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 Thecc1EG001913t5
Common NameTCM_001913
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 bHLH
Protein Properties Length: 398aa    MW: 42755.7 Da    PI: 8.8521
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Thecc1EG001913t5genomeCGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH53.25.5e-17202248455
                       HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
               HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                        hn  ErrRRdriN+++  L+el+P++      K +Ka++L +A+eY+ksLq
  Thecc1EG001913t5 202 VHNLSERRRRDRINEKMRALQELIPHC-----NKTDKASMLDEAIEYMKSLQ 248
                       6*************************8.....6******************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF474592.62E-20195256IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.104.1E-20195252IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.451198247IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000835.05E-18201252No hitNo description
PfamPF000102.0E-14202248IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003532.8E-18204253IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009704Biological Processde-etiolation
GO:0010161Biological Processred light signaling pathway
GO:0010244Biological Processresponse to low fluence blue light stimulus by blue low-fluence system
GO:0010600Biological Processregulation of auxin biosynthetic process
GO:0010928Biological Processregulation of auxin mediated signaling pathway
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 398 aa     Download sequence    Send to blast
MTVNSQQLNV SSAVPEFRGN PMPPPKFQFD SAQLNKSSEG LSKVCNFSPG AEHTGVNSSG  60
GNLIQREVKE CSGMTVGSSY CGSNQVRNDI DFSRGSSNGF GTTTTGLSAG TSKDDAPKAI  120
VQNETGKTET IEPTVTSSSG GSGSSLDRTC KQSTGVISSH KRKRRDGEDY ECQSETAELQ  180
SAAGNKPTQR SGSSRRSRAA EVHNLSERRR RDRINEKMRA LQELIPHCNK TDKASMLDEA  240
IEYMKSLQLQ LQVVMWMGSG MAPMMFPGIQ HYMSRMGIGM GPPPLPSIHN PLHLSRVPVV  300
DQSMSMAPSQ NQAATCQTQQ LNQVNYQHPM QNPTFSEQYA RFLGFHHMQT ASQPMNMFGY  360
GPQTTGQSPV VSAPSGSGPF TGGAATTNNT SPSGKMG*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1206211ERRRRD
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that may act as negative regulator of phyB-dependent light signal transduction (PubMed:17485859). Transcription activator that acts as positive regulator of internode elongation. May function via regulation of cell wall-related genes. May play a role in a drought-associated growth-restriction mechanism in response to drought stress (PubMed:22984180). {ECO:0000269|PubMed:17485859, ECO:0000269|PubMed:22984180}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00606ChIP-seqTransfer from AT2G43010Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by light in dark-grown etiolated seedlings (PubMed:17485859). Circadian oscillation under 12 h light/12 h dark cycle conditions, with peaks in the middle of the light period (PubMed:17485859, PubMed:22984180). Down-regulated by cold and drought stresses (PubMed:22984180). {ECO:0000269|PubMed:17485859, ECO:0000269|PubMed:22984180}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_007048909.10.0PREDICTED: transcription factor PIF4 isoform X3
RefseqXP_017971808.10.0PREDICTED: transcription factor PIF4 isoform X1
SwissprotQ10CH52e-55PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBLA0A061DK120.0A0A061DK12_THECC; Phytochrome interacting factor 3-like 6, putative isoform 5
STRINGEOX930660.0(Theobroma cacao)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G43010.26e-45phytochrome interacting factor 4
Publications ? help Back to Top
  1. Kikuchi S, et al.
    Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice.
    Science, 2003. 301(5631): p. 376-9
    [PMID:12869764]
  2. Nakamura Y,Kato T,Yamashino T,Murakami M,Mizuno T
    Characterization of a set of phytochrome-interacting factor-like bHLH proteins in Oryza sativa.
    Biosci. Biotechnol. Biochem., 2007. 71(5): p. 1183-91
    [PMID:17485859]
  3. Zhao XL,Shi ZY,Peng LT,Shen GZ,Zhang JL
    An atypical HLH protein OsLF in rice regulates flowering time and interacts with OsPIL13 and OsPIL15.
    N Biotechnol, 2011. 28(6): p. 788-97
    [PMID:21549224]
  4. Todaka D, et al.
    Rice phytochrome-interacting factor-like protein OsPIL1 functions as a key regulator of internode elongation and induces a morphological response to drought stress.
    Proc. Natl. Acad. Sci. U.S.A., 2012. 109(39): p. 15947-52
    [PMID:22984180]
  5. 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]