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 Potri.009G061500.1
Common NameMYB20, POPTR_0009s06630g
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family MYB
Protein Properties Length: 334aa    MW: 37711 Da    PI: 5.4384
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.009G061500.1genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding50.83.9e-162572148
                        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
  Potri.009G061500.1 25 KGLWSPEEDEKLIKYMLTNGQGCWSDIARNAGLQRCGKSCRLRWINYL 72
                        678*******************************************97 PP
2Myb_DNA-binding543.8e-1778122147
                         TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
     Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                         rg+++++E+el++++++ lG++ W+ Ia++++ gRt++++k++w++ 
  Potri.009G061500.1  78 RGAFSPQEEELIIHLHTILGNR-WSQIAARLP-GRTDNEIKNFWNST 122
                         89********************.*********.***********986 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129417.5872072IPR017930Myb domain
SuperFamilySSF466891.22E-2823119IPR009057Homeodomain-like
SMARTSM007171.2E-122474IPR001005SANT/Myb domain
PfamPF002491.4E-142572IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.607.7E-242679IPR009057Homeodomain-like
CDDcd001671.65E-102872No hitNo description
PROSITE profilePS5129425.84773127IPR017930Myb domain
SMARTSM007175.3E-1677125IPR001005SANT/Myb domain
PfamPF002496.4E-1578122IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.603.3E-2680127IPR009057Homeodomain-like
CDDcd001673.65E-1180123No 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: 334 aa     Download sequence    Send to blast
MRKPDLVGKD RVPSNSSINK AKLRKGLWSP EEDEKLIKYM LTNGQGCWSD IARNAGLQRC  60
GKSCRLRWIN YLRPDLKRGA FSPQEEELII HLHTILGNRW SQIAARLPGR TDNEIKNFWN  120
STLKKRLKIN NTSTSSPNDS DSSEPRDHAI GNIMPTHDPD TMTLCMDSSS SSSISMQGMI  180
TSNRFDSFSM LNNRYDVTGA ASLFDMSTCL TQVGMGDGFY GDHYGILEAN NKTGLESDLS  240
LPPLESRSFE ENNTVSNNRI GMKSSSNNNN NCFDNTCFDN TCFNNNTDQR FKVEDMLGLE  300
NHWQGENLRM GEWDFEGLME NITSFPLLDF HVE*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A1e-27231275108B-MYB
1h8a_C2e-272312725128MYB TRANSFORMING PROTEIN
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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.009G061500.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF1486760.0KF148676.1 Populus trichocarpa MYB transcription factor (MYB20) mRNA, complete cds.
GenBankKT2613410.0KT261341.1 Fraxinus mandshurica transcription factor MYB2 (MYB2) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002313303.10.0transcription factor MYB83
SwissprotQ9C6U11e-86MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A0S3G5C10.0A0A0S3G5C1_9LAMI; Transcription factor MYB2
TrEMBLB9HNP30.0B9HNP3_POPTR; MYB transcription factor
STRINGPOPTR_0009s06630.10.0(Populus trichocarpa)
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
AT3G08500.12e-72myb domain protein 83
Publications ? help Back to Top
  1. McCarthy RL, et al.
    The poplar MYB transcription factors, PtrMYB3 and PtrMYB20, are involved in the regulation of secondary wall biosynthesis.
    Plant Cell Physiol., 2010. 51(6): p. 1084-90
    [PMID:20427511]
  2. Zhong R,McCarthy RL,Haghighat M,Ye ZH
    The poplar MYB master switches bind to the SMRE site and activate the secondary wall biosynthetic program during wood formation.
    PLoS ONE, 2013. 8(7): p. e69219
    [PMID:23922694]
  3. Zhao Y,Sun J,Xu P,Zhang R,Li L
    Intron-mediated alternative splicing of WOOD-ASSOCIATED NAC TRANSCRIPTION FACTOR1B regulates cell wall thickening during fiber development in Populus species.
    Plant Physiol., 2014. 164(2): p. 765-76
    [PMID:24394777]
  4. 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]
  5. 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]