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_sc000102.1_g00018.1
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: 332aa    MW: 37909.9 Da    PI: 7.065
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Itr_sc000102.1_g00018.1genomeKazusaView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM1484.8e-46261532128
                      NAM   2 ppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp..kkvkaeekewyfFskrdkkyatgkrknr.atksgyWk 84 
                               pGfrFhPtdeelvv+yL++kv+gk++++ e+i+ vdiyk+ePw+L+  ++v+++++ewyf +  +kky+ ++  nr  t++gyWk
  Itr_sc000102.1_g00018.1  26 GPGFRFHPTDEELVVYYLRRKVRGKPFHV-EAISVVDIYKHEPWELHafSAVNSTDQEWYFLVDLEKKYKGSRLINRsFTEKGYWK 110
                              59***************************.89**************85348888999************9999999989******* PP

                      NAM  85 atgkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128
                              ++ kd++v + k+e vg+kktLv++ g+ p+g++t+Wvmheyrl
  Itr_sc000102.1_g00018.1 111 TSEKDQTVSH-KREIVGMKKTLVYHAGKPPNGRRTNWVMHEYRL 153
                              ********99.8999***************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019414.58E-5119177IPR003441NAC domain
PROSITE profilePS5100549.3425177IPR003441NAC domain
PfamPF023653.0E-2527153IPR003441NAC 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: 332 aa     Download sequence    Send to blast
MEKQKAAALP GGNLDLALAA PTRRLGPGFR FHPTDEELVV YYLRRKVRGK PFHVEAISVV  60
DIYKHEPWEL HAFSAVNSTD QEWYFLVDLE KKYKGSRLIN RSFTEKGYWK TSEKDQTVSH  120
KREIVGMKKT LVYHAGKPPN GRRTNWVMHE YRLVEAELDK AGVQQDDSFI LCKIFCKNEM  180
GPPCSGVYGP FNEEEWENDE VMRQAGFTSN TTNSLKFDLF PGNKRVSSDE ASSLSTDVPV  240
PQPGLLNFSL SAQPNLGNHS HLPLPSKVVG AFNSSCLEKS VPPGYLKFIN DLEEERNKLM  300
DSMMNSEATI RRLLESNEQL EEENRRLKNL HF
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A6e-372517817166NO APICAL MERISTEM PROTEIN
1ut4_B6e-372517817166NO APICAL MERISTEM PROTEIN
1ut7_A6e-372517817166NO APICAL MERISTEM PROTEIN
1ut7_B6e-372517817166NO APICAL MERISTEM PROTEIN
3swm_A6e-372517820169NAC domain-containing protein 19
3swm_B6e-372517820169NAC domain-containing protein 19
3swm_C6e-372517820169NAC domain-containing protein 19
3swm_D6e-372517820169NAC domain-containing protein 19
3swp_A6e-372517820169NAC domain-containing protein 19
3swp_B6e-372517820169NAC domain-containing protein 19
3swp_C6e-372517820169NAC domain-containing protein 19
3swp_D6e-372517820169NAC domain-containing protein 19
4dul_A6e-372517817166NAC domain-containing protein 19
4dul_B6e-372517817166NAC 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_019196370.11e-106PREDICTED: NAC domain-containing protein 82-like
SwissprotQ9SQX91e-68NAC50_ARATH; NAC domain containing protein 50
SwissprotQ9SQY02e-68NAC52_ARATH; NAC domain containing protein 52
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA60502334
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G10490.11e-72NAC 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]