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 Thecc1EG011146t1
Common NameTCM_011146
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: 590aa    MW: 63720.1 Da    PI: 9.6769
Description C2H2 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG011146t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-C2H216.23e-057193123
                      EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2  1 ykCpdCgksFsrksnLkrHirtH 23
                      + C+ C+k F r  nL+ H r H
  Thecc1EG011146t1 71 FICEVCNKGFQREQNLQLHRRGH 93
                      89*******************88 PP
2zf-C2H213.10.00028147169123
                       EEETTTTEEESSHHHHHHHHHHT CS
           zf-C2H2   1 ykCpdCgksFsrksnLkrHirtH 23 
                       +kC++C+k++  +s+ k H +t+
  Thecc1EG011146t1 147 WKCEKCSKRYAVQSDWKAHSKTC 169
                       58*****************9998 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF576671.55E-77093No hitNo description
Gene3DG3DSA:3.30.160.606.6E-67093IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
PROSITE profilePS5015710.997193IPR007087Zinc finger, C2H2
SMARTSM003550.00527193IPR015880Zinc finger, C2H2-like
PfamPF121712.9E-57193IPR022755Zinc finger, double-stranded RNA binding
PROSITE patternPS0002807393IPR007087Zinc finger, C2H2
SMARTSM00355130112142IPR015880Zinc finger, C2H2-like
Gene3DG3DSA:3.30.160.602.1E-5135168IPR013087Zinc finger C2H2-type/integrase DNA-binding domain
SuperFamilySSF576671.55E-7142167No hitNo description
SMARTSM00355130147167IPR015880Zinc finger, C2H2-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003676Molecular Functionnucleic acid binding
GO:0046872Molecular Functionmetal ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 590 aa     Download sequence    Send to blast
MAASSSSGPF FGIRDEDQNQ MKQQPSSTPT SSTGPAPAPP QKKKRNQPGT PNPDAEVIAL  60
SPKTLMATNR FICEVCNKGF QREQNLQLHR RGHNLPWKLR QKTTKEVKRK VYLCPEPTCV  120
HHDPSRALGD LTGIKKHYSR KHGEKKWKCE KCSKRYAVQS DWKAHSKTCG TREYRCDCGT  180
LFSRRDSFIT HRAFCDALAQ ESARHPPSLN PIGNHLYGSS NMSLGLSQVG TQISSIQDQN  240
NQTGDILRLG GGARNTQFDH LLPPSMGSSS SFRPQQSMVS SAAFFMQESN QNFNQEHQPQ  300
QGLLGNKSFQ GLMQFPDIQN NTSNSPSAAN LFNLSFLSNS SNTSSINNNN SANTDNNLSS  360
SGLLISDHFN NENGAGGTSE ASNLFSNNIM GDQITSNIPS LFSSSVQNNN MVPQMSATAL  420
LQKAAQMGSN SSNNSTSLLR SFGSSSSSGT KPSNFGGIVG DNTGNNLHEL MNSIASGSSS  480
IFGGGSPGVN TYSTGHGQEN PYTNRSSMEQ EKQQQNLNVS AGGSDRLTRD FLGVGQIVRS  540
MSGGVSQREQ QQQQQQQQQG MGLSTLGSER NNITAPTGHR SFGGGGNFQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_C3e-34143204364Zinc finger protein JACKDAW
5b3h_F3e-34143204364Zinc finger protein JACKDAW
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting as a positive regulator of the starch synthase SS4. Controls chloroplast development and starch granule formation (PubMed:22898356). 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:22898356, ECO:0000269|PubMed:24821766}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00255DAPTransfer from AT2G02070Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2084941e-136AC208494.1 Populus trichocarpa clone JGIACSB265-L05, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_017971628.10.0PREDICTED: protein indeterminate-domain 5, chloroplastic isoform X1
SwissprotQ9ZUL31e-158IDD5_ARATH; Protein indeterminate-domain 5, chloroplastic
TrEMBLA0A061EG120.0A0A061EG12_THECC; Indeterminate(ID)-domain 5, putative isoform 1
STRINGEOY012040.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM43732654
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G02070.11e-142indeterminate(ID)-domain 5
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]