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 RrC5017_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: 335aa    MW: 38094.8 Da    PI: 6.4152
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC5017_p2genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM169.61e-52221511129
         NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlsk..kg 97 
                 lppGfrFhPtdeel+++yL++kv +  l    +i+evd++++ePw+Lp+ +k +e+ewyf+s rd+ky+tg r+nrat++gyWkatgkdkev+s   +g
  RrC5017_p2  22 LPPGFRFHPTDEELITFYLAAKVFHGGLCG-IHIAEVDLNRCEPWELPEIAKMGEREWYFYSLRDRKYPTGLRTNRATTAGYWKATGKDKEVFSGggGG 119
                 79*************************877.78***************8888899***************************************98788 PP

         NAM  98 elvglkktLvfykgrapkgektdWvmheyrle 129
                 +lvg+kktLvfykgrap+g kt+Wvmheyrle
  RrC5017_p2 120 ALVGMKKTLVFYKGRAPRGLKTKWVMHEYRLE 151
                 89****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019412.88E-6218172IPR003441NAC domain
PROSITE profilePS5100558.50422172IPR003441NAC domain
PfamPF023657.7E-2723150IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010014Biological Processmeristem initiation
GO:0010199Biological Processorgan boundary specification between lateral organs and the meristem
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 335 aa     Download sequence    Send to blast
MMLAVEDVLS ELAGEERNDR GLPPGFRFHP TDEELITFYL AAKVFHGGLC GIHIAEVDLN  60
RCEPWELPEI AKMGEREWYF YSLRDRKYPT GLRTNRATTA GYWKATGKDK EVFSGGGGGA  120
LVGMKKTLVF YKGRAPRGLK TKWVMHEYRL ETDLSHRHTC KEEWVICRVF NKTGDRKNVG  180
IHNQISFLHN TSLPTTHQHH NHDLYHHLEI LPPLLEPSKT QTNFPSLLYD DTHQNYHNNL  240
LHGSSAHNVD EFKALISPAV SQLNGVIFSQ ENSYYNNEED NNFGVKIEQY SNGGNNDLDV  300
RDYLDNPFCQ EAGYGLLGLS SSPGPLMLLD SPYVL
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3ulx_A2e-492217515171Stress-induced transcription factor NAC1
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator. Involved in molecular mechanisms regulating shoot apical meristem (SAM) formation during embryogenesis and organ separation. Required for axillary meristem initiation and separation of the meristem from the main stem. May act as an inhibitor of cell division. {ECO:0000269|PubMed:12837947, ECO:0000269|PubMed:17122068}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00241DAPTransfer from AT1G76420Download
Motif logo
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By BRM, at the chromatin level, and conferring a very specific spatial expression pattern. {ECO:0000269|PubMed:16854978}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankHQ7039690.0HQ703969.1 Raphanus sativus CUP-SHAPED COTYLEDON 3 (CUC3) gene, partial cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018444483.10.0PREDICTED: protein CUP-SHAPED COTYLEDON 3-like
SwissprotQ9S8510.0NAC31_ARATH; Protein CUP-SHAPED COTYLEDON 3
TrEMBLA0A397YS590.0A0A397YS59_BRACM; Uncharacterized protein
TrEMBLM4DGX40.0M4DGX4_BRARP; Uncharacterized protein
STRINGBra015750.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM40028174
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G76420.11e-166NAC family protein
Publications ? help Back to Top
  1. Chen C, et al.
    Transcriptome profiling reveals roles of meristem regulators and polarity genes during fruit trichome development in cucumber (Cucumis sativus L.).
    J. Exp. Bot., 2014. 65(17): p. 4943-58
    [PMID:24962999]
  2. Gonçalves B, et al.
    A conserved role for CUP-SHAPED COTYLEDON genes during ovule development.
    Plant J., 2015. 83(4): p. 732-42
    [PMID:26119568]
  3. Balkunde R,Kitagawa M,Xu XM,Wang J,Jackson D
    SHOOT MERISTEMLESS trafficking controls axillary meristem formation, meristem size and organ boundaries in Arabidopsis.
    Plant J., 2017. 90(3): p. 435-446
    [PMID:28161901]
  4. Espinosa-Ruiz A, et al.
    TOPLESS mediates brassinosteroid control of shoot boundaries and root meristem development in Arabidopsis thaliana.
    Development, 2017. 144(9): p. 1619-1628
    [PMID:28320734]
  5. Koyama T,Sato F,Ohme-Takagi M
    Roles of miR319 and TCP Transcription Factors in Leaf Development.
    Plant Physiol., 2017. 175(2): p. 874-885
    [PMID:28842549]