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 Rsa1.0_01363.1_g00003.1
Organism
Raphanus sativus
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: 462aa    MW: 51761.2 Da    PI: 6.7419
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_01363.1_g00003.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM156.31.3e-48261791128
                      NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk............................kvkaeekew 58 
                              l+pGfrFhPtd+elv++yLk+kv gk++++ ++i +vdiyk+ePwdL                               +k++++ew
  Rsa1.0_01363.1_g00003.1  26 LAPGFRFHPTDDELVSYYLKRKVLGKPVRF-DAIGDVDIYKHEPWDLAVfwassklrlltqfwrkdmkfvdaslafsWLKTRDQEW 110
                              579************************999.99**************856899**************99999998886777999** PP

                      NAM  59 yfFskrdkkyatgkrknratksgyWkatgkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128
                              yf++  dkky +g r nrat+ gyWkatgkd+e+ s + +l g+kktLvf++grap+g +t+Wvmheyrl
  Rsa1.0_01363.1_g00003.1 111 YFYCALDKKYGNGARMNRATNLGYWKATGKDREIRS-DVQLLGMKKTLVFHSGRAPDGLRTNWVMHEYRL 179
                              ************************************.999****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019415.23E-542071IPR003441NAC domain
PROSITE profilePS5100552.81526203IPR003441NAC domain
PfamPF023651.4E-2528179IPR003441NAC domain
SuperFamilySSF1019415.23E-54100204IPR003441NAC 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: 462 aa     Download sequence    Send to blast
MGRESVTAVS SPPTATATAT AVATALAPGF RFHPTDDELV SYYLKRKVLG KPVRFDAIGD  60
VDIYKHEPWD LAVFWASSKL RLLTQFWRKD MKFVDASLAF SWLKTRDQEW YFYCALDKKY  120
GNGARMNRAT NLGYWKATGK DREIRSDVQL LGMKKTLVFH SGRAPDGLRT NWVMHEYRLV  180
DCETENNGNS VQDAYVLCRI FHKNNIGPPS GNRYAPFMEE EWAGDGVALI PGVNVSVKAE  240
PVPVANGNNH MDQEIQSASK DLININEPPR EPAPMDIELN HHENAVKPQE NNNNSNHCDE  300
GERPPAVCVL NKEAPLPLVQ YKRRRQNESS DNNNDSSRTP EDYCSSTTTT VDNTPTLISS  360
SPAAAAATNS AISALLEFSL MGISKKKENA QQTVRPHKEA TTLKEKLNDL QKEIEKMSDE  420
RKTFKLEMMG AEAMISILQS RIDALRQEND ELKKNSSAAN GH
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A1e-412520516167NO APICAL MERISTEM PROTEIN
1ut4_B1e-412520516167NO APICAL MERISTEM PROTEIN
1ut7_A1e-412520516167NO APICAL MERISTEM PROTEIN
1ut7_B1e-412520516167NO APICAL MERISTEM PROTEIN
3swm_A1e-412520519170NAC domain-containing protein 19
3swm_B1e-412520519170NAC domain-containing protein 19
3swm_C1e-412520519170NAC domain-containing protein 19
3swm_D1e-412520519170NAC domain-containing protein 19
3swp_A1e-412520519170NAC domain-containing protein 19
3swp_B1e-412520519170NAC domain-containing protein 19
3swp_C1e-412520519170NAC domain-containing protein 19
3swp_D1e-412520519170NAC domain-containing protein 19
4dul_A1e-412520516167NAC domain-containing protein 19
4dul_B1e-412520516167NAC 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_01363.1_g00003.1
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
GenBankKC9667520.0KC966752.1 Brassica napus NAC transcription factor 50 (NAC50.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018492857.10.0PREDICTED: NAC domain-containing protein 53-like isoform X1
SwissprotQ9SQY00.0NAC52_ARATH; NAC domain containing protein 52
TrEMBLA0A397ZF440.0A0A397ZF44_BRACM; Uncharacterized protein
STRINGBra001365.1-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]