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 Sobic.001G183100.1.p
Organism
Sorghum bicolor
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Andropogonodae; Andropogoneae; Sorghinae; Sorghum
Family MYB
Protein Properties Length: 458aa    MW: 48826.3 Da    PI: 6.6406
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sobic.001G183100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding48.52.1e-154491148
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
       Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                          +g+WT+ Ed  l d v+ +G g+W+++ r+ g+ R++k+c++rw ++l
  Sobic.001G183100.1.p 44 KGPWTAAEDAMLMDHVRHHGEGNWNAVQRMTGLLRCGKSCRLRWTNHL 91
                          79******************************99***********996 PP
2Myb_DNA-binding51.13e-1697140146
                           TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
       Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                           +g+++++E++l++++++qlG++ W++ a++++ gRt++++k++w++
  Sobic.001G183100.1.p  97 KGSFSPDEELLIAQLHAQLGNK-WARMAAHLP-GRTDNEIKNYWNT 140
                           799*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129413.6293991IPR017930Myb domain
SuperFamilySSF466891.65E-2843138IPR009057Homeodomain-like
SMARTSM007174.5E-134393IPR001005SANT/Myb domain
PfamPF002491.2E-134491IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.605.7E-214598IPR009057Homeodomain-like
CDDcd001672.49E-104691No hitNo description
PROSITE profilePS5129422.71792146IPR017930Myb domain
SMARTSM007171.3E-1496144IPR001005SANT/Myb domain
PfamPF002493.2E-1597140IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.1E-2499145IPR009057Homeodomain-like
CDDcd001677.37E-1199140No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 458 aa     Download sequence    Send to blast
MEKSPGAAPT TSSPEEEEVA AEGHAHAEDV TDQEEERTPV VLKKGPWTAA EDAMLMDHVR  60
HHGEGNWNAV QRMTGLLRCG KSCRLRWTNH LRPNLKKGSF SPDEELLIAQ LHAQLGNKWA  120
RMAAHLPGRT DNEIKNYWNT RTKRRQRAGL PVYPPEVQLH LALSKRCRYD DFSPLSGTTN  180
VQALGAAASS AGYASSRPAP LDLARQLAVP NQQTVQFLSP APFSAPSSPW AKPFARNAQY  240
FQLAHSSPVS PSTPTGPMHP ATPDLSLGYG VRSAADQSRL PPLSPSPGPR VELPSNQYAQ  300
PTPPTSAAAA TSTGLGGGVA LPDHQNAASL EKMLQELHDV IKVDPPPALV PANGGVGSAA  360
MERHDGGVPE NNRFSGVQHR VDNDMDTLFG LVHPALSAPE TVPPAAASNH SGSTSQHSSD  420
DQNPSTVDLH VAGGTSSSDQ DWGLDGVCQW SNMSRIC*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1h8a_C1e-274214525127MYB TRANSFORMING PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In germinating seeds, present in the root tip and in a linear array of up to 20 to 30 cells above the root tip. Strongly expressed in the inflorescence apex, and, to some extent, in the inflorescence stem, the vascular tissue, and the vascular tissue in leaf primordia (PubMed:11743113). In flowers, expressed in sepals, style, receptacle, anther filaments, and connective but not in anthers themselves (PubMed:15722475). {ECO:0000269|PubMed:11743113, ECO:0000269|PubMed:15722475}.
UniprotTISSUE SPECIFICITY: Mostly expressed in roots (e.g. root tips), stems, pollen, shoot apices, flowers and floral shoot tips, and, to a lower extent, in leaves and siliques. {ECO:0000269|PubMed:11743113, ECO:0000269|PubMed:15722475, ECO:0000269|PubMed:24278028}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator of alpha-amylase expression that binds to 5'-CAACTGTC-3' motif in target gene promoter (PubMed:11743113). In vegetative tissues, inhibits growth by reducing cell proliferation. Promotes the expression of aleurone-related genes (e.g. CP1, CP, GASA1, BXL1 and BXL2) in seeds. Together with MYB33 and MYB101, promotes the programmed cell death (PCD) the vacuolation of protein storage vacuoles (PSVs) in the aleurone layers during seed germination (PubMed:20699403). Together with MYB33, facilitates anther and tapetum development (PubMed:15722475). {ECO:0000269|PubMed:11743113, ECO:0000269|PubMed:15722475, ECO:0000269|PubMed:20699403}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSobic.001G183100.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Repressed by microRNA159 (miR159a and miR159b) in vegetative tissues (PubMed:20699403, PubMed:17916625, PubMed:15226253). Specific expression in floral organs and in the shoot apices is regulated via miR159-mediated degradation (PubMed:15722475). Slightly induced by ethylene and salicylic acid (PubMed:16463103). {ECO:0000269|PubMed:15226253, ECO:0000269|PubMed:15722475, ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:17916625, ECO:0000269|PubMed:20699403}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0425370.0BT042537.1 Zea mays full-length cDNA clone ZM_BFb0325G13 mRNA, complete cds.
GenBankKJ7275320.0KJ727532.1 Zea mays clone pUT5392 MYB transcription factor (MYB129) mRNA, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002466889.20.0transcription factor MYB65
SwissprotQ9FR979e-64MYB65_ARATH; Transcription factor MYB65
TrEMBLA0A1B6QJM30.0A0A1B6QJM3_SORBI; Uncharacterized protein
STRINGSb01g015920.10.0(Sorghum bicolor)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP74203750
Representative plantOGRP5171784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G32460.22e-65myb domain protein 101
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. Allen RS, et al.
    Genetic analysis reveals functional redundancy and the major target genes of the Arabidopsis miR159 family.
    Proc. Natl. Acad. Sci. U.S.A., 2007. 104(41): p. 16371-6
    [PMID:17916625]
  3. Li J,Reichel M,Millar AA
    Determinants beyond both complementarity and cleavage govern microR159 efficacy in Arabidopsis.
    PLoS Genet., 2014. 10(3): p. e1004232
    [PMID:24626050]
  4. Li Y,Alonso-Peral M,Wong G,Wang MB,Millar AA
    Ubiquitous miR159 repression of MYB33/65 in Arabidopsis rosettes is robust and is not perturbed by a wide range of stresses.
    BMC Plant Biol., 2016. 16(1): p. 179
    [PMID:27542984]
  5. Liu B,De Storme N,Geelen D
    Gibberellin Induces Diploid Pollen Formation by Interfering with Meiotic Cytokinesis.
    Plant Physiol., 2017. 173(1): p. 338-353
    [PMID:27621423]
  6. Zheng Z, et al.
    Target RNA Secondary Structure Is a Major Determinant of miR159 Efficacy.
    Plant Physiol., 2017. 174(3): p. 1764-1778
    [PMID:28515145]
  7. Xue T,Liu Z,Dai X,Xiang F
    Primary root growth in Arabidopsis thaliana is inhibited by the miR159 mediated repression of MYB33, MYB65 and MYB101.
    Plant Sci., 2017. 262: p. 182-189
    [PMID:28716415]
  8. Kim MH, et al.
    Poplar MYB transcription factor PtrMYB012 and its Arabidopsis AtGAMYB orthologs are differentially repressed by the Arabidopsis miR159 family.
    Tree Physiol., 2018. 38(6): p. 801-812
    [PMID:29301041]