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 Solyc07g066250.1.1
Common Namels
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 GRAS
Protein Properties Length: 429aa    MW: 48519.9 Da    PI: 7.605
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc07g066250.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS437.51e-133504282374
                GRAS   2 velLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlar.svselykalppsetsekn..sseelaalkl....fs 85 
                         ++lL++cAe +s++d+++a++lL+ ls+++sp gd+++Rl++ ft+AL+ rl+r  +s++ + ++p et++++  ss++la  +     ++
  Solyc07g066250.1.1  50 RQLLISCAELISQSDFSAAKRLLTILSTNSSPFGDSTERLVHQFTRALSLRLNRyISSTTNHFMTPVETTPTDssSSSSLALIQSsylsLN 140
                         89****************************************************55555666668888887775533333333335668** PP

                GRAS  86 evsPilkfshltaNqaIleavege.ervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesgskeeleetgerLakfAeelgvp 175
                         +v+P+++f++ltaNqaIlea++g+ +++Hi+Dfdi++G+QWp+L+qaLa+R  ++p+lRiTg g+    + ++l++tg+rLakfA++lg++
  Solyc07g066250.1.1 141 QVTPFIRFTQLTANQAILEAINGNhQAIHIVDFDINHGVQWPPLMQALADR-YPAPTLRITGTGN----DLDTLRRTGDRLAKFAHSLGLR 226
                         ***********************9899***********************9.899**********....********************** PP

                GRAS 176 fefnvl.vakrledl.....eleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflea 260
                         f+f++l +a++ +d       ++++ + p+E+la+n+v+ lhrll+++ +l+     +L+ vks++Pk+v+++e+ea+hn++ Fl+rf+ea
  Solyc07g066250.1.1 227 FQFHPLyIANNNHDHdedpsIISSIVLLPDETLAINCVFYLHRLLKDREKLRI----FLHRVKSMNPKIVTIAEKEANHNHPLFLQRFIEA 313
                         ******73333333322222356667778****************99999999....********************************** PP

                GRAS 261 leyysalfdsleaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvk.sdgyr 350
                         l+yy+a+fdslea+lp+ s+er++vE++++greiv++va+eg++r+erhe++++W+ +l+++GF++v+ls +a +qaklllr ++ s+gy+
  Solyc07g066250.1.1 314 LDYYTAVFDSLEATLPPGSRERMTVEQVWFGREIVDIVAMEGDKRKERHERFRSWEVMLRSCGFSNVALSPFALSQAKLLLRLHYpSEGYQ 404
                         ******************************************************************************************* PP

                GRAS 351 veeesgslvlgWkdrpLvsvSaWr 374
                         +  +s+s++lgW+++pL+s+S+Wr
  Solyc07g066250.1.1 405 LGVSSNSFFLGWQNQPLFSISSWR 428
                         ***********************8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098562.36523407IPR005202Transcription factor GRAS
PfamPF035143.4E-13150428IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010014Biological Processmeristem initiation
GO:0010223Biological Processsecondary shoot formation
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Plant Ontology ? help Back to Top
PO Term PO Category PO Description
PO:0000003anatomywhole plant
PO:0009006anatomyshoot system
PO:0009059anatomycorolla
Sequence ? help Back to Top
Protein Sequence    Length: 429 aa     Download sequence    Send to blast
MLGSFGSSSS QSHPHHDEES SDHHQQRRFT ATATTITTTT ITTSPAIQIR QLLISCAELI  60
SQSDFSAAKR LLTILSTNSS PFGDSTERLV HQFTRALSLR LNRYISSTTN HFMTPVETTP  120
TDSSSSSSLA LIQSSYLSLN QVTPFIRFTQ LTANQAILEA INGNHQAIHI VDFDINHGVQ  180
WPPLMQALAD RYPAPTLRIT GTGNDLDTLR RTGDRLAKFA HSLGLRFQFH PLYIANNNHD  240
HDEDPSIISS IVLLPDETLA INCVFYLHRL LKDREKLRIF LHRVKSMNPK IVTIAEKEAN  300
HNHPLFLQRF IEALDYYTAV FDSLEATLPP GSRERMTVEQ VWFGREIVDI VAMEGDKRKE  360
RHERFRSWEV MLRSCGFSNV ALSPFALSQA KLLLRLHYPS EGYQLGVSSN SFFLGWQNQP  420
LFSISSWR*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3h_A1e-615642725377Protein SCARECROW
5b3h_D1e-615642725377Protein SCARECROW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Expressed in the axils of leaf primordia and leaves from P1 to P20/22. In the axil of P1, expressed in 3 to 5 cell layers including the L1 to L3 layers of the shoot apical meristem (SAM). Then, extends from 1 or 2 cell layers in the adaxial-abaxial dimension. From P5 to P22, expression is restricted to a 1 to 2 cell-layer domain located within primordium. In the axils of older leaf primordia, expression decreases until it is no longer detectable in the axils of primordia older than P20/P22. {ECO:0000269|PubMed:12730136}.
UniprotTISSUE SPECIFICITY: Expressed in roots and flowers. {ECO:0000269|PubMed:18500650}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor required for axillary (lateral) shoot meristem formation during vegetative development. Seems to act upstream of REVOLUTA. {ECO:0000269|PubMed:12730136}.
Function -- GeneRIF ? help Back to Top
  1. Initiation of ectopic meristems is dependent on the activities of the transcriptional regulators Goblet (Gob) and Lateral suppressor (Ls), specifically expressed in the distal (DLB) leaflet boundaries.
    [PMID: 25641652]
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc07g066250.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC1875390.0Solanum lycopersicum cv. Heinz 1706, chromosome 7 BAC clone C07HBa0179K09, complete sequence
GenBankAF0986740.0Lycopersicon esculentum lateral suppressor protein (Ls) mRNA, complete cds
GenBankAJ3033450.0Lycopersicon esculentum lateral suppressor gene, ORF1 and ORF2
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001234179.10.0lateral suppressor protein
SwissprotQ9ZWC51e-132SCL18_ARATH; Scarecrow-like protein 18
TrEMBLQ9ZSP20.0Q9ZSP2_SOLLC; Lateral suppressor
STRINGSolyc07g066250.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA112982225
Representative plantOGRP54911421
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G55580.11e-128GRAS family protein
Publications ? help Back to Top
  1. Rossberg M, et al.
    Comparative sequence analysis reveals extensive microcolinearity in the lateral suppressor regions of the tomato, Arabidopsis, and Capsella genomes.
    Plant Cell, 2001. 13(4): p. 979-88
    [PMID:11283350]
  2. 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]
  3. Rossmann S,Kohlen W,Hasson A,Theres K
    Lateral suppressor and Goblet act in hierarchical order to regulate ectopic meristem formation at the base of tomato leaflets.
    Plant J., 2015. 81(6): p. 837-48
    [PMID:25641652]
  4. Zhang B, et al.
    Novel function of a putative MOC1 ortholog associated with spikelet number per spike in common wheat.
    Sci Rep, 2015. 5: p. 12211
    [PMID:26197925]
  5. Schumacher K,Schmitt T,Rossberg M,Schmitz G,Theres K
    The Lateral suppressor (Ls) gene of tomato encodes a new member of the VHIID protein family.
    Proc. Natl. Acad. Sci. U.S.A., 1999. 96(1): p. 290-5
    [PMID:9874811]