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 Cagra.0568s0135.1.p
Organism
Capsella grandiflora
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family NAC
Protein Properties Length: 345aa    MW: 40195.6 Da    PI: 6.5599
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.0568s0135.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM178.71.5e-5571361129
                  NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvkaeek.ewyfFskrdkkyatgkrknratksgyWkatg 87 
                          +ppGfrFhPtdeelv++yL+kkv++k++e+ ++ik++d+yk+ePwdL++  k+ +ee+ +wyfFs++dkky+tg+r+nratk+g+Wkatg
  Cagra.0568s0135.1.p   7 VPPGFRFHPTDEELVDYYLRKKVASKRIEI-DFIKDIDLYKIEPWDLQElcKIGHEEQsDWYFFSHKDKKYPTGTRTNRATKAGFWKATG 95 
                          69****************************.99**************9544444444359****************************** PP

                  NAM  88 kdkevlskkgelvglkktLvfykgrapkgektdWvmheyrle 129
                          +dk+++  +++l+g++ktLvfykgrap+g+k+dW+mheyrle
  Cagra.0568s0135.1.p  96 RDKAIYL-RHSLIGMRKTLVFYKGRAPNGQKSDWIMHEYRLE 136
                          *******.8899****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019412.88E-605156IPR003441NAC domain
PROSITE profilePS5100559.1717156IPR003441NAC domain
PfamPF023658.3E-298135IPR003441NAC 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:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 345 aa     Download sequence    Send to blast
MNSFSHVPPG FRFHPTDEEL VDYYLRKKVA SKRIEIDFIK DIDLYKIEPW DLQELCKIGH  60
EEQSDWYFFS HKDKKYPTGT RTNRATKAGF WKATGRDKAI YLRHSLIGMR KTLVFYKGRA  120
PNGQKSDWIM HEYRLETDEN GTPQEEGWVV CRVFKKRLAA VRRMGDYDSS PSHWYDDQLS  180
FMASELETNV QRRILPNHHH HQQQQHEHQQ HMPYGLNAPA YALSNPNLQC KQERELHYSH  240
LQSNIAHEEQ LNQGNQSFSS LYMNSGNEQV MDQVTDWRVL DKFVASQLSN EEAATASASL  300
QNNAKETNNA EYQVDEEKDP KRVADMGEEY AASTSSSCQI DLWK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3ulx_A6e-51615714169Stress-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: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
PlantRegMapCagra.0568s0135.1.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
GenBankBT0297610.0BT029761.1 Arabidopsis thaliana At1g12260 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006305001.10.0NAC domain-containing protein 7 isoform X2
SwissprotQ9FWX20.0NAC7_ARATH; NAC domain-containing protein 7
TrEMBLR0I6E90.0R0I6E9_9BRAS; Uncharacterized protein
STRINGCagra.0568s0135.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM21112678
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G12260.10.0NAC 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]