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 RrC4363_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 MYB
Protein Properties Length: 237aa    MW: 27319.7 Da    PI: 8.7794
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4363_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding53.45.9e-171865148
                     TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                     +g WT eEd +l+d+v+ +G+g W++I r+ g++R++k+c++rw +yl
       RrC4363_p1 18 KGLWTVEEDNILIDYVQAHGTGLWNRIVRKTGLKRCGKSCRLRWINYL 65
                     678*******************************************97 PP
2Myb_DNA-binding57.23.9e-1871124148
                      TSSS-HHHHHHHHHHHHHTTTT.......-HHHHHHHHTTTS-HHHHHHHHHHHT CS
  Myb_DNA-binding   1 rgrWTteEdellvdavkqlGgg.......tWktIartmgkgRtlkqcksrwqkyl 48 
                      +g++T++E++l+++++k+lG+        +W++Ia++++ gRt++q+k++w+++l
       RrC4363_p1  71 KGNFTEQEEDLIIRLHKLLGNSmifsfqsRWSLIAKRVP-GRTDNQVKNHWNTHL 124
                      79*************************************.************996 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.7591365IPR017930Myb domain
SuperFamilySSF466891.06E-2716120IPR009057Homeodomain-like
SMARTSM007174.9E-141767IPR001005SANT/Myb domain
PfamPF002494.6E-151865IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.607.5E-231972IPR009057Homeodomain-like
CDDcd001672.81E-112165No hitNo description
PROSITE profilePS5129422.48666128IPR017930Myb domain
SMARTSM007172.0E-1470126IPR001005SANT/Myb domain
PfamPF002495.6E-1771124IPR001005SANT/Myb domain
CDDcd001676.73E-1373124No hitNo description
Gene3DG3DSA:1.10.10.604.7E-2473127IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 237 aa     Download sequence    Send to blast
MRMRRRSEER ENHQEYKKGL WTVEEDNILI DYVQAHGTGL WNRIVRKTGL KRCGKSCRLR  60
WINYLSPTVN KGNFTEQEED LIIRLHKLLG NSMIFSFQSR WSLIAKRVPG RTDNQVKNHW  120
NTHLSKKFVG DYSSAVKTTG EDNSPASLLI SAATASNRQH QQDKICAKSF DGLVPASYEK  180
LTHSDVVLGN TNHPSLDFKE RNNFDGSNAF WFNEDDFELV SSFAMMDFAS SDIGYYL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A3e-26181287108B-MYB
1h8a_C3e-261512824128MYB TRANSFORMING PROTEIN
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator, when associated with BHLH2/EGL3/MYC146 or BHLH12/MYC1. Involved in epidermal cell fate specification in leaves. Together with TTG1 and GL3, promotes trichome formation and endoreplication. Regulates the production of a signal that induces hair (trichome) precursor cells on leaf primordia to differentiate. Binds to the WER-binding sites (WBS) promoter regions and activates the transcription of target genes (By similarity). {ECO:0000250, ECO:0000269|PubMed:11063707, ECO:0000269|PubMed:12356720, ECO:0000269|PubMed:15361138, ECO:0000269|PubMed:15728674, ECO:0000269|PubMed:9625690}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by gibberellins (PubMed:9625690). May be regulated by GEBP and GEBP-like proteins (PubMed:12535344). {ECO:0000269|PubMed:12535344, ECO:0000269|PubMed:9625690}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB7473460.0AB747346.1 Raphanus sativus var. niger RsGL1a gene for glabrous 1, complete cds, strain: Ra38 DH line.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018455252.11e-161PREDICTED: trichome differentiation protein GL1-like
SwissprotP279001e-110GL1_ARATH; Trichome differentiation protein GL1
TrEMBLK0J1B01e-156K0J1B0_RAPSA; Glabrous 1
STRINGBra025311.1-P1e-123(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM4282646
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G27920.11e-108myb domain protein 0
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  2. Nayidu NK, et al.
    Comparison of five major trichome regulatory genes in Brassica villosa with orthologues within the Brassicaceae.
    PLoS ONE, 2014. 9(4): p. e95877
    [PMID:24755905]
  3. Sun L, et al.
    GLABROUS INFLORESCENCE STEMS3 (GIS3) regulates trichome initiation and development in Arabidopsis.
    New Phytol., 2015. 206(1): p. 220-30
    [PMID:25640859]
  4. Yu D, et al.
    RPN1a, a subunit of the 26S proteasome, controls trichome development in Arabidopsis.
    Plant Physiol. Biochem., 2015. 88: p. 82-8
    [PMID:25676129]
  5. Huang M,Hu Y,Liu X,Li Y,Hou X
    Arabidopsis LEAFY COTYLEDON1 controls cell fate determination during post-embryonic development.
    Front Plant Sci, 2015. 6: p. 955
    [PMID:26579186]
  6. Dai X, et al.
    A single amino acid substitution in the R3 domain of GLABRA1 leads to inhibition of trichome formation in Arabidopsis without affecting its interaction with GLABRA3.
    Plant Cell Environ., 2016. 39(4): p. 897-907
    [PMID:26667588]
  7. Zheng K, et al.
    Ectopic expression of R3 MYB transcription factor gene OsTCL1 in Arabidopsis, but not rice, affects trichome and root hair formation.
    Sci Rep, 2016. 6: p. 19254
    [PMID:26758286]
  8. Li Y, et al.
    Two IIIf Clade-bHLHs from Freesia hybrida Play Divergent Roles in Flavonoid Biosynthesis and Trichome Formation when Ectopically Expressed in Arabidopsis.
    Sci Rep, 2016. 6: p. 30514
    [PMID:27465838]
  9. Hegebarth D,Buschhaus C,Wu M,Bird D,Jetter R
    The composition of surface wax on trichomes of Arabidopsis thaliana differs from wax on other epidermal cells.
    Plant J., 2016. 88(5): p. 762-774
    [PMID:27496682]
  10. Busta L,Hegebarth D,Kroc E,Jetter R
    Changes in cuticular wax coverage and composition on developing Arabidopsis leaves are influenced by wax biosynthesis gene expression levels and trichome density.
    Planta, 2017. 245(2): p. 297-311
    [PMID:27730411]
  11. Maxwell DJ,Partridge JC,Roberts NW,Boonham N,Foster GD
    The effects of surface structure mutations in Arabidopsis thaliana on the polarization of reflections from virus-infected leaves.
    PLoS ONE, 2017. 12(3): p. e0174014
    [PMID:28346494]
  12. García-Cano E,Hak H,Magori S,Lazarowitz SG,Citovsky V
    The Agrobacterium F-Box Protein Effector VirF Destabilizes the Arabidopsis GLABROUS1 Enhancer/Binding Protein-Like Transcription Factor VFP4, a Transcriptional Activator of Defense Response Genes.
    Mol. Plant Microbe Interact., 2018. 31(5): p. 576-586
    [PMID:29264953]
  13. Kim SY,Hyoung S,So WM,Shin JS
    The novel transcription factor TRP interacts with ZFP5, a trichome initiation-related transcription factor, and negatively regulates trichome initiation through gibberellic acid signaling.
    Plant Mol. Biol., 2018. 96(3): p. 315-326
    [PMID:29335898]