PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc07g054960.1.1
Common NameLOC101257982
Organism
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: 217aa    MW: 25672.6 Da    PI: 7.7313
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc07g054960.1.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding50.45.2e-161461148
                        TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
     Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                        rg+W+++Ed +l   ++++G ++W+  +++ g+ R++k+c++rw +yl
  Solyc07g054960.1.1 14 RGAWSEDEDNKLRAFIQKFGHPNWRQLPKYAGLMRCGKSCRLRWMNYL 61
                        89********************************************97 PP

2Myb_DNA-binding55.31.5e-1767111147
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
     Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                         +g+ + eE++l+++++++lG++ W+ Ia++++ gR+++++k++w+ +
  Solyc07g054960.1.1  67 KGNYSHEEEQLIIKLHNKLGNR-WSEIAAKLP-GRSDNDVKNHWHAH 111
                         7899******************.*********.***********976 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129416.934961IPR017930Myb domain
SuperFamilySSF466891.16E-2911108IPR009057Homeodomain-like
SMARTSM007172.3E-121363IPR001005SANT/Myb domain
PfamPF002492.5E-141461IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.6E-211568IPR009057Homeodomain-like
CDDcd001676.66E-101661No hitNo description
PROSITE profilePS5129424.92562116IPR017930Myb domain
SMARTSM007174.3E-1766114IPR001005SANT/Myb domain
PfamPF002493.0E-1667111IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.604.6E-2569115IPR009057Homeodomain-like
CDDcd001671.54E-1169112No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 217 aa     Download sequence    Send to blast
MVRTPFIDKN GIKRGAWSED EDNKLRAFIQ KFGHPNWRQL PKYAGLMRCG KSCRLRWMNY  60
LRPGLKKGNY SHEEEQLIIK LHNKLGNRWS EIAAKLPGRS DNDVKNHWHA HLKKRPRLTN  120
TYSSTSEQFT ESSQFDSQNH DQQSYEDGYN LSNTINGMDW IEENNNHIKT MEQLSSINNT  180
LVEQSLPNNF QIETFDFNFW SEPLFDDFWT QSFFFQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-26141157107B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: In nonelongating internodes, highly expressed in interfascicular fibers and xylem cells but not in parenchymatous pith cells. In elongating internodes, predominantly expressed in protoxylem vessels. {ECO:0000269|PubMed:19122102}.
UniprotTISSUE SPECIFICITY: Expressed in leaves (PubMed:9839469). Specifically expressed in fibers and vessels undergoing secondary wall thickening, especially in inflorescence stems (PubMed:19122102). {ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:9839469}.
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator that binds DNA to the AC cis-elements 5'-ACCTACC-3', 5'-ACCAACC-3' and 5'-ACCTAAC-3' of promoters and specifically activates lignin biosynthetic genes during secondary wall formation mediated by SND1. {ECO:0000269|PubMed:19122102}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapSolyc07g054960.1.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Slightly induced by light (PubMed:9839469). Regulated by the SND1 close homologs NST1, NST2, VND6, and VND7 and their downstream targets MYB46 and MYB83 (PubMed:19122102, PubMed:22197883). {ECO:0000269|PubMed:19122102, ECO:0000269|PubMed:22197883, ECO:0000269|PubMed:9839469}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2448042e-08Solanum lycopersicum strain Heinz 1706 chromosome 10 clone hba-74b18 map 10, complete sequence
GenBankL412532e-08Lycopersicon esculentum Hsc70 (Hsc70) gene, complete cds
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_015160634.11e-140PREDICTED: myb-related protein Myb4-like
SwissprotQ9SA474e-54MYB58_ARATH; Transcription factor MYB58
TrEMBLA0A3Q7HD521e-161A0A3Q7HD52_SOLLC; Uncharacterized protein
STRINGSolyc07g054960.1.11e-162(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
AT1G79180.12e-55myb domain protein 63
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. Fernández-Pérez F,Vivar T,Pomar F,Pedreño MA,Novo-Uzal E
    Peroxidase 4 is involved in syringyl lignin formation in Arabidopsis thaliana.
    J. Plant Physiol., 2015. 175: p. 86-94
    [PMID:25506770]
  3. Noda S, et al.
    The expression of a rice secondary wall-specific cellulose synthase gene, OsCesA7, is directly regulated by a rice transcription factor, OsMYB58/63.
    Planta, 2015. 242(3): p. 589-600
    [PMID:26070439]
  4. Takeuchi M,Kegasa T,Watanabe A,Tamura M,Tsutsumi Y
    Expression analysis of transporter genes for screening candidate monolignol transporters using Arabidopsis thaliana cell suspensions during tracheary element differentiation.
    J. Plant Res., 2018. 131(2): p. 297-305
    [PMID:28921082]