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 Seita.9G067200.1.p
Common NameLOC101775649, SETIT_035819mg
Organism
Setaria italica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria
Family bHLH
Protein Properties Length: 429aa    MW: 45940.3 Da    PI: 6.2997
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Seita.9G067200.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH53.83.5e-17236282455
                         HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                 HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                          hn  ErrRRdriN+++  L+el+P++      K +Ka+iL +++eY+ksLq
  Seita.9G067200.1.p 236 VHNLSERRRRDRINEKMRALQELIPHC-----NKTDKASILDETIEYLKSLQ 282
                         6*************************8.....6******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000836.83E-18228286No hitNo description
SuperFamilySSF474596.8E-21230296IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.482232281IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.1E-21236291IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000102.0E-14236282IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.3E-17238287IPR011598Myc-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: 429 aa     Download sequence    Send to blast
MDGNARPAAN QRKPIVTDDD LVELLWHNGG VVAQPQAHQR PAPSERLDSS GLTDEETAAW  60
FPDTLDDSLE KDLYTQLWYS TIADAAPHHG GTLPGPSSQP PPPPPELAHP ARPPVGSSGV  120
ESSWAGDICS TFCGSNQVPM TPAGINRGKD AALQSEVPRG AGAHDGAGAG TSSSGGSGSN  180
YGGSGLPSDS GRVQKKMGRC RDDSDSQSED AECEATEETK SSRRCGTKRR TRAAEVHNLS  240
ERRRRDRINE KMRALQELIP HCNKTDKASI LDETIEYLKS LQMQVQIMWM TSGMAPMMFP  300
GAHQFMPPMA LGMTSACIPA AQGLNQMPRV VPYMNLPLPN HIPLNSSPAM NPMNSLSVSN  360
QMQNVHLREA SNHFIHPDGR QTVVPQVPGT HVYGPEIPQA EHNRVLEVPA STVVPTSSAG  420
QPHTYGGV*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1227244KRRTRAAEVHNLSERRRR
2240245ERRRRD
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapSeita.9G067200.1.p
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_004981539.10.0transcription factor PIF4 isoform X1
RefseqXP_004981540.10.0transcription factor PIF4 isoform X1
RefseqXP_012704121.10.0transcription factor PIF4 isoform X1
SwissprotQ10CH51e-166PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBLK4AAB20.0K4AAB2_SETIT; Uncharacterized protein
STRINGSi035818m0.0(Setaria italica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP31743482
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G20180.12e-35phytochrome interacting factor 3-like 5
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]