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 GSVIVT01025269001
Common NameLOC100243210, VIT_06s0004g02110
Organism
Vitis vinifera
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; rosids incertae sedis; Vitales; Vitaceae; Vitis
Family MYB
Protein Properties Length: 326aa    MW: 35850.3 Da    PI: 5.0601
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01025269001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding45.61.6e-142572148
                       TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
    Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                       +g W++eEd++l ++    G g+W+ +ar  g+ R++k+c++rw +yl
  GSVIVT01025269001 25 KGLWSPEEDDKLMNYMLNNGQGCWSDVARNAGLQRCGKSCRLRWINYL 72
                       678*******************************************97 PP
2Myb_DNA-binding52.41.2e-1678121146
                        TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
    Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                        rg+++++E+el+++++ +lG++ W+ Ia++++ gRt++++k++w++
  GSVIVT01025269001  78 RGAFSPQEEELIIHLHSLLGNR-WSQIAARLP-GRTDNEIKNFWNS 121
                        89********************.*********.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129415.6612072IPR017930Myb domain
SuperFamilySSF466898.98E-2823119IPR009057Homeodomain-like
SMARTSM007171.3E-92474IPR001005SANT/Myb domain
PfamPF002493.0E-132572IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.1E-222679IPR009057Homeodomain-like
CDDcd001672.59E-82872No hitNo description
PROSITE profilePS5129425.91873127IPR017930Myb domain
SMARTSM007174.9E-1677125IPR001005SANT/Myb domain
PfamPF002492.0E-1578121IPR001005SANT/Myb domain
CDDcd001671.19E-1180120No hitNo description
Gene3DG3DSA:1.10.10.603.9E-2680128IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 326 aa     Download sequence    Send to blast
MRKPEKSTAN GACSNTTSTG SKLRKGLWSP EEDDKLMNYM LNNGQGCWSD VARNAGLQRC  60
GKSCRLRWIN YLRPDLKRGA FSPQEEELII HLHSLLGNRW SQIAARLPGR TDNEIKNFWN  120
STIKKRLKNS SSVPSPNASD SSSDQPRDVM GGLMSMREQG LMAMYMDSSS SPPSIQAMAA  180
LNQMIEPLPM LEPSVDMTSV NSGCFNAPPC MTQVGILSAE GLYGDHVGLL GGGGGCVVGE  240
QFFPPVESIS MGENGNKTLE NTFDRNPNNN PYNNVIINNN SSNKVENMVG VGNFWEGEDL  300
RIGEWNLEDL MRDVSSFPFL DFHVE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A5e-27231275108B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed specifically in fiber and vessel cells that are undergoing secondary wall thickening in floral stems. Expressed in vessels but not in xylary fibers in the developing secondary xylem of roots. {ECO:0000269|PubMed:19808805}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that acts as molecular switch in the NAC012/SND1-mediated transcriptional network regulating secondary wall biosynthesis. Is directly activated by NAC012/SND1 and its close homologs, including NAC043/NST1, NAC066/NST2, NAC101/VND6 and NAC030/VND7. Is required for functional expression of a number of secondary wall-associated transcription factors and secondary wall biosynthetic genes involved in cellulose, xylan and lignin synthesis. Functions redundantly with MYB46 in the transcriptional regulatory cascade leading to secondary wall formation in fibers and vessels (PubMed:19808805). Transcription activator that binds to the DNA consensus sequence 5'-ACC[AT]A[AC][TC]-3', designated as the secondary wall MYB-responsive element (SMRE). Regulates directly numerous transcription factors and a number of genes involved in secondary wall biosynthesis that contain SMRE elements in their promoters (PubMed:22197883). {ECO:0000269|PubMed:19808805, ECO:0000269|PubMed:22197883}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00336DAPTransfer from AT3G08500Download
Motif logo
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM4646400.0AM464640.1 Vitis vinifera, whole genome shotgun sequence, contig VV78X066854.17, clone ENTAV 115.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002282821.10.0PREDICTED: transcription factor MYB46
SwissprotQ9C6U19e-80MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A438HLY10.0A0A438HLY1_VITVI; Transcription factor MYB83
TrEMBLD7SL500.0D7SL50_VITVI; Uncharacterized protein
STRINGVIT_06s0004g02110.t010.0(Vitis vinifera)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP5171784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08500.11e-65myb domain protein 83
Publications ? help Back to Top
  1. Vargas L, et al.
    Improving total saccharification yield of Arabidopsis plants by vessel-specific complementation of caffeoyl shikimate esterase (cse) mutants.
    Biotechnol Biofuels, 2016. 9: p. 139
    [PMID:27390589]
  2. Piya S,Kihm C,Rice JH,Baum TJ,Hewezi T
    Cooperative Regulatory Functions of miR858 and MYB83 during Cyst Nematode Parasitism.
    Plant Physiol., 2017. 174(3): p. 1897-1912
    [PMID:28512179]