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 Sopen03g028980.1
Organism
Solanum pennellii
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: 245aa    MW: 29017.2 Da    PI: 8.7092
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Sopen03g028980.1genomespennView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding56.46.9e-18449147
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
   Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                      rg W + Ede+l ++v+++G+++W++Ia  ++ gR++k+c++rw++ 
  Sopen03g028980.1  4 RGHWRPHEDEKLRELVAKYGPHNWNAIALNLQ-GRSGKSCRLRWYNQ 49
                      899*****************************.************96 PP
2Myb_DNA-binding551.8e-175699146
                      TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
   Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                      r ++T+eE+e+l+  ++ +G++ W+ Iar ++ gRt++ +k++w+ 
  Sopen03g028980.1 56 RSPFTEEEEERLLSSHRIHGNR-WAMIARLFP-GRTDNAVKNHWHV 99
                      789*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129419.795150IPR017930Myb domain
SMARTSM007177.2E-16352IPR001005SANT/Myb domain
PfamPF002494.9E-17450IPR001005SANT/Myb domain
SuperFamilySSF466891.14E-29497IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.602.4E-26557IPR009057Homeodomain-like
CDDcd001675.05E-14748No hitNo description
PROSITE profilePS5129426.33151105IPR017930Myb domain
SMARTSM007175.8E-1555103IPR001005SANT/Myb domain
PfamPF002495.6E-145698IPR001005SANT/Myb domain
CDDcd001674.03E-65898No hitNo description
Gene3DG3DSA:1.10.10.602.8E-2158104IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0009737Biological Processresponse to abscisic acid
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 245 aa     Download sequence    Send to blast
MCSRGHWRPH EDEKLRELVA KYGPHNWNAI ALNLQGRSGK SCRLRWYNQL DPRINRSPFT  60
EEEEERLLSS HRIHGNRWAM IARLFPGRTD NAVKNHWHVI MSRKCRERSK IYSNRAAQKQ  120
DHNNNMRKNY IDHQQLLETY QFTTTYNSFY PKELHFNHMI NPRRFNIDQD KNEEVECYDF  180
LQVNNNNNNT AGSNKSEVID HIAIRRGTDE EVEQENGCDN NNNISSQTKK APVRFIDFLS  240
VGDSS
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-3441057108B-MYB
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that confers sensitivity to abscisic acid (ABA) and salt, but tolerance to drought (PubMed:21399993). Regulates secondary cell wall (SCW) biosynthesis, especially in interfascicular and xylary fibers (PubMed:18952777, PubMed:23781226). {ECO:0000269|PubMed:18952777, ECO:0000269|PubMed:21399993, ECO:0000269|PubMed:23781226}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00145DAPTransfer from AT1G17950Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By abscisic acid (PubMed:16463103, PubMed:21399993). Accumulates in response to salt (PubMed:21399993). Triggered by MYB46 and MYB83 in the regulation of secondary cell wall biosynthesis (PubMed:19674407, PubMed:22197883). {ECO:0000269|PubMed:16463103, ECO:0000269|PubMed:19674407, ECO:0000269|PubMed:21399993, ECO:0000269|PubMed:22197883}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHG9754420.0HG975442.1 Solanum pennellii chromosome ch03, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015069303.10.0transcription factor MYB54-like isoform X2
SwissprotQ6R0C43e-76MYB52_ARATH; Transcription factor MYB52
TrEMBLM1D2B81e-156M1D2B8_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000797141e-157(Solanum tuberosum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G17950.13e-73myb domain protein 52
Publications ? help Back to Top
  1. 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]
  2. Cassan-Wang H, et al.
    Identification of novel transcription factors regulating secondary cell wall formation in Arabidopsis.
    Front Plant Sci, 2013. 4: p. 189
    [PMID:23781226]
  3. Shi D, et al.
    MYB52 Negatively Regulates Pectin Demethylesterification in Seed Coat Mucilage.
    Plant Physiol., 2018. 176(4): p. 2737-2749
    [PMID:29440562]