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 Itr_sc000040.1_g00038.1
Organism
Ipomoea trifida
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea
Family NAC
Protein Properties Length: 389aa    MW: 43296.6 Da    PI: 5.2484
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc000040.1_g00038.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM1683.1e-52281551128
                      NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvkaeekewyfFskrdkkyatgkrknratksgyWk 84 
                              l+pGfrFhPtdeelv +yL++k+ gk++++ ++++e+d+yk+ePw+L +  ++k+++ ewyfFs+ d+ky +g+r nrat +gyWk
  Itr_sc000040.1_g00038.1  28 LAPGFRFHPTDEELVRYYLRRKACGKPFRF-QAVSEIDVYKSEPWELAEysSLKNRDLEWYFFSPVDRKYGNGSRLNRATGKGYWK 112
                              579*************************99.88**************84336667777**************************** PP

                      NAM  85 atgkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128
                              atgkd++v + k++++g+kktLvf++grap+g++t+Wvmheyrl
  Itr_sc000040.1_g00038.1 113 ATGKDRSVRH-KSQTIGMKKTLVFHSGRAPDGKRTNWVMHEYRL 155
                              **********.999****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019413.66E-5724161IPR003441NAC domain
PROSITE profilePS5100552.43728172IPR003441NAC domain
PfamPF023652.5E-2830155IPR003441NAC 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: 389 aa     Download sequence    Send to blast
MELQPPQDGA GVVAPPIPKR AVAPPTSLAP GFRFHPTDEE LVRYYLRRKA CGKPFRFQAV  60
SEIDVYKSEP WELAEYSSLK NRDLEWYFFS PVDRKYGNGS RLNRATGKGY WKATGKDRSV  120
RHKSQTIGMK KTLVFHSGRA PDGKRTNWVM HEYRLADEEL VKAGVVQKSG LGPPNGDRYA  180
PFIEEEWDDD TALVIPGGEA EDDAANGDDA HVEGNELDQA AALCKAPQSP VEPQGLPFVC  240
KRERSEDPEP LSLAQAKRSK HDDPSSSNAN GSEDSTTIQE PPTAMMTTTT TTNYSPALLE  300
FPLLGSIEPK ESHPTNVPTF DSSTLEKSVP PGYLKFISNL ENEILNVSME RETLKIEVMR  360
AQAMINILQS RIDLLNKENE DLRRVVRGG
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3swm_A4e-472715719147NAC domain-containing protein 19
3swm_B4e-472715719147NAC domain-containing protein 19
3swm_C4e-472715719147NAC domain-containing protein 19
3swm_D4e-472715719147NAC domain-containing protein 19
3swp_A4e-472715719147NAC domain-containing protein 19
3swp_B4e-472715719147NAC domain-containing protein 19
3swp_C4e-472715719147NAC domain-containing protein 19
3swp_D4e-472715719147NAC 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}.
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 NAC051/NAC052 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). {ECO:0000269|PubMed:24045019, ECO:0000269|PubMed:25578968, ECO:0000269|PubMed:26617990}.
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}.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_019198774.10.0PREDICTED: NAC domain-containing protein 78-like
SwissprotQ9SQX91e-100NAC50_ARATH; NAC domain containing protein 50
SwissprotQ9SQY01e-100NAC52_ARATH; NAC domain containing protein 52
TrEMBLA0A2Z5HVK90.0A0A2Z5HVK9_IPOBA; NAC6 protein
STRINGXP_009619467.10.0(Nicotiana tomentosiformis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA31402448
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G10480.21e-86NAC 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]