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 Thecc1EG041053t1
Common NameTCM_041053
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: 525aa    MW: 57396.5 Da    PI: 9.9384
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG041053t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.13.2e-056486123
                      EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                      + C++C+k F r  nL+ H r H
  Thecc1EG041053t1 64 FICEICNKGFQRDQNLQLHRRGH 86
                      89*******************88 PP
2zf-C2H211.80.00075140162123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       +kC++C+k +  +s+ k H + +
  Thecc1EG041053t1 140 WKCEKCSKKYAVQSDWKAHSKIC 162
                       58*****************9876 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:3.30.160.601.4E-56386IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.23E-76386No hitNo description
PROSITE profilePS5015710.8456486IPR007087Zinc finger, C2H2
PfamPF121716.3E-56486IPR022755Zinc finger, double-stranded RNA binding
SMARTSM003550.0226486IPR015880Zinc finger, C2H2-like
PROSITE patternPS0002806686IPR007087Zinc finger, C2H2
SMARTSM00355120105135IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.601.6E-4128161IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576675.23E-7135160No hitNo description
SMARTSM00355140140160IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 525 aa     Download sequence    Send to blast
MMSQDGLSVP STIRGLAQEP NSNPNPTNPT ANPVKKKRNL PGTPDPDAEV IALSPKSLMA  60
TNRFICEICN KGFQRDQNLQ LHRRGHNLPW KLKQRTNKEV RKKVYICPEK TCVHHDRSRA  120
LGDLTGIKKH FSRKHGEKKW KCEKCSKKYA VQSDWKAHSK ICGTREYRCD CGTLFSRKDS  180
FITHRAFCDA LAEESARFTS VSTTMIPAFR NDLINGANSN AQATGMHQFS SGFRPDFAGP  240
ELVENLNANG QKPRLQLWLD QANSQLNPIG IPSNANAFLA TKSTSLPDLG IAPMTMFGSL  300
SQTQWLSKYP EASFPGANLS VSALPRGLKE EEENKGNLSE SITSLYSNNT RNSLQQGQAH  360
MSATALLQKA AQMGSTRSNP AFNNSGFGLV SSSPSTMSSS NTYDQSKNEV YKLVKQANQS  420
ENINELVSSL SSTRATIMKD GSALGDLNSS SFVNNATTKN MDNLVMQANG KQGQAVVSKL  480
NTNSNEVEAS LTRDFLGVGG ESSRPFLQQE LAKFASMGSV QPWS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C2e-37136202369Zinc finger protein JACKDAW
5b3h_F2e-37136202369Zinc finger protein JACKDAW
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
190102KLKQRTNKEVRKK
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that, together with JKD, regulates tissue boundaries and asymmetric cell division in roots by a rapid up-regulation of 'SCARECROW' (SCR), thus controlling the nuclear localization of 'SHORT-ROOT' (SHR) and restricting its action (PubMed:25829440). Confines CYCD6 expression to the cortex-endodermis initial/daughter (CEI/CEID) tissues (PubMed:25829440). 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). {ECO:0000269|PubMed:24821766, ECO:0000269|PubMed:25829440}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJX5775691e-49JX577569.1 Gossypium hirsutum clone NBRI_GE9421 microsatellite sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_017982921.10.0PREDICTED: protein indeterminate-domain 9
SwissprotQ944L31e-118IDD9_ARATH; Zinc finger protein BALDIBIS
TrEMBLA0A061GUF30.0A0A061GUF3_THECC; Nucleic acid binding protein, putative isoform 1
STRINGEOY330480.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM15528306
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G45260.11e-109C2H2-like zinc finger 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. Moreno-Risueno MA, et al.
    Transcriptional control of tissue formation throughout root development.
    Science, 2015. 350(6259): p. 426-30
    [PMID:26494755]