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 Solyc05g053090.1.1
Common NameLOC101246721
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: 744aa    MW: 83807.1 Da    PI: 6.4174
Description GRAS family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc05g053090.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1GRAS382.45.5e-1173707401374
                GRAS   1 lvelLlecAeavssgdlelaqalLarlselaspdgdpmqRlaayfteALaarlarsvselykalppsetseknsseelaalklfsevsPil 91 
                         l++lL+ cA+av+ g+++ a++lL++++e +sp gd mqRla+yf+ +L+ar+a+s++++ykal +++ s    +++l+a++l+  ++P+ 
  Solyc05g053090.1.1 370 LRTLLTLCAQAVAVGNQRTANELLKKIRESSSPMGDGMQRLAHYFADGLEARMAGSGTHIYKALITRPVS---AADVLKAYHLLLAACPFR 457
                         5789***************************************************************999...9***************** PP

                GRAS  92 kfshltaNqaIleavegeervHiiDfdisqGlQWpaLlqaLasRpegppslRiTgvgspesg..skeeleetgerLakfAeelgvpfefnv 180
                         ++s +  N++I++ +e++++vHiiD++i+ G+QWp L+q LasRp+gpp+lRiTg++ p++g   +e++eetg+rLa++Ae+++vpfefn+
  Solyc05g053090.1.1 458 TMSSFFSNKTIMNLAEKASTVHIIDIGIMWGFQWPGLIQRLASRPGGPPKLRITGIDFPNPGfrPAERVEETGRRLANYAESFKVPFEFNA 548
                         *************************************************************9***************************** PP

                GRAS 181 lvakrledleleeLrvkpgEalaVnlvlqlhrlldesvsleserdevLklvkslsPkvvvvveqeadhnsesFlerflealeyysalfdsl 271
                          +a+++e+++le+L++++gE+l+Vn+ ++  +llde+v ++s+rd +L+l+++l+P+v+++   +  +n++ F  rf eal +ys+lfd+l
  Solyc05g053090.1.1 549 -IAQKWETVKLEDLKINKGEVLVVNCLYRFRNLLDETVVVNSPRDVFLNLIRRLNPDVFILGTVNGGYNAPFFISRFREALFHYSSLFDML 638
                         .7***************************************************************************************** PP

                GRAS 272 eaklpreseerikvErellgreivnvvacegaerrerhetlekWrerleeaGFkpvplsekaakqaklllrkvksdgyrveeesgslvlgW 362
                         e+ +pre +er+ vE+ ++g+e++n++acegaer+er et+++W+ r+ +aGF+++pl+e+++       + ++++ + ++ +s++l++gW
  Solyc05g053090.1.1 639 ETIIPREVHERMLVEKNIIGQEAMNAIACEGAERIERPETYKQWQVRILKAGFRQLPLDEEIMRMTTERFKVYDKN-FIIDVDSEWLLQGW 728
                         ********************************************************************99999955.************** PP

                GRAS 363 kdrpLvsvSaWr 374
                         k+r   ++S+W+
  Solyc05g053090.1.1 729 KGRIASALSMWK 740
                         ***********8 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5098567.97344721IPR005202Transcription factor GRAS
PfamPF035141.9E-114370740IPR005202Transcription 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: 744 aa     Download sequence    Send to blast
MGQYHEAGSA VKLEDEDCSF FADPNLINNL RVNDYFHDDY DPNLINNLRV SDNLVNISSP  60
FQSDVERNAL VPLTADDFHE DYDFSDGVLK YINQMLMEED IEEKTCMFQE SAALQAAERS  120
FYEVIGEKYP SSTNHEKSST LGQIERYAMG HCSGNDGRDG LLGPNWILDL GEDDVSHVPD  180
DVALDSTSRS SNSLSGTVPD VPVDSPVSTL RIPDIFSGGE SVMQFKKGVE EASKFLPTGN  240
SLLADVRYHV VGKELRYKER KDAVVKVDKY GEKRYTERSR GKKNTFHEDI VDLTEGRNNK  300
QSAVFSESTV RSEMFDRVLL CSAGKNESAL REALQAISRQ NASKNGPSKG SNGKKLQRKK  360
KGGKRDVVDL RTLLTLCAQA VAVGNQRTAN ELLKKIRESS SPMGDGMQRL AHYFADGLEA  420
RMAGSGTHIY KALITRPVSA ADVLKAYHLL LAACPFRTMS SFFSNKTIMN LAEKASTVHI  480
IDIGIMWGFQ WPGLIQRLAS RPGGPPKLRI TGIDFPNPGF RPAERVEETG RRLANYAESF  540
KVPFEFNAIA QKWETVKLED LKINKGEVLV VNCLYRFRNL LDETVVVNSP RDVFLNLIRR  600
LNPDVFILGT VNGGYNAPFF ISRFREALFH YSSLFDMLET IIPREVHERM LVEKNIIGQE  660
AMNAIACEGA ERIERPETYK QWQVRILKAG FRQLPLDEEI MRMTTERFKV YDKNFIIDVD  720
SEWLLQGWKG RIASALSMWK AAY*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
5b3g_A5e-5237773926378Protein SCARECROW
5b3h_A4e-5237773925377Protein SCARECROW
5b3h_D4e-5237773925377Protein SCARECROW
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in roots, shoots, flowers and siliques. {ECO:0000269|PubMed:10341448, ECO:0000269|PubMed:18500650}.
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor involved in plant development. {ECO:0000250}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc05g053090.1.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankBT0142760.0Lycopersicon esculentum clone 133506R, mRNA sequence
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004239904.10.0scarecrow-like protein 14
RefseqXP_010321430.10.0scarecrow-like protein 14
SwissprotQ9XE580.0SCL14_ARATH; Scarecrow-like protein 14
TrEMBLA0A3Q7GJU10.0A0A3Q7GJU1_SOLLC; Uncharacterized protein
STRINGSolyc05g053090.1.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA27624191
Representative plantOGRP26615129
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G07530.10.0SCARECROW-like 14
Publications ? help Back to Top
  1. 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]
  2. 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]