PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Tp2g24500
Organism
Thellungiella parvula
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassicaceae incertae sedis; Schrenkiella
Family bHLH
Protein Properties Length: 417aa    MW: 46991.3 Da    PI: 7.7756
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Tp2g24500genomethellungiellaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH49.48e-16222267555
                HHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
        HLH   5 hnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                hne ErrRRdriN+++ +L++llP+a      K +K++iL  ++e++k+Lq
  Tp2g24500 222 HNESERRRRDRINQRMRTLQKLLPTA-----SKADKVSILDDVIEHLKQLQ 267
                *************************9.....7******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088817.06217266IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.103.3E-17220282IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474593.01E-18220289IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000833.71E-9222271No hitNo description
PfamPF000104.5E-13222267IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.9E-16223272IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009704Biological Processde-etiolation
GO:0016607Cellular Componentnuclear speck
GO:0003690Molecular Functiondouble-stranded DNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 417 aa     Download sequence    Send to blast
MDQRQIQCLS CRCDCEEFEN RGEKKDYNIF KQGEREKREE RPKKKEEKLN YQSNYGVKEL  60
TWENGQLTVH GLGEGVEPTT SANPIWTTQS LNGCETLESV VHQAALQPGK LQLQSQNGRD  120
HNTESKDGSC SRKRGYPQEM DCWFAVQEEN HRVGHSMTAS ASGTNMSWAS FESGRSLKTA  180
RTGDRDYFLS GSETQDTEGD EQETRGEAGR SNGRRGRAAA IHNESERRRR DRINQRMRTL  240
QKLLPTASKA DKVSILDDVI EHLKQLQAQV QFMSLRANLP QQMMMPQLPP PQSVLSIQHQ  300
QQQQQQQQQQ QQQQQFQMSL LATMARIGMG GSGNAYGGLV PPPPPPPPLM VPPMANRDCT  360
NGSPAALTDP YSVFLAQTMN MELYNKMAAA IYRQQSDQTT KVNTGMPSSS SNHEKRD
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1225230ERRRRD
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor acting negatively in the phytochrome B signaling pathway under prolonged red light. Regulates PHYB abundance at the post-transcriptional level, possibly via the ubiquitin-proteasome pathway. May regulate the expression of a subset of genes by binding to the G-box motif. {ECO:0000269|PubMed:15486100, ECO:0000269|PubMed:18252845}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00571DAPTransfer from AT5G61270Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapTp2g24500
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By red light. Stable upon light exposure.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK3527340.0AK352734.1 Thellungiella halophila mRNA, complete cds, clone: RTFL01-03-L18.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023644391.10.0transcription factor PIF7
SwissprotQ570R70.0PIF7_ARATH; Transcription factor PIF7
TrEMBLR0G8010.0R0G801_9BRAS; Uncharacterized protein
STRINGXP_006279746.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM141231822
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G61270.11e-157phytochrome-interacting factor7
Publications ? help Back to Top
  1. Skinner MK,Rawls A,Wilson-Rawls J,Roalson EH
    Basic helix-loop-helix transcription factor gene family phylogenetics and nomenclature.
    Differentiation, 2010. 80(1): p. 1-8
    [PMID:20219281]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. de Wit M,Ljung K,Fankhauser C
    Contrasting growth responses in lamina and petiole during neighbor detection depend on differential auxin responsiveness rather than different auxin levels.
    New Phytol., 2015. 208(1): p. 198-209
    [PMID:25963518]
  4. Bou-Torrent J, et al.
    Regulation of Carotenoid Biosynthesis by Shade Relies on Specific Subsets of Antagonistic Transcription Factors and Cofactors.
    Plant Physiol., 2015. 169(3): p. 1584-94
    [PMID:26082398]
  5. Mizuno T,Oka H,Yoshimura F,Ishida K,Yamashino T
    Insight into the mechanism of end-of-day far-red light (EODFR)-induced shade avoidance responses in Arabidopsis thaliana.
    Biosci. Biotechnol. Biochem., 2015. 79(12): p. 1987-94
    [PMID:26193333]
  6. Paik I,Kathare PK,Kim JI,Huq E
    Expanding Roles of PIFs in Signal Integration from Multiple Processes.
    Mol Plant, 2017. 10(8): p. 1035-1046
    [PMID:28711729]
  7. Peng M, et al.
    Linking PHYTOCHROME-INTERACTING FACTOR to Histone Modification in Plant Shade Avoidance.
    Plant Physiol., 2018. 176(2): p. 1341-1351
    [PMID:29187567]
  8. Huang X, et al.
    Shade-induced nuclear localization of PIF7 is regulated by phosphorylation and 14-3-3 proteins in Arabidopsis.
    Elife, 2019.
    [PMID:29926790]