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 ORUFI03G37840.2
Organism
Oryza rufipogon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza
Family bHLH
Protein Properties Length: 443aa    MW: 47921.6 Da    PI: 6.5062
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
ORUFI03G37840.2genomeOGEView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH55.51e-17224270455
                      HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
              HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                       hn  ErrRRdriN+++  L+el+P++      K +Ka+iL +A+eY+ksLq
  ORUFI03G37840.2 224 VHNLSERRRRDRINEKMRALQELIPHC-----NKTDKASILDEAIEYLKSLQ 270
                      6*************************8.....6******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000832.59E-18215274No hitNo description
SuperFamilySSF474594.45E-20218276IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.635220269IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000106.4E-15224270IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.104.6E-21224274IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003536.2E-18226275IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0006783Biological Processheme biosynthetic process
GO:0009740Biological Processgibberellic acid mediated signaling pathway
GO:0009959Biological Processnegative gravitropism
GO:0010100Biological Processnegative regulation of photomorphogenesis
GO:0010161Biological Processred light signaling pathway
GO:0010187Biological Processnegative regulation of seed germination
GO:0015995Biological Processchlorophyll biosynthetic process
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0010313Molecular Functionphytochrome binding
GO:0042802Molecular Functionidentical protein binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 443 aa     Download sequence    Send to blast
MAICSTDNEL VELLWHNGGV VAQPQAAQAR VVSSSGRGQS ASVLTGDDTE TAAWFPDTLD  60
DALEKDLYTQ LWRSVTGDAF PAAAAAGPSS HHAPPPDLPP PAARPPMRSG IGSSWTGDIC  120
SAFCGSNHIP ETAAQRCRDA GAALPPERPR RSSTHDGAGT SSSGGSGSNF GASGLPSESA  180
SAHKRKGRED SDSRSEDAEC EATEETKSSS RRYGSKRRTR AAEVHNLSER RRRDRINEKM  240
RALQELIPHC NKTDKASILD EAIEYLKSLQ MQVQIEIVES VPQIMWMTTG MAPMMFPGAH  300
QFMPPMAVGM NSACMPAAQG LSHMSRLPYM NHSMPNHIPL NSSPAMNPMN VANQMQNIQL  360
REASNPFLHP DGWQTVPPQV SGPYASGPQV AQQNQIPKAS ASTDKEFNVG FAQRVVFLEI  420
AENIDMMNRL HPYCCYVSQS VSV
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1215232KRRTRAAEVHNLSERRRR
2228233ERRRRD
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
MP00074ChIP-chipTransfer from AT2G20180Download
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 -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1056370.0AK105637.1 Oryza sativa Japonica Group cDNA clone:001-200-E02, full insert sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015633325.10.0transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like isoform X5
SwissprotQ10CH50.0PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBLA0A0E0P2430.0A0A0E0P243_ORYRU; Uncharacterized protein
STRINGOBART03G36360.10.0(Oryza barthii)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G59060.12e-29phytochrome interacting factor 3-like 6
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]