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 Araha.38479s0013.1.p
Organism
Arabidopsis halleri
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Family MYB
Protein Properties Length: 244aa    MW: 27959.4 Da    PI: 9.8317
Description MYB family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Araha.38479s0013.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1Myb_DNA-binding59.29.3e-19651147
                          TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHHH CS
       Myb_DNA-binding  1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqky 47
                          rg W + Ede+l+d+v+q+G+++W++Ia +++ gR++k+c++rw++ 
  Araha.38479s0013.1.p  6 RGHWRPAEDEKLKDLVEQYGPHNWNAIALKLP-GRSGKSCRLRWFNQ 51
                          899*****************************.***********996 PP
2Myb_DNA-binding60.53.6e-1958101146
                           TSSS-HHHHHHHHHHHHHTTTT-HHHHHHHHTTTS-HHHHHHHHHH CS
       Myb_DNA-binding   1 rgrWTteEdellvdavkqlGggtWktIartmgkgRtlkqcksrwqk 46 
                           r+++T+eE+e+l+ a++ +G++ W+ Iar ++ gRt++ +k++w+ 
  Araha.38479s0013.1.p  58 RNPFTEEEEERLLAAHRIHGNR-WSIIARLFP-GRTDNAVKNHWHV 101
                           789*******************.*********.***********96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5129419.692152IPR017930Myb domain
SMARTSM007171.1E-15554IPR001005SANT/Myb domain
SuperFamilySSF466893.59E-30699IPR009057Homeodomain-like
PfamPF002492.0E-17651IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.602.5E-27759IPR009057Homeodomain-like
CDDcd001673.76E-15950No hitNo description
PROSITE profilePS5129426.37953107IPR017930Myb domain
SMARTSM007171.9E-1657105IPR001005SANT/Myb domain
PfamPF002498.0E-1658100IPR001005SANT/Myb domain
Gene3DG3DSA:1.10.10.601.1E-2160106IPR009057Homeodomain-like
CDDcd001677.28E-869100No hitNo description
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:2000652Biological Processregulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 244 aa     Download sequence    Send to blast
MIMCSRGHWR PAEDEKLKDL VEQYGPHNWN AIALKLPGRS GKSCRLRWFN QLDPRINRNP  60
FTEEEEERLL AAHRIHGNRW SIIARLFPGR TDNAVKNHWH VIMARRTRQT SKPRLLPSTT  120
SSSSLMAREQ IMMTSGGYDH NYSSGDPKKI LPADVINFPY QFSHINHLQF LKEFFTGKIA  180
LNHKANESKR PMEFYNFLQV NTDSNKSEII DQDSGQSKSN DSGTTNESHV PFFDFLSVGN  240
SAS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1mse_C8e-3231071105C-Myb DNA-Binding Domain
1msf_C8e-3231071105C-Myb DNA-Binding Domain
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor that regulates secondary cell wall (SCW) biosynthesis, especially in interfascicular and xylary fibers. {ECO:0000269|PubMed:18952777}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapAraha.38479s0013.1.p
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK2274020.0AK227402.1 Arabidopsis thaliana mRNA for hypothetical protein, complete cds, clone: RAFL14-06-B21.
GenBankAY5195690.0AY519569.1 Arabidopsis thaliana MYB transcription factor (At1g73410) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002887483.11e-165transcription factor MYB52
SwissprotQ9FX361e-163MYB54_ARATH; Transcription factor MYB54
TrEMBLD7KRI31e-164D7KRI3_ARALL; Predicted protein
STRINGAl_scaffold_0002_20371e-165(Arabidopsis lyrata)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM28182769
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G73410.11e-155myb domain protein 54
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]