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 RrC16977_p1
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: 444aa    MW: 50273 Da    PI: 5.9678
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC16977_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM1683.2e-52141402128
          NAM   2 ppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp..kkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlskkg 97 
                   pGfrFhPtdeelv++yLk+kv gk++++ ++i +vdiyk+ePwdL   +++k++++ewyf+s  dkky +g r nrat++gyWkatgkd+e+ + + 
  RrC16977_p1  14 DPGFRFHPTDEELVSYYLKRKVMGKPVRF-DAIGDVDIYKHEPWDLAvfSRLKTRDQEWYFYSALDKKYGNGARMNRATNKGYWKATGKDREIRR-DI 109
                  69************************999.99**************8544899999**************************************9.99 PP

          NAM  98 elvglkktLvfykgrapkgektdWvmheyrl 128
                  +l g+kktLvf++grap+g +t+Wvmheyrl
  RrC16977_p1 110 QLLGMKKTLVFHSGRAPDGLRTNWVMHEYRL 140
                  9****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019414.05E-597165IPR003441NAC domain
PROSITE profilePS5100557.04613164IPR003441NAC domain
PfamPF023659.6E-2715140IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009555Biological Processpollen development
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0005730Cellular Componentnucleolus
GO:0003677Molecular FunctionDNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 444 aa     Download sequence    Send to blast
TARGTTAVAA TSLDPGFRFH PTDEELVSYY LKRKVMGKPV RFDAIGDVDI YKHEPWDLAV  60
FSRLKTRDQE WYFYSALDKK YGNGARMNRA TNKGYWKATG KDREIRRDIQ LLGMKKTLVF  120
HSGRAPDGLR TNWVMHEYRL VDYETESNGN LVQDAYVLCR VFHKNNIGPP SGNRYAPFLE  180
EEWADDGVAL IPGVDVRVRA EPLPLANGNN QMDQDIQSAS KDLININEPP RETAPMDIEL  240
NHQNHHDNAH KTQENNNNNH YDEAEEALKL EQAEEDERPP PPVCVINKEA PLPLLQYKRR  300
RQNEPNNNNN SSRTTQDHCS STTTTVDNTP PTALISSSSA AAATNTAISA LLEFSLMGIS  360
AKKENQQQRP NKEASPPAQL PSPEEKLNDL QKEVHQMSVE RETFKLEMMS AEAMISILQS  420
RIDALRQEND ELRKNNNAKG QAVL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3swm_A3e-47516612170NAC domain-containing protein 19
3swm_B3e-47516612170NAC domain-containing protein 19
3swm_C3e-47516612170NAC domain-containing protein 19
3swm_D3e-47516612170NAC domain-containing protein 19
3swp_A3e-47516612170NAC domain-containing protein 19
3swp_B3e-47516612170NAC domain-containing protein 19
3swp_C3e-47516612170NAC domain-containing protein 19
3swp_D3e-47516612170NAC domain-containing protein 19
Search in ModeBase
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00612ChIP-seqTransfer from AT3G10490Download
Motif logo
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
PlantRegMapRetrieveRetrieve
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013750304.10.0NAC domain-containing protein 71-like isoform X1
RefseqXP_013750305.10.0NAC domain-containing protein 71-like isoform X2
SwissprotQ9SQY00.0NAC52_ARATH; NAC domain containing protein 52
TrEMBLA0A397ZF440.0A0A397ZF44_BRACM; Uncharacterized protein
STRINGBo5g137360.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17802880
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G10480.10.0NAC domain containing protein 50
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]