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 Rsa1.0_00131.1_g00011.1
Organism
Raphanus sativus
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family MYB
Protein Properties Length: 314aa    MW: 35407.2 Da    PI: 7.2226
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00131.1_g00011.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding47.25.2e-153380148
                             TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHHT CS
          Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqkyl 48
                             +g W+++Ede+l+ +    G g+W+ Iar  g+ R++k+c++rw +yl
  Rsa1.0_00131.1_g00011.1 33 KGLWSPDEDEKLISYMLTNGQGCWNVIARNAGLLRCGKSCRLRWINYL 80
                             678*****************************99************97 PP
2Myb_DNA-binding49.59.6e-1686130147
                              TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
          Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47 
                              rg++++eE+ l+v+++ + G++ W+ Ia  ++ gRt++++k++w++ 
  Rsa1.0_00131.1_g00011.1  86 RGPFSPEEEYLIVHLHSMIGNR-WSQIATQLP-GRTDNEIKNFWNTT 130
                              89********************.*********.************87 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129414.1982880IPR017930Myb domain
SuperFamilySSF466897.19E-2831127IPR009057Homeodomain-like
SMARTSM007175.3E-123282IPR001005SANT/Myb domain
PfamPF002491.0E-133380IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.608.0E-223487IPR009057Homeodomain-like
CDDcd001673.39E-103680No hitNo description
PROSITE profilePS5129424.99781135IPR017930Myb domain
SMARTSM007175.5E-1585133IPR001005SANT/Myb domain
PfamPF002492.1E-1486130IPR001005SANT/Myb domain
CDDcd001678.82E-1188131No hitNo description
Gene3DG3DSA:1.10.10.604.8E-2688135IPR009057Homeodomain-like
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 314 aa     Download sequence    Send to blast
MMRNSAITKI IDKNKLKHAC GGTGNNNKRK LRKGLWSPDE DEKLISYMLT NGQGCWNVIA  60
RNAGLLRCGK SCRLRWINYL RPDLKRGPFS PEEEYLIVHL HSMIGNRWSQ IATQLPGRTD  120
NEIKNFWNTT LKKRLENNIN NTSSGSLPTN IICNFLDPKD QHVNMEGKSN PMMDSNHHHD  180
DMMVVGNTMR IGCSSFSFAP VVSGVDLNQL DQLISVPDHN SYQQMGNMGN LFNVNGLRYC  240
GNAILDPTSK RTSIQSEWFL PPSEDTNVIP CTTNNNLNML GVENGSLEIE HPKIGDLDLD  300
GLIDNNPLFT FLDF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1a5j_A2e-26311365109B-MYB
Search in ModeBase
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
PlantRegMapRsa1.0_00131.1_g00011.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018438573.10.0PREDICTED: transcription factor MYB46-like
SwissprotQ9C6U11e-138MYB83_ARATH; Transcription factor MYB83
TrEMBLA0A0D3BAA01e-152A0A0D3BAA0_BRAOL; Uncharacterized protein
TrEMBLA0A398A2D71e-152A0A398A2D7_BRACM; Uncharacterized protein
TrEMBLM4CAQ51e-152M4CAQ5_BRARP; Uncharacterized protein
STRINGBra001284.1-P1e-153(Brassica rapa)
STRINGBo3g061630.11e-153(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM70772642
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G08500.11e-124myb 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]