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 Thecc1EG042496t2
Common NameTCM_042496
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 NF-X1
Protein Properties Length: 816aa    MW: 90669.1 Da    PI: 8.1997
Description NF-X1 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG042496t2genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-NF-X116.22.3e-05185203120
          zf-NF-X1   1 CGkHkCqklCHeGpCppCpq 20 
                       CG H C  lCH+GpCp+Cp+
  Thecc1EG042496t2 185 CG-HFCLLLCHPGPCPSCPK 203
                       **.***************96 PP
2zf-NF-X118.64.2e-06237255119
          zf-NF-X1   1 CGkHkCqklCHeGpCppCp 19 
                       C kH+C+++CH+G CppC+
  Thecc1EG042496t2 237 CNKHRCSEICHPGTCPPCR 255
                       779***************8 PP
3zf-NF-X117.87.3e-06397416120
          zf-NF-X1   1 CGkHkCqklCHeGpCppCpq 20 
                       CG+H C++ C+ G+CppCp+
  Thecc1EG042496t2 397 CGRHACKRRCCDGNCPPCPE 416
                       ******************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF578501.68E-567144No hitNo description
PROSITE patternPS01359072138IPR019786Zinc finger, PHD-type, conserved site
CDDcd060088.91E-5173221No hitNo description
SMARTSM004380.0049185203IPR000967Zinc finger, NF-X1-type
PfamPF014220.0026185202IPR000967Zinc finger, NF-X1-type
CDDcd060087.92E-8227275No hitNo description
SMARTSM004380.0014237256IPR000967Zinc finger, NF-X1-type
PfamPF014220.0033237255IPR000967Zinc finger, NF-X1-type
CDDcd060081.00E-7280327No hitNo description
SMARTSM004380.084290309IPR000967Zinc finger, NF-X1-type
PfamPF014221.7292308IPR000967Zinc finger, NF-X1-type
CDDcd060086.49E-9334383No hitNo description
SMARTSM004380.72344364IPR000967Zinc finger, NF-X1-type
PfamPF014220.0026344363IPR000967Zinc finger, NF-X1-type
CDDcd060089.95E-8387435No hitNo description
SMARTSM004380.011397416IPR000967Zinc finger, NF-X1-type
PfamPF014220.0028397415IPR000967Zinc finger, NF-X1-type
CDDcd060084.78E-10414462No hitNo description
SMARTSM004380.011424443IPR000967Zinc finger, NF-X1-type
PfamPF014220.01424442IPR000967Zinc finger, NF-X1-type
SMARTSM0043834481502IPR000967Zinc finger, NF-X1-type
PfamPF0142218491501IPR000967Zinc finger, NF-X1-type
PfamPF0142237510519IPR000967Zinc finger, NF-X1-type
SMARTSM0043812592625IPR000967Zinc finger, NF-X1-type
PfamPF014220.12592603IPR000967Zinc finger, NF-X1-type
SMARTSM004380.014635653IPR000967Zinc finger, NF-X1-type
PfamPF014220.14635652IPR000967Zinc finger, NF-X1-type
SMARTSM004385.7698719IPR000967Zinc finger, NF-X1-type
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0007623Biological Processcircadian rhythm
GO:0009651Biological Processresponse to salt stress
GO:0009908Biological Processflower development
GO:0010310Biological Processregulation of hydrogen peroxide metabolic process
GO:0042335Biological Processcuticle development
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:2000037Biological Processregulation of stomatal complex patterning
GO:0005634Cellular Componentnucleus
GO:0016021Cellular Componentintegral component of membrane
GO:0000987Molecular Functioncore promoter proximal region sequence-specific DNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0008270Molecular Functionzinc ion binding
Sequence ? help Back to Top
Protein Sequence    Length: 816 aa     Download sequence    Send to blast
PPPPSQPPLS DSDSDSDTDN FHIGSDLSNS IFKAYLEFSS SSSSSSSSSI TAVDLSKIQS  60
FLTSSSSGAL SCLICLERIR PSDPTWSCSS LCFALFHLFC IQSWARQSSE LSAARASARL  120
PITAEVAAKQ ATWNCPKCRF SYSKSQIPKS YLCFCGKLQD PPSDNPWILP HSCGEICNRQ  180
LPNNCGHFCL LLCHPGPCPS CPKSIKTRCF CGSVEDFRRC GFKNFSCNQP CNKLLDCNKH  240
RCSEICHPGT CPPCRARDIY CCRCGQKEEE KDCCDRDFRC ENECKKLLNC EKHLCERGCH  300
AGDCGECPLQ GKQSCPCGKR VYEGMPCDVA APVCGATCNK LLNCGFHRCP ERCHKGPCVE  360
TCRIMVKKSC RCGGLKKEVP CYQDLSCERK CLRTRDCGRH ACKRRCCDGN CPPCPEVCNK  420
RLRCKNHKCP APCHRGACAP CPVIVTISCA CGETHFEVPC GTEMDQKPPK CRKLCMITPL  480
CRHASNLKPH RCHYGACPQC RLLCEEEYPC GHKCNLRCHG PRPPPNPEFM LKPKKKKLNH  540
QNECTPGTPC PPCPELVWKP CVGQHIGAER MMVCSDRARF SCDNLCGNLL PCGNHYCTKT  600
CHSLEIQSSS SGYHKRSESC EECNLPCQKE RMPKCSHPCP LPCHPGECPP CKVLVKRSCH  660
CGAMVHAFEC IYYNSLSEKD QVAVRSCGGP CHRKLPNCTH LCPETCHVGQ CPAPDKCSKR  720
VTVRCKCQTL KKEWVCQDVQ AAYRDTGRDP NDISKNQFGL GLLPCNSNCK SKKQEVDSSL  780
QLRNPKVLEV RSFKLRLHCL TSVSSLICLY HCILY*
Functional Description ? help Back to Top
Source Description
UniProtProbable transcriptional regulator. May mediate E2- or E3-dependent ubiquitination. Required to gate light sensitivity during the night. Regulates the speed of the clock by acting in the feedback loop between CCA1, LHY and APRR1/TOC1. Promotes the expression of CCA1 at night but not by days. This activational effect is enhanced by interaction with ADO1/ZTL. Association with ADO1/ZTL is not leading to the degradation of NFXL2. Confers sensitivity to osmotic stress such as high salinity. Prevents H(2)O(2) production and abscisic acid accumulation. Part of a regulatory network that integrates the biosynthesis and action of abscisic acid, reactive oxygen species and cuticle components. {ECO:0000269|PubMed:16905136, ECO:0000269|PubMed:21300918, ECO:0000269|PubMed:21429190, ECO:0000269|PubMed:22073231, ECO:0000269|PubMed:22516817}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Circadian-regulation with a peak of expression at or before dawn. Not regulated by biotic and abiotic stresses, by light and nutrient conditions or upon treatment with elicitors, chemicals, abscisic acid or phytohormones. {ECO:0000269|PubMed:21300918, ECO:0000269|PubMed:22073231}.
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_007008965.20.0PREDICTED: NF-X1-type zinc finger protein NFXL2
SwissprotQ9FFK80.0NFXL2_ARATH; NF-X1-type zinc finger protein NFXL2
TrEMBLA0A061FL190.0A0A061FL19_THECC; Sequence-specific DNA binding transcription factor isoform 2 (Fragment)
STRINGEOY177750.0(Theobroma cacao)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G05660.10.0sequence-specific DNA binding transcription factors;zinc ion binding;sequence-specific DNA binding transcription factors
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]