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 XP_013585238.1
Organism
Brassica oleracea
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family NAC
Protein Properties Length: 301aa    MW: 33694.9 Da    PI: 8.9274
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_013585238.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM162.12.1e-50181431128
             NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlsk 95 
                     +ppGfrFhPtdeel++++L kkv ++++++  +i++vd   ++Pw+Lp+k+k +ekewyfF++rd+ky+tg r+nrat++gyWkatgkd+e++s+
  XP_013585238.1  18 MPPGFRFHPTDEELITYFLLKKVLDSNFSC-AAISQVDX--SKPWELPEKAKMGEKEWYFFTRRDRKYPTGLRTNRATEAGYWKATGKDREIKSS 109
                     79**************************99.78999986..67*****99999****************************************98 PP

             NAM  96 .kgelvglkktLvfykgrapkgektdWvmheyrl 128
                      +++l g+kktLvfykgrapkgek+ Wvmheyrl
  XP_013585238.1 110 kTNSLLGMKKTLVFYKGRAPKGEKSCWVMHEYRL 143
                     56677***************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.23E-5615168IPR003441NAC domain
PROSITE profilePS5100553.48118168IPR003441NAC domain
PfamPF023651.5E-2819143IPR003441NAC 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: 301 aa     Download sequence    Send to blast
MDVFNGWERS RLEDETIMPP GFRFHPTDEE LITYFLLKKV LDSNFSCAAI SQVDXSKPWE  60
LPEKAKMGEK EWYFFTRRDR KYPTGLRTNR ATEAGYWKAT GKDREIKSSK TNSLLGMKKT  120
LVFYKGRAPK GEKSCWVMHE YRLDGKFSYH YITSSAKDEW VLSKVCLKSS VVSRETKLVS  180
SSSVSVTSIS CSSSTGSLIA PVIDAFATEH VSCFSNTSAS HVDASFPIYL PAPPQSLPRQ  240
PRRIDDVAFG QFMGLGSTGQ FNIDAAFLPN LPSLPPTFLH PPPQXYAPYG GAAVSCWPFA  300
L
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A3e-461817417171NO APICAL MERISTEM PROTEIN
1ut4_B3e-461817417171NO APICAL MERISTEM PROTEIN
1ut7_A3e-461817417171NO APICAL MERISTEM PROTEIN
1ut7_B3e-461817417171NO APICAL MERISTEM PROTEIN
3swm_A3e-461817420174NAC domain-containing protein 19
3swm_B3e-461817420174NAC domain-containing protein 19
3swm_C3e-461817420174NAC domain-containing protein 19
3swm_D3e-461817420174NAC domain-containing protein 19
3swp_A3e-461817420174NAC domain-containing protein 19
3swp_B3e-461817420174NAC domain-containing protein 19
3swp_C3e-461817420174NAC domain-containing protein 19
3swp_D3e-461817420174NAC domain-containing protein 19
4dul_A3e-461817417171NAC domain-containing protein 19
4dul_B3e-461817417171NAC domain-containing protein 19
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: First observed in young embryonic SAM. Later confined to the boundaries between cotyledon primordia and the SAM. In mature embryos, localized around first leaves primordia. Only weakly present in vegetative SAM. In inflorescence, observed at the boundaries between floral organ primordia. In callus, expressed during transition to shoot development, with a progressive restriction to specific areas corresponding to future shoot apex. {ECO:0000269|PubMed:11245578, ECO:0000269|PubMed:12492830}.
UniprotTISSUE SPECIFICITY: Expressed in inflorescence stems, rosette leaves, aerial parts of seedlings, flowers, floral buds and roots. {ECO:0000269|PubMed:11245578}.
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
PlantRegMapXP_013585238.1
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
GenBankJN1698200.0JN169820.1 Brassica napus isolate Bna1 CUC1-like gene, complete sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_013585238.10.0PREDICTED: LOW QUALITY PROTEIN: protein CUP-SHAPED COTYLEDON 1
SwissprotQ9FRV41e-146NAC54_ARATH; Protein CUP-SHAPED COTYLEDON 1
TrEMBLA0A0D3BBF71e-174A0A0D3BBF7_BRAOL; Uncharacterized protein
STRINGBo3g066690.11e-175(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-126NAC 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]