YPLNWVFGNK  300
VSSCNAEEIT STSLPLNNVK ENGPQLVSVP SLFSTQHHSH QTPSANMSAT ALLQKAAQIG  360
ATSTDTSFLG SFATKCSSSQ VQDGNKYSGL YGSNTPATTL GSDLENSAND ISTLNQLQMY  420
PAKRRHTQNE DSTGGQTRDF LGVGVQAICH PSSINGWI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C4e-37129196370Zinc finger protein JACKDAW
5b3h_F4e-37129196370Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates tissue boundaries and asymmetric cell division (PubMed:17785527, PubMed:25829440). Contributes to the sequestration of 'SHORT-ROOT' to the nucleus (PubMed:17785527, PubMed:25829440). Interacts with the SCR and MGP promoters (PubMed:21935722). Does not show transcription activity by itself, but regulates the transcription of downstream genes through interaction with other transcription factors (PubMed:21935722). Binds DNA via its zinc fingers (PubMed:24821766). Recognizes and binds to SCL3 promoter sequence 5'-AGACAA-3' to promotes its expression when in complex with RGA (PubMed:24821766). Positively involved in gibberellic acid (GA) signaling (PubMed:24821766). {ECO:0000269|PubMed:17785527, ECO:0000269|PubMed:21935722, ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00125DAPTransfer from AT1G03840Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by the transcription factor JKD, and down-regulated by SHR, SCR and itself. {ECO:0000269|PubMed:21935722}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKT8896651e-70KT889665.1 Corchorus olitorius cultivar Sudan Green microsatellite JROm311 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007043706.20.0PREDICTED: zinc finger protein MAGPIE isoform X2
SwissprotQ9ZWA61e-163IDD3_ARATH; Zinc finger protein MAGPIE
TrEMBLA0A061E4I00.0A0A061E4I0_THECC; C2H2 and C2HC zinc fingers superfamily protein
STRINGEOX995370.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM37102660
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G03840.11e-166C2H2 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. Muñoz-Strale D,León G
    Identification of two highly specific pollen promoters using transcriptomic data.
    Plant Physiol. Biochem., 2014. 83: p. 292-9
    [PMID:25208507]
  3. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]