PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID RrC13565_p1
Organism
Raphanus raphanistrum
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: 362aa    MW: 40544.4 Da    PI: 4.8499
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC13565_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH38.42.3e-12191234654
                  HHHHHHHHHHHHHHHHHHHCTSCC.C...TTS-STCHHHHHHHHHHHHHH CS
          HLH   6 nerErrRRdriNsafeeLrellPk.askapskKlsKaeiLekAveYIksL 54 
                   ++ErrRR+r+N++++ Lr+++Pk +      K++  +iL  A++Y+k+L
  RrC13565_p1 191 LMAERRRRKRLNDRLSMLRSIVPKiS------KMDRTSILGDAIDYMKEL 234
                  589*********************66......****************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5088815.643185234IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474593.14E-16188252IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000104.6E-10191234IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003531.6E-12191240IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
CDDcd000832.98E-5192234No hitNo description
Gene3DG3DSA:4.10.280.109.5E-17192250IPR011598Myc-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: 362 aa     Download sequence    Send to blast
MELSTQMNVF EELLVQTKQE TTDNINTNIN NMSFSGGFDH HHHHHQQLFP NGWNIDYLCF  60
NNEEEDENTL LYSSSFVDLI SQPPPLLLHQ TPPLPPPSSS SSPPLTSYVA ATFDYPFLEA  120
LQEIIDSSSP SPPLMLPTSQ EDSFINPTSY PSPLIESDQS KSFSVGYCGG GGETTNKKKS  180
KKLEGQPSKN LMAERRRRKR LNDRLSMLRS IVPKISKMDR TSILGDAIDY MKELLDKINK  240
LQDEEQELGN SNGSHHSKLF GNIKDLNTNE PMVRNSPKFE VDRRVVDTRV DICCSPKPGL  300
LLSTVNTLET LGLEIEQCVI SCFSDFSLQA SCSEAAQQRD FVTSEDIKQA LFRNAGYGGN  360
CL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A4e-13186250569Transcription factor MYC2
5gnj_B4e-13186250569Transcription factor MYC2
5gnj_E4e-13186250569Transcription factor MYC2
5gnj_F4e-13186250569Transcription factor MYC2
5gnj_G4e-13186250569Transcription factor MYC2
5gnj_I4e-13186250569Transcription factor MYC2
5gnj_M4e-13186250569Transcription factor MYC2
5gnj_N4e-13186250569Transcription factor MYC2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1176198KKKSKKLEGQPSKNLMAERRRRK
2193200ERRRRKRL
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor. May be involved in the differentiation of stomatal guard cells. {ECO:0000269|PubMed:17088607}.
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_009150653.10.0PREDICTED: transcription factor bHLH93
RefseqXP_013643226.10.0transcription factor bHLH93
SwissprotQ9LSL10.0BH093_ARATH; Transcription factor bHLH93
TrEMBLA0A3P5YIV80.0A0A3P5YIV8_BRACM; Uncharacterized protein
TrEMBLM4E6K00.0M4E6K0_BRARP; Uncharacterized protein
STRINGBra024404.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM20432878
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G65640.11e-176beta HLH protein 93
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Sharma N, et al.
    NO FLOWERING IN SHORT DAY (NFL) is a bHLH transcription factor that promotes flowering specifically under short-day conditions in Arabidopsis.
    Development, 2016. 143(4): p. 682-90
    [PMID:26758694]
  4. Chen YS, et al.
    Two MYB-related transcription factors play opposite roles in sugar signaling in Arabidopsis.
    Plant Mol. Biol., 2017. 93(3): p. 299-311
    [PMID:27866313]
  5. Ezer D, et al.
    The G-Box Transcriptional Regulatory Code in Arabidopsis.
    Plant Physiol., 2017. 175(2): p. 628-640
    [PMID:28864470]