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 Carubv10020504m
Common NameCARUB_v10020504mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family NAC
Protein Properties Length: 369aa    MW: 41946.4 Da    PI: 7.1775
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10020504mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM169.98.1e-53171461128
              NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvka.eekewyfFskrdkkyatgkrknratksgyWkatgkdke 91 
                      +ppGfrFhPt+eel+ +yLkkkv+ ++++l +vi+evd++k+ePw+L++  ++ +  ++ewyfFs++dkky+tg+r+nrat++g+Wkatg+dk+
  Carubv10020504m  17 VPPGFRFHPTEEELLYYYLKKKVSYEPIDL-DVIREVDLNKLEPWELKEkcRIGSgPQNEWYFFSHKDKKYPTGTRTNRATAAGFWKATGRDKS 109
                      69****************************.9***************952444443456*********************************** PP

              NAM  92 vlskkgelvglkktLvfykgrapkgektdWvmheyrl 128
                      ++ ++++++gl+ktLvfy+grap+g+kt+W+mheyrl
  Carubv10020504m 110 IHLNSSKKIGLRKTLVFYTGRAPHGQKTEWIMHEYRL 146
                      ***********************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.14E-5710166IPR003441NAC domain
PROSITE profilePS5100557.31617166IPR003441NAC domain
PfamPF023653.1E-2718146IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0003002Biological Processregionalization
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0009834Biological Processplant-type secondary cell wall biogenesis
GO:0010455Biological Processpositive regulation of cell fate commitment
GO:0048829Biological Processroot cap development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 369 aa     Download sequence    Send to blast
MEIGSSSTVA GGGQLSVPPG FRFHPTEEEL LYYYLKKKVS YEPIDLDVIR EVDLNKLEPW  60
ELKEKCRIGS GPQNEWYFFS HKDKKYPTGT RTNRATAAGF WKATGRDKSI HLNSSKKIGL  120
RKTLVFYTGR APHGQKTEWI MHEYRLDDIE NEIQEDGWVV CRVFKKKNHF RGFHQEQDQD  180
HHHHHQYIST NNNDHDHHHH IDSNSNNHSS LIPHPLDLHH HIGRQIHMPL HEFANTLNHG  240
SMHLPQLFSP DSAAAAAAAA AATQPFVSSI NTTDIECSQN LLRLTSNNNY GGDWSFLDKL  300
LTTSNMNQQV QNHQAKCFGD LSNNDNNDQA VTHDHLGNNN GASSSSPVNQ RFPFHYLGND  360
ANLLKFPK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A8e-501416814167NO APICAL MERISTEM PROTEIN
1ut4_B8e-501416814167NO APICAL MERISTEM PROTEIN
1ut7_A8e-501416814167NO APICAL MERISTEM PROTEIN
1ut7_B8e-501416814167NO APICAL MERISTEM PROTEIN
3swm_A1e-491416817170NAC domain-containing protein 19
3swm_B1e-491416817170NAC domain-containing protein 19
3swm_C1e-491416817170NAC domain-containing protein 19
3swm_D1e-491416817170NAC domain-containing protein 19
3swp_A1e-491416817170NAC domain-containing protein 19
3swp_B1e-491416817170NAC domain-containing protein 19
3swp_C1e-491416817170NAC domain-containing protein 19
3swp_D1e-491416817170NAC domain-containing protein 19
4dul_A8e-501416814167NAC domain-containing protein 19
4dul_B8e-501416814167NAC domain-containing protein 19
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription regulator. Together with BRN1 and BRN2, regulates cellular maturation of root cap. Represses stem cell-like divisions in the root cap daughter cells, and thus promotes daughter cell fate. Inhibits expression of its positive regulator FEZ in a feedback loop for controlled switches in cell division plane. Promotes the expression of genes involved in secondary cell walls (SCW) biosynthesis. {ECO:0000269|PubMed:19081078, ECO:0000269|PubMed:20197506}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00250DAPTransfer from AT1G79580Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10020504m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: By FEZ in oriented-divised root cap stem cells. {ECO:0000269|PubMed:19081078}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAC0107930.0AC010793.3 Genomic sequence for Arabidopsis thaliana BAC F20B17 from chromosome I, complete sequence.
GenBankCP0026840.0CP002684.1 Arabidopsis thaliana chromosome 1 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006302423.10.0protein SOMBRERO
RefseqXP_023643334.10.0protein SOMBRERO
SwissprotQ9MA170.0SMB_ARATH; Protein SOMBRERO
TrEMBLR0GHU80.0R0GHU8_9BRAS; Uncharacterized protein
STRINGXP_006302423.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM66532542
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G79580.31e-179NAC family protein
Publications ? help Back to Top
  1. Fendrych M, et al.
    Programmed cell death controlled by ANAC033/SOMBRERO determines root cap organ size in Arabidopsis.
    Curr. Biol., 2014. 24(9): p. 931-40
    [PMID:24726156]
  2. Bennett T,van den Toorn A,Willemsen V,Scheres B
    Precise control of plant stem cell activity through parallel regulatory inputs.
    Development, 2014. 141(21): p. 4055-64
    [PMID:25256342]
  3. Karve R,Suárez-Román F,Iyer-Pascuzzi AS
    The Transcription Factor NIN-LIKE PROTEIN7 Controls Border-Like Cell Release.
    Plant Physiol., 2016. 171(3): p. 2101-11
    [PMID:27221617]
  4. 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]