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 Solyc06g005330.2.1
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
Protein Properties Length: 237aa    MW: 27881.6 Da    PI: 9.2869
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc06g005330.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding41.92.3e-13855148
                        TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
     Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                        +g+W ++Ed++l+ +v++lG ++W+  a+  g++Rt+k+c++rw +yl
  Solyc06g005330.2.1  8 KGPWMEQEDLQLAFYVNLLGDRRWDFLAKVSGLRRTGKSCRLRWVNYL 55
                        79********************************************97 PP
2Myb_DNA-binding53.36.5e-1761106148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
     Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48 
                         rg++T++E+ l+++++ ++G++ W++Iar++  gRt++++k++w++++
  Solyc06g005330.2.1  61 RGKMTPQEERLILELHSKWGNR-WSRIAREVS-GRTDNEIKNYWRTHM 106
                         89********************.*********.************986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129411.348355IPR017930Myb domain
SuperFamilySSF466894.67E-266102IPR009057Homeodomain-like
SMARTSM007172.4E-9757IPR001005SANT/Myb domain
PfamPF002493.1E-12855IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.608.6E-19962IPR009057Homeodomain-like
CDDcd001671.07E-51055No hitNo description
PROSITE profilePS5129426.59456110IPR017930Myb domain
SMARTSM007174.8E-1660108IPR001005SANT/Myb domain
PfamPF002492.5E-1561105IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.8E-2363109IPR009057Homeodomain-like
CDDcd001673.35E-1063106No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009751Biological Processresponse to salicylic acid
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 237 aa     Download sequence    Send to blast
MAQEAMRKGP WMEQEDLQLA FYVNLLGDRR WDFLAKVSGL RRTGKSCRLR WVNYLHPGLK  60
RGKMTPQEER LILELHSKWG NRWSRIAREV SGRTDNEIKN YWRTHMRKKA QDERKLKKAS  120
SIISPSSSFS NTSSFSSNSP DVDFTPIMKN NERNFYDTGG LQKKVVDHDK GKNMKVYSMD  180
DIWKDIELSE ENETKSTKQI MSSPIWDYCP NTLWMADDQE ENKMFPMFYC LDNQDI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1gv2_A3e-2481104105MYB PROTO-ONCOGENE PROTEIN
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Mainly expressed in leaves and seedlings, and to a lower extent, in roots, stems and inflorescences. Isoform MYB48-1, isoform MYB48-3 and isoform MYB48-4 are present in all of these organs, but isoform MYB48-2 is confined to leaves. {ECO:0000269|PubMed:16531467}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor. {ECO:0000305}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc06g005330.2.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By salicylic acid (SA). {ECO:0000269|PubMed:16463103}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019069701.11e-178transcription factor MYB48-like
SwissprotQ9LX822e-73MYB48_ARATH; Transcription factor MYB48
TrEMBLA0A3Q7GNQ51e-177A0A3Q7GNQ5_SOLLC; Uncharacterized protein
STRINGSolyc06g005330.2.11e-177(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA12242154
Representative plantOGRP5171784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G46130.11e-74myb domain protein 48
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]
  3. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  4. Nishida S,Kakei Y,Shimada Y,Fujiwara T
    Genome-wide analysis of specific alterations in transcript structure and accumulation caused by nutrient deficiencies in Arabidopsis thaliana.
    Plant J., 2017. 91(4): p. 741-753
    [PMID:28586097]
  5. Imran QM, et al.
    Transcriptome profile of NO-induced Arabidopsis transcription factor genes suggests their putative regulatory role in multiple biological processes.
    Sci Rep, 2018. 8(1): p. 771
    [PMID:29335449]