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 RrC6409_p2
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: 445aa    MW: 50158 Da    PI: 5.6447
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC6409_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM168.91.7e-52271541128
         NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp..kkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlskkg 97 
                 l+pGfrFhPtdeelv++yLk+kv gk++++ ++i evdiyk+ePwdL   +++k++++ewyf+s  dkky +g r nrat++gyWkatgkd+e+ + + 
  RrC6409_p2  27 LAPGFRFHPTDEELVSYYLKRKVLGKPVRF-DAIGEVDIYKHEPWDLAvfSRLKTRDQEWYFYSALDKKYGNGARMNRATNKGYWKATGKDREIRR-DV 123
                 579************************999.99**************8544899999**************************************9.99 PP

         NAM  98 elvglkktLvfykgrapkgektdWvmheyrl 128
                 +  g+kktLvf++grap+g +t+Wvmheyrl
  RrC6409_p2 124 QILGMKKTLVFHSGRAPDGLRTNWVMHEYRL 154
                 9****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019414.71E-6021179IPR003441NAC domain
PROSITE profilePS5100557.3727178IPR003441NAC domain
PfamPF023656.5E-2729154IPR003441NAC 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: 445 aa     Download sequence    Send to blast
MGRESMAVES SPPSATAPAT AVSATALAPG FRFHPTDEEL VSYYLKRKVL GKPVRFDAIG  60
EVDIYKHEPW DLAVFSRLKT RDQEWYFYSA LDKKYGNGAR MNRATNKGYW KATGKDREIR  120
RDVQILGMKK TLVFHSGRAP DGLRTNWVMH EYRLVDYETE SNGNLVQDAY VLCRIFHKNN  180
IGPPSGNRYA PFMEEEWSDD GVALIPGVDV RVRAEQLPLA NGNNHMGQPE SKDLININEP  240
PRETTQMDIE LNHQNHQENN NNNNRHDEEA EEALKREQAE EDEHPPPPPP AVCVLNKEAP  300
LPLLQYKRRR QNESTRTTQD HCSSTTTTVD NTPTTLISSS TAAAATNTAI SALLEFSLMG  360
ISDKNENPPQ PPRKEASPPP PPAPLTSPEE KLNDLQKEVH QMSVERETFK LEMMSAEAMI  420
SILQSRIDAL RQENDELKKN SANGH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3swm_A3e-471618012170NAC domain-containing protein 19
3swm_B3e-471618012170NAC domain-containing protein 19
3swm_C3e-471618012170NAC domain-containing protein 19
3swm_D3e-471618012170NAC domain-containing protein 19
3swp_A3e-471618012170NAC domain-containing protein 19
3swp_B3e-471618012170NAC domain-containing protein 19
3swp_C3e-471618012170NAC domain-containing protein 19
3swp_D3e-471618012170NAC 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}.
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
GenBankKC9667530.0KC966753.1 Brassica napus NAC transcription factor 51 (NAC51.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018439553.10.0PREDICTED: NAC domain-containing protein 78-like
SwissprotQ9SQY00.0NAC52_ARATH; NAC domain containing protein 52
TrEMBLA0A078F5F00.0A0A078F5F0_BRANA; BnaA05g28370D protein
TrEMBLA0A397ZLX10.0A0A397ZLX1_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
AT3G10490.20.0NAC 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]