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 Solyc12g005340.1.1
Common NameLOC101055602
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: 559aa    MW: 62408.8 Da    PI: 5.768
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc12g005340.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS414.11.2e-1261885571373
                GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPil 91 
                         l++lL++cA+a+++++l   + l+a+ +  +s +gdp+qRl ay++e+L ar   s++++y++l+++e +    ++ ++++ +++e++P+l
  Solyc12g005340.1.1 188 LKQLLIACARALAENKLDDFEILVAKARSVVSVTGDPIQRLGAYIVEGLVARKELSGTTIYRSLKCKEPA---GKDLFSYMYILYEICPYL 275
                         689***************************************************9**************9...99999999********** PP

                GRAS  92 kfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnv 180
                         kf++++aN aI+ea  +e+r+HiiDf+i qG+QW++LlqaLa+Rp+g+p +RiTg+++p s+  + + l ++++rL+ + ee+++ +ef++
  Solyc12g005340.1.1 276 KFGYMAANGAIVEACRNEDRIHIIDFQIAQGTQWMTLLQALAARPGGAPYVRITGIDDPVSQyaRGDGLAAVARRLSAISEEFNIAVEFHA 366
                         ***********************************************************999999************************** PP

                GRAS 181 lvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsl 271
                          v     +++ ++L+v+pgEalaVn+ lqlh+++desv+++++rd +++++kslsPk+v++veqe+++n+++Fl rf+eal+yy a+f+s+
  Solyc12g005340.1.1 367 -VPVFAPEITWDMLDVRPGEALAVNFPLQLHHTPDESVDVNNPRDGLIRMIKSLSPKIVTLVEQESNTNTAPFLPRFVEALDYYHAMFESI 456
                         .68889999********************************************************************************** PP

                GRAS 272 eaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgW 362
                         +++l r+ +eri+vE+++l+r+ivnv+aceg+er+erhe l+kW++r+++aGF+++pls+++++ +k l+++++ + y++ e++g+++lgW
  Solyc12g005340.1.1 457 DVTLLRDMKERINVEQHCLARDIVNVIACEGKERVERHELLGKWKSRFMMAGFQQYPLSSYVNSVIKDLMKRYS-EHYTLVEKDGAMLLGW 546
                         **************************************************************************.55************** PP

                GRAS 363 kdrpLvsvSaW 373
                         k+r+Lvs+SaW
  Solyc12g005340.1.1 547 KERNLVSASAW 557
                         *********** PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098564.055162539IPR005202Transcription factor GRAS
PfamPF035144.2E-124188557IPR005202Transcription factor GRAS
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 559 aa     Download sequence    Send to blast
MDSHHLVAYG VTGSDLSYSS CPTVSPLENR PFGTSKFDSG NSPLVNYFNS ETFNTVSDYQ  60
EQPSCTENLS GASSSSGSSL DYNQYFHRPS PSEDHLPEAP YSRNMKHTLL QLESALMGPD  120
KEAMKSSPYL GENMGAQTSG QRYKAWNKEA QVVRHQQSVV SILNGIQSDK RDNVMEDLPL  180
QGVPSSNLKQ LLIACARALA ENKLDDFEIL VAKARSVVSV TGDPIQRLGA YIVEGLVARK  240
ELSGTTIYRS LKCKEPAGKD LFSYMYILYE ICPYLKFGYM AANGAIVEAC RNEDRIHIID  300
FQIAQGTQWM TLLQALAARP GGAPYVRITG IDDPVSQYAR GDGLAAVARR LSAISEEFNI  360
AVEFHAVPVF APEITWDMLD VRPGEALAVN FPLQLHHTPD ESVDVNNPRD GLIRMIKSLS  420
PKIVTLVEQE SNTNTAPFLP RFVEALDYYH AMFESIDVTL LRDMKERINV EQHCLARDIV  480
NVIACEGKER VERHELLGKW KSRFMMAGFQ QYPLSSYVNS VIKDLMKRYS EHYTLVEKDG  540
AMLLGWKERN LVSASAWF*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5hyz_A7e-641855571374GRAS family transcription factor containing protein, expressed
Search in ModeBase
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.190180.0callus| flower| fruit| leaf| root
Functional Description ? help Back to Top
Source Description
UniProtMay play a regulatory role in the early step of oligosaccharide elicitor response, downstream of the membrane-associated high-affinity chitin-binding protein. {ECO:0000269|PubMed:12591613}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc12g005340.1.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By oligosaccharide elicitor (N-Acetylchitooligosaccharide) extracted from the rice blast fungus (M.grisea) cell wall. Strongest induction by chitin oligomer with greater degree of polymerization (heptamer). By inoculation of M.grisea in rice cell suspension culture. {ECO:0000269|PubMed:12591613}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankGQ2612450.0Solanum lycopersicum cultivar Rio Grande PtoR Hop-interacting protein THI039 mRNA, complete cds
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001266225.10.0Hop-interacting protein THI039
RefseqXP_010313625.10.0hop-interacting protein THI039 isoform X1
SwissprotQ69VG10.0CIGR1_ORYSJ; Chitin-inducible gibberellin-responsive protein 1
TrEMBLG8Z2670.0G8Z267_SOLLC; Hop-interacting protein THI039
STRINGSolyc12g005340.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA34412448
Representative plantOGRP8948915
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G48150.21e-174GRAS family protein
Publications ? help Back to Top
  1. Day RB, et al.
    Two rice GRAS family genes responsive to N -acetylchitooligosaccharide elicitor are induced by phytoactive gibberellins: evidence for cross-talk between elicitor and gibberellin signaling in rice cells.
    Plant Mol. Biol., 2004. 54(2): p. 261-72
    [PMID:15159627]
  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]