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 Bradi3g50067.1.p
Common NameBRADI_3g50067, SWN3
Organism
Brachypodium distachyon
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium
Family NAC
Protein Properties Length: 345aa    MW: 39186.9 Da    PI: 7.1007
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi3g50067.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM179.11.2e-5571361129
               NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp.k.kvka.eekewyfFskrdkkyatgkrknratksgyWkatgkdk 90 
                       +ppGfrFhPtdeelv++yL+kkv++kk++l +vik++d+yk+ePwdL+ k k+   e+++wyfFs++dkky+tg+r+nrat +g+Wkatg+dk
  Bradi3g50067.1.p   7 VPPGFRFHPTDEELVDYYLRKKVASKKIDL-DVIKDIDLYKIEPWDLQdKcKIGMeEQSDWYFFSHKDKKYPTGTRTNRATGAGFWKATGRDK 98 
                       69****************************.9***************9434444324559********************************* PP

               NAM  91 evlskkgelvglkktLvfykgrapkgektdWvmheyrle 129
                       ++++ ++ lvg++ktLvfykgrap+g+k+dW+mheyrle
  Bradi3g50067.1.p  99 PIYT-NNCLVGMRKTLVFYKGRAPNGQKSDWIMHEYRLE 136
                       ****.999*****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019419.15E-625156IPR003441NAC domain
PROSITE profilePS5100560.0717156IPR003441NAC domain
PfamPF023651.7E-288135IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048759Biological Processxylem vessel member cell differentiation
GO:1901348Biological Processpositive regulation of secondary cell wall biogenesis
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 345 aa     Download sequence    Send to blast
MDTFSHVPPG FRFHPTDEEL VDYYLRKKVA SKKIDLDVIK DIDLYKIEPW DLQDKCKIGM  60
EEQSDWYFFS HKDKKYPTGT RTNRATGAGF WKATGRDKPI YTNNCLVGMR KTLVFYKGRA  120
PNGQKSDWIM HEYRLETNEN GATPEEGWVI CRVFKKRVAT VRRMADSSPC WFDDHGSGAF  180
MPDLDSPRQL GYQHRHHQNM ATYHGQQQLY HCKPELEYHH LLPQEAFLQQ LPHLESPKPP  240
AYIGQGSSNI LSTTGNLLAH DGGASRPSVQ QPPMDQSLYM AAAGDTSATD WRLLDKFVAS  300
QLFSHGDTNP KEQLFQVENK HEDALDYAST SAGGSGGGES RLWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A2e-52715717166NO APICAL MERISTEM PROTEIN
1ut4_B2e-52715717166NO APICAL MERISTEM PROTEIN
1ut7_A2e-52715717166NO APICAL MERISTEM PROTEIN
1ut7_B2e-52715717166NO APICAL MERISTEM PROTEIN
4dul_A2e-52715717166NAC domain-containing protein 19
4dul_B2e-52715717166NAC domain-containing protein 19
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the secondary wall NAC binding element (SNBE), 5'-(T/A)NN(C/T)(T/C/G)TNNNNNNNA(A/C)GN(A/C/T)(A/T)-3', in the promoter of target genes (By similarity). Involved in xylem formation by promoting the expression of secondary wall-associated transcription factors and of genes involved in secondary wall biosynthesis and programmed cell death, genes driven by the secondary wall NAC binding element (SNBE). Triggers thickening of secondary walls (PubMed:16103214, PubMed:25148240). {ECO:0000250|UniProtKB:Q9LVA1, ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:25148240}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00136DAPTransfer from AT1G12260Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi3g50067.1.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
GenBankJQ6934240.0JQ693424.1 Brachypodium distachyon SWN3 (SWN3) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001266811.10.0uncharacterized protein LOC100832773
RefseqXP_010233638.10.0uncharacterized protein LOC100832773 isoform X1
SwissprotQ9FWX21e-120NAC7_ARATH; NAC domain-containing protein 7
TrEMBLI1IC130.0I1IC13_BRADI; SWN3
STRINGBRADI3G50067.10.0(Brachypodium distachyon)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MonocotsOGMP23703892
Representative plantOGRP1715800
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G12260.15e-99NAC 007
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. Heyndrickx KS,Vandepoele K
    Systematic identification of functional plant modules through the integration of complementary data sources.
    Plant Physiol., 2012. 159(3): p. 884-901
    [PMID:22589469]
  3. Valdivia ER, et al.
    Regulation of secondary wall synthesis and cell death by NAC transcription factors in the monocot Brachypodium distachyon.
    J. Exp. Bot., 2013. 64(5): p. 1333-43
    [PMID:23386682]