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 Rsa1.0_01100.1_g00006.1
Organism
Raphanus sativus
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: 573aa    MW: 65226.6 Da    PI: 4.9888
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01100.1_g00006.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH39.11.3e-12318361755
                              HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
                      HLH   7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                               +ErrRR+++N+++  Lr+l+P       +Kl+ a+iL  A++Y+k+Lq
  Rsa1.0_01100.1_g00006.1 318 LAERRRRKKLNDRLYALRSLVPRI-----TKLDRASILGDAINYVKELQ 361
                              68*********************7.....7******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142151.2E-1711149IPR025610Transcription factor MYC/MYB N-terminal
CDDcd000831.77E-14310363No hitNo description
PROSITE profilePS5088816.488311360IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474592.22E-17314376IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003535.0E-16317366IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000103.3E-10318361IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.101.3E-16318374IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009555Biological Processpollen development
GO:0048658Biological Processanther wall tapetum development
GO:0005634Cellular Componentnucleus
GO:0000978Molecular FunctionRNA polymerase II core promoter proximal region sequence-specific DNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 573 aa     Download sequence    Send to blast
MESSSMQNLL EKLRPLVGAR AWDYCVLWRL NEDQRFVKWM GCCCGGTQLI EENGTEGFSF  60
EGCRDVMFHH PRTKSCDFLA HLPSSIPLDS GIYAETLLTN QTGWLSESSE PGFMQETICT  120
RVLIPIPGGL VELFATRHVA EDQNVVDFVM GNCNMLMDET VTINMMVADE VESKPYGMLS  180
GDIHQKGSKD EEMMNLTSPY DISTDQMRLN FLPQMSEYDA QQQLKVKSDY HHHQDLGYLP  240
ENGSKEMMGM NPFSTEDGMS VMGEPSLLVN EQQVANDKEM NENGRLDTGS DCSDQIDDED  300
DPKYKKKTGK HSQAKNLLAE RRRRKKLNDR LYALRSLVPR ITKLDRASIL GDAINYVKEL  360
QNEAKELQDE LEENSETEDG SNRQQVGMSL NGTVVTGFHP GLSCNSNVPN LKQDVDLENA  420
NDKGQEMEPQ VDVAQLDGRE FFVKVICEYK PGGFTRLMEA LDSLGLEVTN ANTTRFLSLV  480
SNVFKVEKTD SEMVPAEHVR NSLLEITRNT SRGWHDDQMA TGSMQNEKNE VDYQHYDDHH  540
HHGDHHHLHD PQMNHSAHHH HHHHHQHINH YQN
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1304325KKKTGKHSQAKNLLAERRRRKK
2319326ERRRRKKL
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor. Plays a crucial role in tapetum development. Required for male fertility and pollen differentiation, especially during the post-meiotic transcriptional regulation of microspore development within the developing anther (PubMed:12535353). Binds E-box regions in the AHL16/TEK promoter. {ECO:0000269|PubMed:12535353, ECO:0000269|PubMed:24804694}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01100.1_g00006.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ5119910.0AJ511991.1 Brassica napus mRNA for bHLH transcription factor.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018437310.10.0PREDICTED: transcription factor ABORTED MICROSPORES
RefseqXP_018437311.10.0PREDICTED: transcription factor ABORTED MICROSPORES
RefseqXP_018437312.10.0PREDICTED: transcription factor ABORTED MICROSPORES
SwissprotQ9ZVX20.0AMS_ARATH; Transcription factor ABORTED MICROSPORES
TrEMBLA0A078H1S90.0A0A078H1S9_BRANA; BnaA07g03340D protein
STRINGBra002004.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM75892741
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G16910.10.0bHLH family protein
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. Jiang J,Zhang Z,Cao J
    Pollen wall development: the associated enzymes and metabolic pathways.
    Plant Biol (Stuttg), 2013. 15(2): p. 249-63
    [PMID:23252839]
  3. Xu J, et al.
    ABORTED MICROSPORES Acts as a Master Regulator of Pollen Wall Formation in Arabidopsis.
    Plant Cell, 2014. 26(4): p. 1544-1556
    [PMID:24781116]
  4. Qian H, et al.
    Trace concentrations of imazethapyr (IM) affect floral organs development and reproduction in Arabidopsis thaliana: IM-induced inhibition of key genes regulating anther and pollen biosynthesis.
    Ecotoxicology, 2015. 24(1): p. 163-71
    [PMID:25348600]
  5. Xiong SX, et al.
    The transcription factors MS188 and AMS form a complex to activate the expression of CYP703A2 for sporopollenin biosynthesis in Arabidopsis thaliana.
    Plant J., 2016. 88(6): p. 936-946
    [PMID:27460657]
  6. Ferguson AC, et al.
    Biphasic regulation of the transcription factor ABORTED MICROSPORES (AMS) is essential for tapetum and pollen development in Arabidopsis.
    New Phytol., 2017. 213(2): p. 778-790
    [PMID:27787905]
  7. Lou Y, et al.
    Positive regulation of AMS by TDF1 and the formation of a TDF1-AMS complex are required for anther development in Arabidopsis thaliana.
    New Phytol., 2018. 217(1): p. 378-391
    [PMID:28940573]
  8. Bi H,Fan W,Zhang P
    C4 Protein of Sweet Potato Leaf Curl Virus Regulates Brassinosteroid Signaling Pathway through Interaction with AtBIN2 and Affects Male Fertility in Arabidopsis.
    Front Plant Sci, 2017. 8: p. 1689
    [PMID:29021807]