PlantTFDB
Plant Transcription Factor Database
PlantRegMap/PlantTFDB v5.0
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Rsa1.0_02627.1_g00002.1
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: 414aa    MW: 46699.4 Da    PI: 9.2035
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_02627.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH34.73.2e-11235280555
                              HHHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHHH CS
                      HLH   5 hnerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksLq 55 
                              h+  Er+RR++i +++  L++llP+        K +K++ L +A++Y++ Lq
  Rsa1.0_02627.1_g00002.1 235 HKLSERKRRNEISKKMRALQDLLPNvY------KDDKVSLLDEAIKYMRTLQ 280
                              999**********************55......******************9 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:4.10.280.106.6E-16227299IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000835.36E-12227284No hitNo description
SuperFamilySSF474597.85E-16228301IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PROSITE profilePS5088814.805230279IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000108.0E-9235280IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003534.6E-10236285IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009641Biological Processshade avoidance
GO:0010017Biological Processred or far-red light signaling pathway
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 414 aa     Download sequence    Send to blast
MGKTPYASLS QPNVISPSSS FKPKLSDQDY MELVCENGQI FAKSRRPNNN GYFQSQRTQS  60
LLDLYETEYD EDFKKNIKNL GDSQVVPGSE PQHPQQDEET DEQTNDNNNK KKKKIKPSKT  120
ESERNIWKRN KRSESSKLMN DSLKGLKNIE VTTAPPDEQS VAVGRSRELY IASSSRGTSK  180
DLNCCSLKKR KYGDMEEEES TYLRNSDNGS DDARIRVTAT TRKTVAKRKR STEGHKLSER  240
KRRNEISKKM RALQDLLPNV YKDDKVSLLD EAIKYMRTLQ LQVQMMSMGN GMISSTSSML  300
PMGHYSPMGL GMHMGTATTT TSVQPFLPMN VQGTSCFPWI NDASSQMLRT FLNHPTGLIP  360
NSPIFSPLES CSQQFVVPSC FPDETHSTSF TQFSKFASTS NLEDAMQLRG SNGY
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1227242RKRSTEGHKLSERKRR
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_02627.1_g00002.1
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_009133793.10.0PREDICTED: transcription factor PIL1-like
SwissprotQ8L5W80.0PIL1_ARATH; Transcription factor PIL1
TrEMBLM4C8A80.0M4C8A8_BRARP; Uncharacterized protein
STRINGBra000436.1-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
AT2G46970.11e-179phytochrome 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]