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 RrC40_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: 439aa    MW: 49300.6 Da    PI: 7.7502
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC40_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM165.22.4e-51141421128
       NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp..kkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlskkgel 99 
               lp+G+rF+Ptdeelv++yL++k++g+++++ ++i+e+di+k+ePwdLp  +++k++++ew fF++ d+k+++g+r+nr+t +g Wkatgkd++++s k+++
  RrC40_p2  14 LPVGLRFRPTDEELVSYYLRRKIKGHEHDV-KAIREIDICKCEPWDLPdfSAIKTKDSEWLFFCPLDRKHPNGSRQNRSTIAGHWKATGKDRKIKSGKNKV 113
               799**************************9.89**************96448899999**************************************99*** PP

       NAM 100 vglkktLvfykgrapkgektdWvmheyrl 128
               +g+k+tLvf++grapkg++t+Wvmheyr+
  RrC40_p2 114 IGVKRTLVFHSGRAPKGTRTNWVMHEYRA 142
               ***************************96 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.26E-5511165IPR003441NAC domain
PROSITE profilePS5100554.63314165IPR003441NAC domain
PfamPF023657.1E-2515141IPR003441NAC 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: 439 aa     Download sequence    Send to blast
MNQNSIKELT VDSLPVGLRF RPTDEELVSY YLRRKIKGHE HDVKAIREID ICKCEPWDLP  60
DFSAIKTKDS EWLFFCPLDR KHPNGSRQNR STIAGHWKAT GKDRKIKSGK NKVIGVKRTL  120
VFHSGRAPKG TRTNWVMHEY RATEHDLCGT NPGQSPFVIC KLFKKQDPSL VEEEEAVSSP  180
TSSSLDKTKS EVSMVAVKPE SSFVISGDSR NGGACNEATT SSKLGDLDWL SFPELESMTV  240
FSPLHSQVQS ELGSFLQPSS SDFSGNHNNN NFQIQTQYGT NDEEDTDVSR FLNSVLDFPD  300
DQDFVFPCEF DGAVPDQIAP AYQQQRSAGD MSDDVSRTGI KLQPRREQPE GVTTDYVIHG  360
NASRRLRLQT IKREVEDTDG EAIKKGKLMR SKSRTRFLFK KIMPVRCSYG GLLRAAVVAV  420
LFLISVCSLT TDFRASLMI
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3swm_A5e-46916615169NAC domain-containing protein 19
3swm_B5e-46916615169NAC domain-containing protein 19
3swm_C5e-46916615169NAC domain-containing protein 19
3swm_D5e-46916615169NAC domain-containing protein 19
3swp_A5e-46916615169NAC domain-containing protein 19
3swp_B5e-46916615169NAC domain-containing protein 19
3swp_C5e-46916615169NAC domain-containing protein 19
3swp_D5e-46916615169NAC domain-containing protein 19
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional activator activated by proteolytic cleavage through regulated intramembrane proteolysis (RIP) (PubMed:20156199, PubMed:19947982). Transcriptional activator involved in response to cold stress. Mediates induction of pathogenesis-related (PR) genes independently of salicylic signaling in response to cold. Binds directly to the PR gene promoters and enhances plant resistance to pathogen infection, incorporating cold signals into pathogen resistance responses (PubMed:19947982). Plays a regulatory role in abscisic acid (ABA)-mediated drought-resistance response (PubMed:22967043). {ECO:0000269|PubMed:19947982, ECO:0000269|PubMed:20156199, ECO:0000269|PubMed:22967043}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By salt, drought stress, abscisic acid (ABA), salicylic acid (SA) and methyl methanesulfonate (MMS) treatment. {ECO:0000269|PubMed:17158162}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKP6413550.0KP641355.1 Brassica napus NAC transcription factor 62-3.1 (NAC62-3.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018432767.10.0PREDICTED: NAC domain-containing protein 62-like
SwissprotQ9SCK60.0NAC62_ARATH; NAC domain-containing protein 62
TrEMBLA0A3P5Z5080.0A0A3P5Z508_BRACM; Uncharacterized protein
STRINGBra019599.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM24162873
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G49530.10.0NAC domain containing protein 62
Publications ? help Back to Top
  1. Duarte JM, et al.
    Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis.
    Mol. Biol. Evol., 2006. 23(2): p. 469-78
    [PMID:16280546]
  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]