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 Pahal.I01475.1
Organism
Panicum hallii
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; Panicinae; Panicum
Family bHLH
Protein Properties Length: 421aa    MW: 44755.8 Da    PI: 6.4519
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Pahal.I01475.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH53.83.4e-17228274455
                     HHHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
             HLH   4 ahnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                      hn  ErrRRdriN+++  L+el+P++      K +Ka+iL +++eY+ksLq
  Pahal.I01475.1 228 VHNLSERRRRDRINEKMRALQELIPHC-----NKTDKASILDETIEYLKSLQ 274
                     6*************************8.....6******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
CDDcd000833.75E-18220278No hitNo description
SuperFamilySSF474591.14E-20222288IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088818.482224273IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000101.9E-14228274IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.6E-20228282IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003532.7E-18230279IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009585Biological Processred, far-red light phototransduction
GO:0009693Biological Processethylene biosynthetic process
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:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 421 aa     Download sequence    Send to blast
MDSNARPAVN QKKPIVTDDD LVELLWHNGS VVAQAQAHLR PAPSDRSGSS GLTGEETAAW  60
FPDTLDDALE KDLYTQLWYS SIVDAAPHHG DTLPGPSSPP PPPELAHPVT PPVGSSGVES  120
SWAGDICSTF CGSNQVPRTP AGVNRGKDAS LQSEVPRGAG PGTSSSGGSG SNYGGSGLPS  180
DSGHVQKGKG MCRDDSDSRS EDAECEATEE AKSSRRCGTK RRTRAAEVHN LSERRRRDRI  240
NEKMRALQEL IPHCNKTDKA SILDETIEYL KSLQIQVQIM WMTSGMAPMM FPGAHQFMSP  300
MALGMNSACI PAAQGLSQMP RVPYMNLSLP NHIPLNSSPA MNPINSPSAA NQMQNVHLRE  360
ASNHFLHPGG GQTATPQVPG THAYGPEIPQ AEQHNRILEV PASTVAPTSM SGQPRTYGGA  420
*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1219236KRRTRAAEVHNLSERRRR
2232237ERRRRD
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
MP00082ChIP-seqTransfer from AT3G59060Download
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_025793215.10.0transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like
RefseqXP_025793216.10.0transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like
RefseqXP_025793217.10.0transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13-like
SwissprotQ10CH51e-161PIL13_ORYSJ; Transcription factor PHYTOCHROME INTERACTING FACTOR-LIKE 13
TrEMBLA0A2T8I0D10.0A0A2T8I0D1_9POAL; Uncharacterized protein
STRINGPavir.Ia00490.1.p0.0(Panicum virgatum)
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
AT3G59060.12e-36phytochrome 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]