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_00466.1_g00002.1
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: 315aa    MW: 35051.7 Da    PI: 7.4939
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Rsa1.0_00466.1_g00002.1genomeRGDView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM174.62.8e-54211491128
                      NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp.kkvkaeekewyfFskrdkkyatgkrknratksgyWka 85 
                              +ppGfrFhPtdeel+++yL kkv ++++++  +i++vd++k+ePw+Lp +k+k +ekewyfF+ rd+ky+tg r+nrat++gyWka
  Rsa1.0_00466.1_g00002.1  21 MPPGFRFHPTDEELITYYLLKKVLDSNFSC-AAISQVDLNKSEPWELPaEKAKMGEKEWYFFTLRDRKYPTGLRTNRATEAGYWKA 105
                              79****************************.88***************7788999******************************* PP

                      NAM  86 tgkdkevlsk.kgelvglkktLvfykgrapkgektdWvmheyrl 128
                              tgkd+e++s+ +++l g+kktLvfykgrapkgek+ Wvmheyrl
  Rsa1.0_00466.1_g00002.1 106 TGKDREIKSSkTKSLLGMKKTLVFYKGRAPKGEKSCWVMHEYRL 149
                              ********9856677***************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.96E-5915174IPR003441NAC domain
PROSITE profilePS5100557.0121174IPR003441NAC domain
PfamPF023651.3E-2822149IPR003441NAC 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: 315 aa     Download sequence    Send to blast
MDMDAFSGWE RSSRYEDETI MPPGFRFHPT DEELITYYLL KKVLDSNFSC AAISQVDLNK  60
SEPWELPAEK AKMGEKEWYF FTLRDRKYPT GLRTNRATEA GYWKATGKDR EIKSSKTKSL  120
LGMKKTLVFY KGRAPKGEKS CWVMHEYRLD GKFSYRYITS STKDEWVLSK VCLKSSVVSR  180
ETKLVSSSSS PVSVAGEVSS GVNVSSSVIA PIIDAFATEH VSCFSNTSAT AHHADASFPT  240
YLPAPPPLLP RQPRRIGGDD DVAFGQFMDL GSSGQFNFDD DAGFFSPNLP SLPPTVLLPP  300
LYGGGSALSF WPFAM
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A8e-482118017171NO APICAL MERISTEM PROTEIN
1ut4_B8e-482118017171NO APICAL MERISTEM PROTEIN
1ut7_A8e-482118017171NO APICAL MERISTEM PROTEIN
1ut7_B8e-482118017171NO APICAL MERISTEM PROTEIN
3swm_A9e-482118020174NAC domain-containing protein 19
3swm_B9e-482118020174NAC domain-containing protein 19
3swm_C9e-482118020174NAC domain-containing protein 19
3swm_D9e-482118020174NAC domain-containing protein 19
3swp_A9e-482118020174NAC domain-containing protein 19
3swp_B9e-482118020174NAC domain-containing protein 19
3swp_C9e-482118020174NAC domain-containing protein 19
3swp_D9e-482118020174NAC domain-containing protein 19
4dul_A8e-482118017171NAC domain-containing protein 19
4dul_B8e-482118017171NAC domain-containing protein 19
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator of STM and KNAT6. Involved in molecular mechanisms regulating shoot apical meristem (SAM) formation during embryogenesis and organ separation. Required for the fusion of septa of gynoecia along the length of the ovaries. Activates the shoot formation in callus in a STM-dependent manner. Seems to act as an inhibitor of cell division. {ECO:0000269|PubMed:10079219, ECO:0000269|PubMed:10750709, ECO:0000269|PubMed:11245578, ECO:0000269|PubMed:12163400, ECO:0000269|PubMed:12492830, ECO:0000269|PubMed:12610213, ECO:0000269|PubMed:12787253, ECO:0000269|PubMed:14617069, ECO:0000269|PubMed:15202996, ECO:0000269|PubMed:15294871, ECO:0000269|PubMed:15500463, ECO:0000269|PubMed:15723790, ECO:0000269|PubMed:16798887, ECO:0000269|PubMed:17122068, ECO:0000269|PubMed:17287247, ECO:0000269|PubMed:9212461}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapRsa1.0_00466.1_g00002.1
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By BRM, at the chromatin level, and conferring a very specific spatial expression pattern. Directly induced by ESR2 in response to cytokinins. Precise spatial regulation by post-transcriptional repression directed by the microRNA miR164. {ECO:0000269|PubMed:15202996, ECO:0000269|PubMed:15294871, ECO:0000269|PubMed:15723790, ECO:0000269|PubMed:16854978, ECO:0000269|PubMed:17056621, ECO:0000269|PubMed:17287247}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKC9667540.0KC966754.1 Brassica napus NAC transcription factor 54-1 (NAC54-1.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018433581.10.0PREDICTED: protein CUP-SHAPED COTYLEDON 1-like
SwissprotQ9FRV41e-149NAC54_ARATH; Protein CUP-SHAPED COTYLEDON 1
TrEMBLA0A0D3ADI00.0A0A0D3ADI0_BRAOL; Uncharacterized protein
STRINGBo1g129730.10.0(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM134811528
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G15170.11e-133NAC family protein
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. Shinohara N,Ohbayashi I,Sugiyama M
    Involvement of rRNA biosynthesis in the regulation of CUC1 gene expression and pre-meristematic cell mound formation during shoot regeneration.
    Front Plant Sci, 2014. 5: p. 159
    [PMID:24808900]
  3. Kamiuchi Y,Yamamoto K,Furutani M,Tasaka M,Aida M
    The CUC1 and CUC2 genes promote carpel margin meristem formation during Arabidopsis gynoecium development.
    Front Plant Sci, 2014. 5: p. 165
    [PMID:24817871]
  4. 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]
  5. Cui X, et al.
    REF6 recognizes a specific DNA sequence to demethylate H3K27me3 and regulate organ boundary formation in Arabidopsis.
    Nat. Genet., 2016. 48(6): p. 694-9
    [PMID:27111035]
  6. 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]
  7. 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]
  8. González-Carranza ZH, et al.
    HAWAIIAN SKIRT controls size and floral organ number by modulating CUC1 and CUC2 expression.
    PLoS ONE, 2017. 12(9): p. e0185106
    [PMID:28934292]