PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Glyma.19G038100.1.p
Common NameGLYMA_19G038100, LOC100796379
Organism
Glycine max
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja
Family MYB
Protein Properties Length: 337aa    MW: 37944.7 Da    PI: 7.1941
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Glyma.19G038100.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding49.11.3e-152269148
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
      Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                         +g W++eEde+l+++    G g+W+ Iar  g+ R++k+c++rw +yl
  Glyma.19G038100.1.p 22 KGLWSPEEDEKLLRYMITKGQGCWSDIARNAGLQRCGKSCRLRWINYL 69
                         678*******************************************97 PP
2Myb_DNA-binding49.97.2e-1675119147
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
      Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                          rg+++++E+e +++++  lG++ W+ Ia++++ gRt++++k++w++ 
  Glyma.19G038100.1.p  75 RGAFSPQEEEVIIHLHSILGNR-WSQIAARLP-GRTDNEIKNFWNST 119
                          89********************.*********.***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.1421769IPR017930Myb domain
SuperFamilySSF466893.63E-2820116IPR009057Homeodomain-like
SMARTSM007178.1E-132171IPR001005SANT/Myb domain
PfamPF002494.4E-142269IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.604.4E-232376IPR009057Homeodomain-like
CDDcd001672.39E-112569No hitNo description
PROSITE profilePS5129425.6370124IPR017930Myb domain
SMARTSM007172.0E-1574122IPR001005SANT/Myb domain
PfamPF002493.0E-1475119IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.604.8E-2677124IPR009057Homeodomain-like
CDDcd001674.29E-1177120No hitNo description
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: 337 aa     Download sequence    Send to blast
MRKPDMMGKD KINNNIKSKL RKGLWSPEED EKLLRYMITK GQGCWSDIAR NAGLQRCGKS  60
CRLRWINYLR PDLKRGAFSP QEEEVIIHLH SILGNRWSQI AARLPGRTDN EIKNFWNSTL  120
KKRLKMNNNN STLSPNNSDS SGPKDVNVMG GIMSMNEHDL MTMCMDSSSS TSSSSCMQSM  180
HATNMVLTNP FPLLPNNRYD MMTGATGFLD NMAAACLTQV GMVDHDHGVV HGTLEPNKTR  240
LGSDFSLPPL ESRSIEDNSS TPIDHVKSHN NNNHFKNSCF NNTDHYHHIQ SSNNVVVEDL  300
FGFGNHGQGE NFRMGEWDLE GLMQDISYFP SLDFQV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-27201245108B-MYB
Search in ModeBase
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1119125LKKRLKM
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
Cis-element ? help Back to Top
SourceLink
PlantRegMapGlyma.19G038100.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC2358810.0AC235881.2 Glycine max clone GM_WBc0011H22, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_003555035.20.0transcription factor MYB83
RefseqXP_028217804.10.0transcription factor MYB83-like
SwissprotQ9C6U11e-81MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A0B2RG480.0A0A0B2RG48_GLYSO; Transcription factor MYB46
TrEMBLI1N6I20.0I1N6I2_SOYBN; Uncharacterized protein
STRINGGLYMA19G05080.10.0(Glycine max)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF77434128
Representative plantOGRP5171784
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08500.11e-70myb 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]