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 GSVIVT01008484001
Common NameLOC100257738, VIT_17s0000g01890
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: 222aa    MW: 26007.2 Da    PI: 8.1591
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSVIVT01008484001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding59.76.5e-19449147
                       TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
    Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                       rg W + Ede+l ++v+++G+++W++Ia++++ gR++k+c++rw++ 
  GSVIVT01008484001  4 RGHWRPAEDEKLRELVERHGPHNWNAIAEKLP-GRSGKSCRLRWFNQ 49
                       899*****************************.***********996 PP
2Myb_DNA-binding54.72.3e-175799246
                       SSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
    Myb_DNA-binding  2 grWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46
                        ++T+eE+e+l+  ++ +G++ W+ Iar ++ gRt++ +k++w+ 
  GSVIVT01008484001 57 APFTEEEEERLLASHRIHGNR-WAVIARLFP-GRTDNAVKNHWHV 99
                       68*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129426.444154IPR017930Myb domain
SMARTSM007174.3E-16352IPR001005SANT/Myb domain
PfamPF002491.3E-18449IPR001005SANT/Myb domain
SuperFamilySSF466893.74E-30497IPR009057Homeodomain-like
Gene3DG3DSA:1.10.10.604.7E-28557IPR009057Homeodomain-like
CDDcd001677.20E-14748No hitNo description
SMARTSM007173.6E-1555103IPR001005SANT/Myb domain
PROSITE profilePS5129420.57155105IPR017930Myb domain
PfamPF002492.7E-145798IPR001005SANT/Myb domain
CDDcd001674.69E-115898No hitNo description
Gene3DG3DSA:1.10.10.601.1E-2058104IPR009057Homeodomain-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: 222 aa     Download sequence    Send to blast
MCTRGHWRPA EDEKLRELVE RHGPHNWNAI AEKLPGRSGK SCRLRWFNQL DPRINRAPFT  60
EEEEERLLAS HRIHGNRWAV IARLFPGRTD NAVKNHWHVI MARRCREKSK FYAKRAAQSW  120
INERKSISKP DRQQMIGCDT RNLSSYVENC YENMIHCTKM LEDRTQPVEF YDFLNVNTDS  180
NRSEVIDHAR RDDEEVEQEA MDHQSKAGVP FIDFLSVGSS S*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A6e-3221055108B-MYB
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in stamen (PubMed:19325888). Present in roots and siliques, and, at low levels, in leaves and flowers (PubMed:21399993). Expressed in stems, especially in fibers and, at lower levels, in xylems (PubMed:18952777, PubMed:21399993). {ECO:0000269|PubMed:18952777, ECO:0000269|PubMed:19325888, ECO:0000269|PubMed:21399993}.
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
GenBankAM4827220.0AM482722.2 Vitis vinifera contig VV78X134816.19, whole genome shotgun sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002279279.11e-167PREDICTED: transcriptional activator Myb
SwissprotQ6R0C44e-84MYB52_ARATH; Transcription factor MYB52
TrEMBLD7SGT61e-165D7SGT6_VITVI; Uncharacterized protein
STRINGVIT_17s0000g01890.t011e-166(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
AT1G17950.12e-86myb 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]