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 Carubv10007390m
Common NameCARUB_v10007390mg
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: 262aa    MW: 30063.7 Da    PI: 7.8552
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10007390mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM166.21.2e-5161351128
              NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp.k.kvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkev 92 
                      lppGfrFhPtd+el+++yL +kveg ++el evi+ +++yk++PwdLp k  + +++ ew+fF++rdkky++g+r+nratk+gyWkatgkd+++
  Carubv10007390m   6 LPPGFRFHPTDDELISYYLSRKVEGLEIEL-EVIPVIELYKFDPWDLPdKsFLPNRDLEWFFFCPRDKKYPNGSRTNRATKAGYWKATGKDRKI 98 
                      79****************************.99**************95434455677************************************ PP

              NAM  93 lsk.kgelvglkktLvfykgrapkgektdWvmheyrl 128
                      ++k ++  +g +kt+vfy+grap g +t+W+mheyrl
  Carubv10007390m  99 TCKsSRVIIGYRKTIVFYEGRAPLGDRTNWFMHEYRL 135
                      **9555669**************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019416.93E-593159IPR003441NAC domain
PROSITE profilePS5100557.7126159IPR003441NAC domain
PfamPF023651.3E-287135IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0008283Biological Processcell proliferation
GO:0071365Biological Processcellular response to auxin stimulus
GO:0005634Cellular Componentnucleus
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
GO:0043565Molecular Functionsequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 262 aa     Download sequence    Send to blast
MGSSSLPPGF RFHPTDDELI SYYLSRKVEG LEIELEVIPV IELYKFDPWD LPDKSFLPNR  60
DLEWFFFCPR DKKYPNGSRT NRATKAGYWK ATGKDRKITC KSSRVIIGYR KTIVFYEGRA  120
PLGDRTNWFM HEYRLCDDDL SQKSPNYKGA FALCRVIKKN ELKTNSKSLK NKNEQDIGSG  180
YSSLATSPCR DETSQFQSFK PSSTTNDSSS IWISPDLILD SSKDYPQIQD VASEYFPNSN  240
FPVTTANHHV EFPASSSYFN VD
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A4e-52516016166NO APICAL MERISTEM PROTEIN
1ut4_B4e-52516016166NO APICAL MERISTEM PROTEIN
1ut7_A4e-52516016166NO APICAL MERISTEM PROTEIN
1ut7_B4e-52516016166NO APICAL MERISTEM PROTEIN
4dul_A4e-52516016166NAC domain-containing protein 19
4dul_B4e-52516016166NAC domain-containing protein 19
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor involved in tissue reunion of wounded inflorescence stems. Required for the division of pith cells in the reunion process, which is dependent on polar-transported auxin and the wound-inducible hormones ethylene and jasmonate (PubMed:21911380). Binds to the promoters of XTH19 and XTH20 to induce their expression via auxin signaling. XTH19 and XTH20 are involved in cell proliferation in the tissue reunion process of incised stems (PubMed:25182467). Involved in hypocotyl graft union formation. Required for the auxin- mediated promotion of vascular tissue proliferation during hypocotyl graft attachment (PubMed:27986917). {ECO:0000269|PubMed:21911380, ECO:0000269|PubMed:25182467, ECO:0000269|PubMed:27986917}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00439DAPTransfer from AT4G17980Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10007390m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by wounding in the flowering stem. {ECO:0000269|PubMed:21911380}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL0218891e-102AL021889.2 Arabidopsis thaliana DNA chromosome 4, BAC clone T6K21 (ESSA project).
GenBankAL1615471e-102AL161547.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 47.
GenBankCP0026871e-102CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006282929.20.0NAC domain-containing protein 71
SwissprotO496971e-162NAC71_ARATH; NAC domain-containing protein 71
TrEMBLR0F2D00.0R0F2D0_9BRAS; Uncharacterized protein (Fragment)
STRINGXP_006282929.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM21512777
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G17980.11e-145NAC domain containing protein 71
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. Asahina M,Satoh S
    Molecular and physiological mechanisms regulating tissue reunion in incised plant tissues.
    J. Plant Res., 2015. 128(3): p. 381-8
    [PMID:25736731]
  3. Matsuoka K, et al.
    Differential Cellular Control by Cotyledon-Derived Phytohormones Involved in Graft Reunion of Arabidopsis Hypocotyls.
    Plant Cell Physiol., 2016. 57(12): p. 2620-2631
    [PMID:27986917]