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 Bradi1g76732.1.p
Common NameBRADI_1g76732, SWN1
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: 365aa    MW: 40681.3 Da    PI: 5.0233
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Bradi1g76732.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM176.38.7e-5581371129
               NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...kvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdk 90 
                       +ppGfrFhPtdeelv +yL+kkv+++k++l +vi+++d+y++ePwdL +     ++e++ewyfFs +d+ky+tg+r+nrat +g+Wkatg+dk
  Bradi1g76732.1.p   8 VPPGFRFHPTDEELVGYYLRKKVASQKIDL-DVIRDIDLYRIEPWDLTEhcgIGYEEQSEWYFFSFKDRKYPTGTRTNRATMAGFWKATGRDK 99 
                       69****************************.9***************853542334667********************************** PP

               NAM  91 evlskkgelvglkktLvfykgrapkgektdWvmheyrle 129
                       +v++ +++l+g++ktLvfykgrap+g+ktdW+mheyrle
  Bradi1g76732.1.p 100 AVHE-RSRLIGMRKTLVFYKGRAPNGQKTDWIMHEYRLE 137
                       ***9.999*****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.44E-596157IPR003441NAC domain
PROSITE profilePS5100559.0818157IPR003441NAC domain
PfamPF023651.9E-289136IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010200Biological Processresponse to chitin
GO:0048759Biological Processxylem vessel member cell differentiation
GO:1901348Biological Processpositive regulation of secondary cell wall biogenesis
GO:1990110Biological Processcallus formation
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 365 aa     Download sequence    Send to blast
MDSMESCVPP GFRFHPTDEE LVGYYLRKKV ASQKIDLDVI RDIDLYRIEP WDLTEHCGIG  60
YEEQSEWYFF SFKDRKYPTG TRTNRATMAG FWKATGRDKA VHERSRLIGM RKTLVFYKGR  120
APNGQKTDWI MHEYRLETDE NAPPQEEGWV VCRAFKKRAA YPSRGMGMAM AERWDSNYSS  180
SPYHDAASGM AAAFADHPAS YARSARFKAE DDGAAQLLRY TSSHLVELPQ LESPSAMPPA  240
LPPATKKKTK NGRKLPEEQE DRDQDEAGGG MVTADWRALD KFVASQLSPG GAQLDQAPPP  300
AGASSQSAQP ELEREREDQD DMAALLFLNN DERDEMERWT GLLASASGAG AGGDGDLGIC  360
VFDK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3ulx_A4e-50515812169Stress-induced transcription factor NAC1
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:25148240). {ECO:0000250|UniProtKB:Q9LVA1, ECO:0000269|PubMed:25148240}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00266DAPTransfer from AT2G18060Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapBradi1g76732.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by chitin (e.g. chitooctaose) (PubMed:17722694). Accumulates in plants exposed to callus induction medium (CIM) (PubMed:17581762). {ECO:0000269|PubMed:17581762, ECO:0000269|PubMed:17722694}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankJQ6934220.0JQ693422.1 Brachypodium distachyon SWN1 (SWN1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqNP_001266879.10.0uncharacterized protein LOC100835498
RefseqXP_014755549.10.0uncharacterized protein LOC100835498 isoform X1
SwissprotQ9SL411e-124NAC37_ARATH; NAC domain-containing protein 37
TrEMBLA0A2K2DVH30.0A0A2K2DVH3_BRADI; Uncharacterized protein
TrEMBLI2E2W10.0I2E2W1_BRADI; SWN1
STRINGTraes_4DL_54E14ABCB.21e-177(Triticum aestivum)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G18060.11e-113vascular related NAC-domain protein 1
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. 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]
  3. Negi S,Tak H,Ganapathi TR
    Cloning and functional characterization of MusaVND1 using transgenic banana plants.
    Transgenic Res., 2015. 24(3): p. 571-85
    [PMID:25523085]
  4. Tan TT, et al.
    Transcription Factors VND1-VND3 Contribute to Cotyledon Xylem Vessel Formation.
    Plant Physiol., 2018. 176(1): p. 773-789
    [PMID:29133368]