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 RrC2249_p4
Organism
Raphanus raphanistrum
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 NAC
Protein Properties Length: 361aa    MW: 42149.3 Da    PI: 6.2593
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC2249_p4genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM175.21.8e-5471352129
         NAM   2 ppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...kvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlskkg 97 
                 ppGfrFhPtdeelv +yL+kkv+++k++l +vi++vd+yk+ePwdL++     ++e++ewyfFs++dkky+tg+r+nrat +g+Wkatg+dk+v++ k+
  RrC2249_p4   7 PPGFRFHPTDEELVGYYLRKKVASQKIDL-DVIRDVDLYKIEPWDLQErcrIGYEEQNEWYFFSHKDKKYPTGTRTNRATMTGFWKATGRDKSVYD-KT 103
                 9****************************.9***************953432233667**************************************.99 PP

         NAM  98 elvglkktLvfykgrapkgektdWvmheyrle 129
                 +l+g++ktLvfykgrap+g+k++W++heyrle
  RrC2249_p4 104 KLIGMRKTLVFYKGRAPNGQKSEWIIHEYRLE 135
                 9*****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019412.09E-593155IPR003441NAC domain
PROSITE profilePS5100558.7386155IPR003441NAC domain
PfamPF023658.0E-287134IPR003441NAC 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:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 361 aa     Download sequence    Send to blast
MESCGIPPGF RFHPTDEELV GYYLRKKVAS QKIDLDVIRD VDLYKIEPWD LQERCRIGYE  60
EQNEWYFFSH KDKKYPTGTR TNRATMTGFW KATGRDKSVY DKTKLIGMRK TLVFYKGRAP  120
NGQKSEWIIH EYRLESDENA PPQEEGWVVC RAFKKRATGQ TKNTETWSSS YFYDETVSSG  180
VNSVLDPIEY ISNQQNDIFG KGFMCKQELE GMVDDLNYMH SYHQFIQLPK LLSPSLPVMK  240
RPTSSMSISS MDNNTNYITT LDDEASFESV ISKDNKRKKN KKKQVTMTGD WRELDKFVAS  300
QLMSQDRGTS HLVSHHMNHE DMEMDSSFLL NEREENRFVN ELLNSNKDYD SGIAYLMNET  360
I
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3ulx_A2e-50615615169Stress-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
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
GenBankAC0062011e-103AC006201.4 Arabidopsis thaliana chromosome 2 clone T27K22 map c245, complete sequence.
GenBankCP0026851e-103CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018437211.10.0PREDICTED: NAC domain-containing protein 37
RefseqXP_018437212.10.0PREDICTED: NAC domain-containing protein 37
SwissprotQ9SL410.0NAC37_ARATH; NAC domain-containing protein 37
TrEMBLA0A3P6ECF10.0A0A3P6ECF1_BRAOL; Uncharacterized protein
STRINGBo7g011640.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM36862661
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G18060.10.0vascular 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. 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]
  3. Tan TT, et al.
    Transcription Factors VND1-VND3 Contribute to Cotyledon Xylem Vessel Formation.
    Plant Physiol., 2018. 176(1): p. 773-789
    [PMID:29133368]