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 XP_009122872.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family NAC
Protein Properties Length: 421aa    MW: 47748.6 Da    PI: 5.6389
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009122872.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM168.42.4e-52251521128
             NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp..kkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevl 93 
                     l+pGfrFhPtdeelv++yLk+kv gk++++ ++i evdiyk+ePwdL   ++++++++ewyf+s  dkky +g r nrat++gyWkatgkd+e+ 
  XP_009122872.1  25 LAPGFRFHPTDEELVSYYLKRKVLGKPVRF-DAIGEVDIYKHEPWDLAvfSRLRTRDQEWYFYSALDKKYGNGARMNRATNKGYWKATGKDREIR 118
                     579************************999.99**************8544888999************************************** PP

             NAM  94 skkgelvglkktLvfykgrapkgektdWvmheyrl 128
                     + + +  g+kktLvf++grap+g +t+Wvmheyrl
  XP_009122872.1 119 R-DVQILGMKKTLVFHSGRAPDGLRTNWVMHEYRL 152
                     9.999****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019414.32E-6019177IPR003441NAC domain
PROSITE profilePS5100557.31625176IPR003441NAC domain
PfamPF023655.8E-2727152IPR003441NAC 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: 421 aa     Download sequence    Send to blast
MGRESVVAVS SPATAPGAVV AATALAPGFR FHPTDEELVS YYLKRKVLGK PVRFDAIGEV  60
DIYKHEPWDL AVFSRLRTRD QEWYFYSALD KKYGNGARMN RATNKGYWKA TGKDREIRRD  120
VQILGMKKTL VFHSGRAPDG LRTNWVMHEY RLVDYETENN GNLVQDAYVL CRIFHKNNIG  180
PPSGNRYAPF MEEEWADDGV AMIPGVDVSL RAEPLPLANG HNQMSQNSIQ SPSKDFININ  240
EPPRETTTPM DIELNHKNNH CDEEEEEALK REEADEDHER PPPPLCILNK EAPLPLLQYK  300
RRRQNESSRI TQDHCSSTTT TVDNTPTAAV ATNTAISALL EFSLMGISEK KENHQPPLTP  360
LPSPEEKVDD LQKEVHQMSV ERETFKLEMM SAEAMISILQ SRIDALRQEN DELKKNNANG  420
H
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3swm_A4e-472417819170NAC domain-containing protein 19
3swm_B4e-472417819170NAC domain-containing protein 19
3swm_C4e-472417819170NAC domain-containing protein 19
3swm_D4e-472417819170NAC domain-containing protein 19
3swp_A4e-472417819170NAC domain-containing protein 19
3swp_B4e-472417819170NAC domain-containing protein 19
3swp_C4e-472417819170NAC domain-containing protein 19
3swp_D4e-472417819170NAC domain-containing protein 19
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Mostly expressed in floral organs, and, at low levels, in other organs. {ECO:0000269|PubMed:25578968}.
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
PlantRegMapXP_009122872.1
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_009122872.10.0PREDICTED: NAC domain-containing protein 53-like
SwissprotQ9SQY00.0NAC52_ARATH; NAC domain containing protein 52
TrEMBLM4EZ750.0M4EZ75_BRARP; Uncharacterized protein
STRINGBra034118.1-P0.0(Brassica rapa)
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]