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 RrC49_p8
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: 549aa    MW: 62576.1 Da    PI: 5.1971
Description bHLH family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC49_p8genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1HLH39.31.1e-12311354755
               HHHHHHHHHHHHHHHHHHCTSCCC...TTS-STCHHHHHHHHHHHHHHH CS
       HLH   7 erErrRRdriNsafeeLrellPkaskapskKlsKaeiLekAveYIksLq 55 
                +ErrRR+++N+++  Lr+l+P       +Kl+ a+iL  A++Y+k+Lq
  RrC49_p8 311 HAERRRRKKLNDRLYALRSLVPRI-----TKLDRASILGDAINYVKELQ 354
               68*********************7.....7******************9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PfamPF142152.3E-1910151IPR025610Transcription factor MYC/MYB N-terminal
CDDcd000832.94E-14303356No hitNo description
PROSITE profilePS5088816.247304353IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SuperFamilySSF474592.36E-17306369IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
SMARTSM003537.7E-16310359IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
PfamPF000103.0E-10311354IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene3DG3DSA:4.10.280.102.0E-16312367IPR011598Myc-type, basic helix-loop-helix (bHLH) domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0048657Biological Processanther wall tapetum cell differentiation
GO:0003677Molecular FunctionDNA binding
GO:0046983Molecular Functionprotein dimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 549 aa     Download sequence    Send to blast
MENNMQILLE KLRPLVGARA WDYCVLWRLN EDQRFLKWMG CCCGGTLLLI EENETEEFSF  60
RGCRDVMFHH LRTKSCEFLA HLPSSIPLDS GIYAETLLTN QTGWLTESSE PGFMQETICT  120
RVLVPIPGGL VELFATRHVA EDQNVVDFVM NMLMDGTVTI NMMVADEVES KPYGMLPGEI  180
HQKGSSKDEE MIMNLQSPYD ISADQIRLNF LPQMNDYESQ QHLKMKSGYD HHQDLGPYLA  240
ENGNNMNPFN TVGEEGVGEP SLLVKEQQVA NDKEMNHENA TGSECSDQID DEDDPKCKKK  300
TGKHTQAKNL HAERRRRKKL NDRLYALRSL VPRITKLDRA SILGDAINYV KELQNEAKEL  360
QDELEENSET EDGSNRQQVG MSLNGTVVTG FHPGLLCNSN VPGLKQDPQV DVAQLDGREF  420
FVKVICEYKP GGFTRLMEAL DSLGLEVTNA NTTRFLSLVS NVFKVEKTDS EMVPAEHVRN  480
SLLEITRNTS RGWHDDQMAT ASMQNEKNEV DYQHYDDHHH HGGHHQLHDH QMNQSAHHHH  540
QHINHYQNQ
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5gnj_A2e-12302366273Transcription factor MYC2
5gnj_B2e-12302366273Transcription factor MYC2
5gnj_E2e-12302366273Transcription factor MYC2
5gnj_F2e-12302366273Transcription factor MYC2
5gnj_G2e-12302366273Transcription factor MYC2
5gnj_I2e-12302366273Transcription factor MYC2
5gnj_M2e-12302366273Transcription factor MYC2
5gnj_N2e-12302366273Transcription factor MYC2
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1297318KKKTGKHTQAKNLHAERRRRKK
2312319ERRRRKKL
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}.
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_018492422.10.0PREDICTED: transcription factor ABORTED MICROSPORES-like
RefseqXP_018492423.10.0PREDICTED: transcription factor ABORTED MICROSPORES-like
RefseqXP_018492424.10.0PREDICTED: transcription factor ABORTED MICROSPORES-like
RefseqXP_018492425.10.0PREDICTED: transcription factor ABORTED MICROSPORES-like
SwissprotQ9ZVX20.0AMS_ARATH; Transcription factor ABORTED MICROSPORES
TrEMBLQ84WX10.0Q84WX1_BRANA; BHLH transcription factor
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]