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 GSBRNA2T00151449001
Common NameGSBRNA2T00151449001
Organism
Brassica napus
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: 333aa    MW: 38067.4 Da    PI: 7.1605
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
GSBRNA2T00151449001genomeGenoscopeView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM172.21.6e-5391381129
                  NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvka...eekewyfFskrdkkyatgkrknratksgyWkatg 87 
                          +ppGfrFhPtdeel+++yLkkk++ +k+e+ evi+evd++k+ePwdL++++k     ++ewyfFs++d+ky+tg+r+nrat++g+Wkatg
  GSBRNA2T00151449001   9 VPPGFRFHPTDEELLHYYLKKKISYHKFEM-EVIREVDLNKLEPWDLQERCKIgstPQNEWYFFSHKDRKYPTGSRTNRATHAGFWKATG 97 
                          69****************************.99**************964444222455******************************* PP

                  NAM  88 kdkevlskkgelvglkktLvfykgrapkgektdWvmheyrle 129
                          +dk + + + +++g++ktLvfykgrap+g+ktdW+mheyrle
  GSBRNA2T00151449001  98 RDKCIRN-SYKKIGMRKTLVFYKGRAPHGQKTDWIMHEYRLE 138
                          ******9.8999****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019412.75E-608160IPR003441NAC domain
PROSITE profilePS5100558.099160IPR003441NAC domain
PfamPF023658.2E-2810137IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 333 aa     Download sequence    Send to blast
MGSSSNGGVP PGFRFHPTDE ELLHYYLKKK ISYHKFEMEV IREVDLNKLE PWDLQERCKI  60
GSTPQNEWYF FSHKDRKYPT GSRTNRATHA GFWKATGRDK CIRNSYKKIG MRKTLVFYKG  120
RAPHGQKTDW IMHEYRLEDT DDPQGNPSED GWVVCRVFMK KNLFKVVTEG GSSINSTDQY  180
NHDASNNNNS LQARSFMHRD SPYQLVRNHG ATTLELNKPD LTLHQYPPIF HKPPSLGFDY  240
SAGLPRDCES AASEGLQYQQ ACEPGLEVGT CETVGEWSMM DRLVTCHMGN EDSSRGIRFE  300
DGNNNSSSVV QPVPETNQLS LRSEMDFWGY SK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A5e-52916217167NO APICAL MERISTEM PROTEIN
1ut4_B5e-52916217167NO APICAL MERISTEM PROTEIN
1ut7_A5e-52916217167NO APICAL MERISTEM PROTEIN
1ut7_B5e-52916217167NO APICAL MERISTEM PROTEIN
3swm_A6e-52916220170NAC domain-containing protein 19
3swm_B6e-52916220170NAC domain-containing protein 19
3swm_C6e-52916220170NAC domain-containing protein 19
3swm_D6e-52916220170NAC domain-containing protein 19
3swp_A6e-52916220170NAC domain-containing protein 19
3swp_B6e-52916220170NAC domain-containing protein 19
3swp_C6e-52916220170NAC domain-containing protein 19
3swp_D6e-52916220170NAC domain-containing protein 19
4dul_A5e-52916217167NAC domain-containing protein 19
4dul_B5e-52916217167NAC domain-containing protein 19
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Detectable in lateral root development when they reach 10 mm long. {ECO:0000269|PubMed:20197506}.
UniprotTISSUE SPECIFICITY: Expressed throughout the root cap, in both columella (COL) and lateral root cap (LRC) cells, with higher levels in the COL-adjoining LRC than the upper LRC. Also present at low levels expression in the tips of cotyledons and the cotyledon vasculature, as weel as in vasculature of the first pair of true leaves and at the hydathodes. {ECO:0000269|PubMed:20197506}.
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator. Together with BRN1 and SMB, regulates cellular maturation of root cap. Promotes the expression of genes involved in secondary cell walls (SCW) biosynthesis. {ECO:0000269|PubMed:20197506}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapGSBRNA2T00151449001
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY1336810.0AY133681.1 Arabidopsis thaliana clone C103095 putative NAM/NAP (At4g10350) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009134191.10.0PREDICTED: protein BEARSKIN2
SwissprotQ9SV870.0BRN2_ARATH; Protein BEARSKIN2
TrEMBLA0A397ZYP70.0A0A397ZYP7_BRACM; Uncharacterized protein
STRINGBra000709.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM52132648
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G10350.10.0NAC domain containing protein 70
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. Chalhoub B, et al.
    Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome.
    Science, 2014. 345(6199): p. 950-3
    [PMID:25146293]
  3. Kamiya M, et al.
    Control of root cap maturation and cell detachment by BEARSKIN transcription factors in Arabidopsis.
    Development, 2016. 143(21): p. 4063-4072
    [PMID:27803060]