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 GSVIVT01032088001
Common NameVIT_13s0064g00960
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: 290aa    MW: 32531.3 Da    PI: 5.0227
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01032088001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding27.95.5e-097361948
                       TTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
    Myb_DNA-binding 19 lGggtWktIartmgkgRtlkqcksrwqkyl 48
                        G g+W+ Iar  g+ R++k+c++rw +yl
  GSVIVT01032088001  7 NGQGCWSDIARNAGLQRCGKSCRLRWINYL 36
                       68889***********************97 PP
2Myb_DNA-binding52.21.4e-164285146
                       TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
    Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                       rg+++++E+el+++++  lG++ W+ Ia++++ gRt++++k++w++
  GSVIVT01032088001 42 RGAFSPQEEELIIHLHSILGNR-WSQIAARLP-GRTDNEIKNFWNS 85
                       89********************.*********.***********97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS512949.96136IPR017930Myb domain
SMARTSM0071768238IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.606.1E-16243IPR009057Homeodomain-like
SuperFamilySSF466892.17E-21583IPR009057Homeodomain-like
PfamPF002495.7E-7636IPR001005SANT/Myb domain
CDDcd001674.35E-4836No hitNo description
PROSITE profilePS5129425.6993791IPR017930Myb domain
SMARTSM007175.3E-164189IPR001005SANT/Myb domain
PfamPF002493.3E-154285IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.605.1E-264492IPR009057Homeodomain-like
CDDcd001672.57E-114484No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0050832Biological Processdefense response to fungus
GO:1901348Biological Processpositive regulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 290 aa     Download sequence    Send to blast
MSYMLRNGQG CWSDIARNAG LQRCGKSCRL RWINYLRPDL KRGAFSPQEE ELIIHLHSIL  60
GNRWSQIAAR LPGRTDNEIK NFWNSTIKKR LKNSLQTHSP NDCHDSSLEP RVVVDNINAM  120
GMGVGGSSGM LLSMHEHEMM NMYMDSSSSS FSSMNTMLTS NHLDNPFPLL DNRHDQMVFS  180
LPNCMAKPEM TDEFDGRYGV TGGGNMGVER EISIPGSQSN STTEENNGAT QNEYYTIDMK  240
NNNSKVEESD NIFGVGNHWQ GENMGIGEWD LEGLLENASS FPFLDFQLQ*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A4e-2219119108B-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}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAM4389150.0AM438915.1 Vitis vinifera contig VV78X120994.4, whole genome shotgun sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002275467.20.0PREDICTED: transcription factor MYB46
SwissprotQ9C6U11e-68MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A438J1L70.0A0A438J1L7_VITVI; Transcription factor MYB83
TrEMBLD7T3010.0D7T301_VITVI; Uncharacterized protein
STRINGVIT_13s0064g00960.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
AT5G12870.13e-59myb domain protein 46
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]