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 Solyc10g052470.1.1
Common Namefsm1
Organism
Solanum lycopersicum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family MYB_related
Protein Properties Length: 89aa    MW: 9801.92 Da    PI: 9.8658
Description MYB_related family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc10g052470.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding30.11.1e-091256244
                        SSS-HHHHHHHHHHHHHTTTT...-HHHHHHHHTTTS-HHHHHHHH CS
     Myb_DNA-binding  2 grWTteEdellvdavkqlGgg...tWktIartmgkgRtlkqcksrw 44
                        g+WT+   + + +a + + ++   +W+ +a+ +g g+t++++k ++
  Solyc10g052470.1.1 12 GSWTAKQNKAFEKALAVYDKEtrdRWSNVAKAVG-GKTAEEVKRHY 56
                        89******************9*************.**********9 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
Gene3DG3DSA:1.10.10.609.7E-6761IPR009057Homeodomain-like
PROSITE profilePS512939.084964IPR017884SANT domain
SMARTSM007171.3E-81062IPR001005SANT/Myb domain
PfamPF002492.4E-71256IPR001005SANT/Myb domain
SuperFamilySSF466894.34E-131268IPR009057Homeodomain-like
CDDcd001673.79E-71460No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 89 aa     Download sequence    Send to blast
MSSMSSQHGS SGSWTAKQNK AFEKALAVYD KETRDRWSNV AKAVGGKTAE EVKRHYEILL  60
RDVFFIDNGM VPFPKYKTTG GSHNSTSD*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
2cjj_A4e-35482179RADIALIS
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Early expressed at stage two (plastochrons 7 and 8), when the floral meristem comprised a loaf-shaped bulge of cells. Expression was in the dorsal region of the floral meristem. At stage four, when sepal primordia had emerged around the meristem dome, expression could be seen in the dorsal sepal primordium. At stage five, expressed in emerging dorsal primordia of whorls two and three. In older flower buds (stages seven and eight), expression was found mainly in the dorsal petals and staminode. {ECO:0000269|PubMed:15790677}.
UniprotTISSUE SPECIFICITY: Specifically expressed in the dorsal region of developing flowers. {ECO:0000269|PubMed:15790677}.
Functional Description ? help Back to Top
Source Description
UniProtInvolved in the dorsovental asymmetry of flowers. Promotes dorsal identity. {ECO:0000269|PubMed:15790677}.
Function -- GeneRIF ? help Back to Top
  1. FSM1/FSB1/MYBI complex controls tomato cell expansion, while revealing a mechanism by which competing MYB-MYB interactions could participate in the control of gene expression.
    [PMID: 21707804]
  2. There was strong genotype-dependent suppression of tomato morphogenesis-regulating transcription factor SANT/HTH-Myb (SlMyb) due to viroid pathogenesis.
    [PMID: 26118459]
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc10g052470.1.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Up-regulated by both CYC and DICH. {ECO:0000269|PubMed:15790677, ECO:0000269|PubMed:16236768}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAJ2779441e-149Lycopersicon esculentum mRNA for SANT/MYB domain protein (fsm1 gene)
GenBankAJ5836701e-149Lycopersicon esculentum fsm1 gene for SANT/MYB protein, exons 1-2
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001233849.11e-60SANT/MYB domain protein
RefseqXP_015055159.11e-60protein RADIALIS-like 1
SwissprotQ58FS37e-35RAD_ANTMA; Transcription factor RADIALIS
TrEMBLQ9LEG42e-59Q9LEG4_SOLLC; SANT/MYB domain protein
STRINGSolyc10g052470.1.14e-60(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA20224231
Representative plantOGRP3471298
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G39250.12e-35RAD-like 1
Publications ? help Back to Top
  1. Barg R, et al.
    The tomato early fruit specific gene Lefsm1 defines a novel class of plant-specific SANT/MYB domain proteins.
    Planta, 2005. 221(2): p. 197-211
    [PMID:15599593]
  2. Corley SB,Carpenter R,Copsey L,Coen E
    Floral asymmetry involves an interplay between TCP and MYB transcription factors in Antirrhinum.
    Proc. Natl. Acad. Sci. U.S.A., 2005. 102(14): p. 5068-73
    [PMID:15790677]
  3. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  4. Costa MM,Fox S,Hanna AI,Baxter C,Coen E
    Evolution of regulatory interactions controlling floral asymmetry.
    Development, 2005. 132(22): p. 5093-101
    [PMID:16236768]
  5. Stevenson CE, et al.
    Crystallization and preliminary X-ray analysis of the RAD protein from Antirrhinum majus.
    Acta Crystallogr. Sect. F Struct. Biol. Cryst. Commun., 2005. 61(Pt 10): p. 885-8
    [PMID:16511186]
  6. Stevenson CE, et al.
    Crystal structure of the MYB domain of the RAD transcription factor from Antirrhinum majus.
    Proteins, 2006. 65(4): p. 1041-5
    [PMID:17044043]
  7. Machemer K, et al.
    Interplay of MYB factors in differential cell expansion, and consequences for tomato fruit development.
    Plant J., 2011. 68(2): p. 337-50
    [PMID:21707804]
  8. MatouĊĦek J, et al.
    Expression of SANT/HTH Myb mRNA, a plant morphogenesis-regulating transcription factor, changes due to viroid infection.
    J. Plant Physiol., 2015. 183: p. 85-94
    [PMID:26118459]