PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_00064.1_g00024.1
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family bHLH
Protein Properties Length: 384aa    MW: 43189.7 Da    PI: 9.2351
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00064.1_g00024.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH33.57.5e-11208252554
                              HHHHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHH CS
                      HLH   5 hnerErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksL 54 
                              h+  Er+RR++i +++  L++llP++      K++K++ L +A++Y++ L
  Rsa1.0_00064.1_g00024.1 208 HKLSERKRRHEISKKMRALQDLLPNC-----YKNDKVSLLDEAIKYMRTL 252
                              9999*********************8.....6***************998 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.103.3E-15200263IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000831.33E-11201257No hitNo description
SuperFamilySSF474591.2E-16201273IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088815.491203252IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000102.0E-8208252IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003532.9E-11209258IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 384 aa     Download sequence    Send to blast
MISPSSSFKP TLNDQDYMEL VCENGQILAK SRKTNNNGYF QNKRTQSILD LYETEYDESF  60
KKNIKNLEET QVVPVSDEHT NNKKRTRSSK NELERDLLKG NKRFESPTLN DGSLKGLQNV  120
EAITTPDEQS TAVGRSTKLY FKPSSILSRG TSRDLSCSLK KRKHGDNEEE ETTYLSNSSD  180
DESDDAKTRV PARTRKTMAK RKRSTEIHKL SERKRRHEIS KKMRALQDLL PNCYKNDKVS  240
LLDEAIKYMR TLRLQVQMMS MGNGVIQPSM MLPMGNYFPM GLGMHMGAAT TTTSAPQFMP  300
MNVQGTAFHG INNASSHMLS AFLNHPTGLI PDSPIFSPLE SCSQHLVAPS CFPETQATSL  360
SQFPMSASTS NFEDAMQFRG SSGY
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1200215RKRSTEIHKLSERKRR
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor. Involved in responses to transient and long-term shade. Required for the light-mediated inhibition of hypocotyl elongation. Necessary for rapid light-induced expression of the photomorphogenesis- and circadian-related gene APRR9. Seems to play a role in multiple PHYB responses, such as flowering transition and petiole elongation. {ECO:0000269|PubMed:14668869, ECO:0000269|PubMed:16565297, ECO:0000269|PubMed:16891401}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00064.1_g00024.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Expressed with a circadian rhythm showing peaks during the light period. Up-regulated by simulated shade in light-grown plants, in a phytochrome-dependent manner; low red/far-red ratio (R/FR) light, but repressed by a high R/FR light. Rapidly down-regulated after seedling deetiolation. {ECO:0000269|PubMed:14668869, ECO:0000269|PubMed:16565297, ECO:0000269|PubMed:16891401}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013690489.10.0transcription factor PIL1-like
RefseqXP_013690491.10.0transcription factor PIL1-like
SwissprotQ8L5W80.0PIL1_ARATH; Transcription factor PIL1
TrEMBLA0A397ZC340.0A0A397ZC34_BRACM; Uncharacterized protein
STRINGBra004489.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM139371725
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G46970.10.0phytochrome interacting factor 3-like 1
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. Luo Q, et al.
    COP1 and phyB Physically Interact with PIL1 to Regulate Its Stability and Photomorphogenic Development in Arabidopsis.
    Plant Cell, 2014. 26(6): p. 2441-2456
    [PMID:24951480]
  3. Kasulin L, et al.
    A single haplotype hyposensitive to light and requiring strong vernalization dominates Arabidopsis thaliana populations in Patagonia, Argentina.
    Mol. Ecol., 2017. 26(13): p. 3389-3404
    [PMID:28316114]