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.9217s0020.1.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: 405aa    MW: 46009.4 Da    PI: 8.1997
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Cagra.9217s0020.1.pgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM1584e-49251541128
                  NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp..kkvkaeekewyfFskrdkkyatgkrknratksgyWkatgk 88 
                          l+pGfrFhP+deel+++yLk+kv+gk ++l ++i e+diyk+ePw+L   +k+k+++kewyfFs  dkky+tg+  +r+tk+gyW+ tgk
  Cagra.9217s0020.1.p  25 LAPGFRFHPSDEELISYYLKRKVQGKLMRL-DAIGEIDIYKHEPWNLAehSKLKTRDKEWYFFSALDKKYSTGTSVKRTTKQGYWNVTGK 113
                          579*************************99.99**************7434889999********************************* PP

                  NAM  89 dkevlskkgel.vglkktLvfykgrapkgektdWvmheyrl 128
                          d+e+ + ++el +g  k++vfykgrap+g++t+Wvmheyrl
  Cagra.9217s0020.1.p 114 DREIRRGDSELiIGKTKIFVFYKGRAPHGRRTNWVMHEYRL 154
                          *****98555448999***********************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019412.88E-5419174IPR003441NAC domain
PROSITE profilePS5100553.94925174IPR003441NAC domain
PfamPF023651.1E-2427154IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 405 aa     Download sequence    Send to blast
MDRDSKKPGV ALPAATGNAA AETSLAPGFR FHPSDEELIS YYLKRKVQGK LMRLDAIGEI  60
DIYKHEPWNL AEHSKLKTRD KEWYFFSALD KKYSTGTSVK RTTKQGYWNV TGKDREIRRG  120
DSELIIGKTK IFVFYKGRAP HGRRTNWVMH EYRLAEDNKA LKVNAYVLCK VFLKDNPGEC  180
IGSRYAPFLE QEWDDDGERA VTPVPLVVQV FLLLPIYSMD NNNKEHHDEA LKRAPLPHCD  240
LDKEAPLPHC DLDKEAQLPF CVLNKEATLP LVGDKRKRGI DSSGNSNSSS QTTQDHCAST  300
EETSVDTGAA ESLQISEQLK SSVANMIDDL QCEQEPVAKK VSASKRVEDL LKEKDKMVLL  360
RKTQKREMME AEMVINFLED KIKTLCMENK ELQKNKSNKR QRSS*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3ulx_A1e-40181798173Stress-induced transcription factor NAC1
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor that binds to the motif 5'-(C/T)A(C/A)G-3' in the promoter of target genes (PubMed:25578968). Binds also to the 5'-CTTGNNNNNCAAG-3' consensus sequence in chromatin (PubMed:26617990). Can bind to the mitochondrial dysfunction motif (MDM) present in the upstream regions of mitochondrial dysfunction stimulon (MDS) genes involved in mitochondrial retrograde regulation (MRR) (PubMed:24045019). Together with NAC050 and JMJ14, regulates gene expression and flowering time by associating with the histone demethylase JMJ14, probably by the promotion of RNA-mediated gene silencing (PubMed:25578968, PubMed:26617990). Regulates siRNA-dependent post-transcriptional gene silencing (PTGS) through SGS3 expression modulation (PubMed:28207953). Required during pollen development (PubMed:19237690). {ECO:0000269|PubMed:19237690, ECO:0000269|PubMed:24045019, ECO:0000269|PubMed:25578968, ECO:0000269|PubMed:26617990, ECO:0000269|PubMed:28207953}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCagra.9217s0020.1.p
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by type III effector proteins (TTEs) secreted by the pathogenic bacteria P.syringae pv. tomato DC3000 during basal defense. {ECO:0000269|PubMed:16553893}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankCP0026882e-44CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023637659.10.0NAC domain containing protein 52-like
SwissprotQ9SQY01e-103NAC52_ARATH; NAC domain containing protein 52
STRINGCagra.9217s0020.1.p0.0(Capsella grandiflora)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM2022046
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G10490.21e-103NAC domain containing protein 52
Publications ? help Back to Top
  1. Higgins JD,Ferdous M,Osman K,Franklin FC
    The RecQ helicase AtRECQ4A is required to remove inter-chromosomal telomeric connections that arise during meiotic recombination in Arabidopsis.
    Plant J., 2011. 65(3): p. 492-502
    [PMID:21265901]
  2. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  3. Zhang S, et al.
    C-terminal domains of a histone demethylase interact with a pair of transcription factors and mediate specific chromatin association.
    Cell Discov, 2019.
    [PMID:26617990]
  4. Butel N,Le Masson I,Bouteiller N,Vaucheret H,Elmayan T
    sgs1: a neomorphic nac52 allele impairing post-transcriptional gene silencing through SGS3 downregulation.
    Plant J., 2017. 90(3): p. 505-519
    [PMID:28207953]
  5. Elmayan T, et al.
    Arabidopsis mutants impaired in cosuppression.
    Plant Cell, 1998. 10(10): p. 1747-58
    [PMID:9761800]