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 Thecc1EG042496t1
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: 880aa    MW: 98480.2 Da    PI: 8.3589
Description NF-X1 family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG042496t1genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1zf-NF-X116.12.5e-05193211120
          zf-NF-X1   1 CGkHkCqklCHeGpCppCpq 20 
                       CG H C  lCH+GpCp+Cp+
  Thecc1EG042496t1 193 CG-HFCLLLCHPGPCPSCPK 211
                       **.***************96 PP
2zf-NF-X118.54.5e-06245263119
          zf-NF-X1   1 CGkHkCqklCHeGpCppCp 19 
                       C kH+C+++CH+G CppC+
  Thecc1EG042496t1 245 CNKHRCSEICHPGTCPPCR 263
                       779***************8 PP
3zf-NF-X117.78e-06405424120
          zf-NF-X1   1 CGkHkCqklCHeGpCppCpq 20 
                       CG+H C++ C+ G+CppCp+
  Thecc1EG042496t1 405 CGRHACKRRCCDGNCPPCPE 424
                       ******************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF578501.68E-575152No hitNo description
PROSITE patternPS01359080146IPR019786Zinc finger, PHD-type, conserved site
CDDcd060082.34E-5181229No hitNo description
SMARTSM004380.0049193211IPR000967Zinc finger, NF-X1-type
PfamPF014220.0029193210IPR000967Zinc finger, NF-X1-type
CDDcd060082.16E-8235283No hitNo description
SMARTSM004380.0014245264IPR000967Zinc finger, NF-X1-type
PfamPF014220.0036245263IPR000967Zinc finger, NF-X1-type
CDDcd060082.35E-8288335No hitNo description
SMARTSM004380.084298317IPR000967Zinc finger, NF-X1-type
PfamPF014221.8300316IPR000967Zinc finger, NF-X1-type
CDDcd060081.40E-9342391No hitNo description
SMARTSM004380.72352372IPR000967Zinc finger, NF-X1-type
PfamPF014220.0029352371IPR000967Zinc finger, NF-X1-type
CDDcd060082.61E-8395443No hitNo description
SMARTSM004380.011405424IPR000967Zinc finger, NF-X1-type
PfamPF014220.003405423IPR000967Zinc finger, NF-X1-type
CDDcd060081.05E-10422470No hitNo description
SMARTSM004380.011432451IPR000967Zinc finger, NF-X1-type
PfamPF014220.011432450IPR000967Zinc finger, NF-X1-type
SMARTSM0043834489510IPR000967Zinc finger, NF-X1-type
PfamPF0142220499509IPR000967Zinc finger, NF-X1-type
PfamPF0142240518527IPR000967Zinc finger, NF-X1-type
SMARTSM0043812600633IPR000967Zinc finger, NF-X1-type
PfamPF014220.13600611IPR000967Zinc finger, NF-X1-type
CDDcd060087.81E-5631672No hitNo description
SMARTSM004380.014643661IPR000967Zinc finger, NF-X1-type
PfamPF014220.16643660IPR000967Zinc finger, NF-X1-type
SMARTSM004385.7706727IPR000967Zinc 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: 880 aa     Download sequence    Send to blast
MSATANYHPP PPSQPPLSDS DSDSDTDNFH IGSDLSNSIF KAYLEFSSSS SSSSSSSITA  60
VDLSKIQSFL TSSSSGALSC LICLERIRPS DPTWSCSSLC FALFHLFCIQ SWARQSSELS  120
AARASARLPI TAEVAAKQAT WNCPKCRFSY SKSQIPKSYL CFCGKLQDPP SDNPWILPHS  180
CGEICNRQLP NNCGHFCLLL CHPGPCPSCP KSIKTRCFCG SVEDFRRCGF KNFSCNQPCN  240
KLLDCNKHRC SEICHPGTCP PCRARDIYCC RCGQKEEEKD CCDRDFRCEN ECKKLLNCEK  300
HLCERGCHAG DCGECPLQGK QSCPCGKRVY EGMPCDVAAP VCGATCNKLL NCGFHRCPER  360
CHKGPCVETC RIMVKKSCRC GGLKKEVPCY QDLSCERKCL RTRDCGRHAC KRRCCDGNCP  420
PCPEVCNKRL RCKNHKCPAP CHRGACAPCP VIVTISCACG ETHFEVPCGT EMDQKPPKCR  480
KLCMITPLCR HASNLKPHRC HYGACPQCRL LCEEEYPCGH KCNLRCHGPR PPPNPEFMLK  540
PKKKKLNHQN ECTPGTPCPP CPELVWKPCV GQHIGAERMM VCSDRARFSC DNLCGNLLPC  600
GNHYCTKTCH SLEIQSSSSG YHKRSESCEE CNLPCQKERM PKCSHPCPLP CHPGECPPCK  660
VLVKRSCHCG AMVHAFECIY YNSLSEKDQV AVRSCGGPCH RKLPNCTHLC PETCHVGQCP  720
APDKCSKRVT VRCKCQTLKK EWVCQDVQAA YRDTGRDPND ISKNQFGLGL LPCNSNCKSK  780
KQEVDSSLQL RNPKVLEKKD PEIEKHGPKR RKRRDRIQED KQVSRLQKFV ATMKRLLLFI  840
IIVVALMAVT YYGYKGLLRL SDWMNDIEAQ RERRRHPRI*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1807813PKRRKRR
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
TrEMBLA0A061FKD20.0A0A061FKD2_THECC; Sequence-specific DNA binding transcription factor isoform 1
STRINGEOY177750.0(Theobroma cacao)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM109542730
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]