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 evm_27.model.AmTr_v1.0_scaffold00017.45
Common NameAMTR_s00017p00119990
Organism
Amborella trichopoda
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; basal Magnoliophyta; Amborellales; Amborellaceae; Amborella
Family NAC
Protein Properties Length: 282aa    MW: 32646.5 Da    PI: 5.4442
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
evm_27.model.AmTr_v1.0_scaffold00017.45genomeTAGPView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM174.92.2e-5481371128
                                      NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...kvkaeekewyfFskrdkk 67 
                                              +ppGfrFhPt+eelv +yL+kk+++++++l ++i+++d+y++ePwdL++   ++++e+kewyfFs +d+k
  evm_27.model.AmTr_v1.0_scaffold00017.45   8 VPPGFRFHPTEEELVGYYLTKKITSQQIDL-DIIRDIDLYRIEPWDLHErcgNLYEEQKEWYFFSYKDRK 76 
                                              69****************************.99**************854566677999*********** PP

                                      NAM  68 yatgkrknratksgyWkatgkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128
                                              y+tg+r+nrat +g+Wkatg+dk+++sk+++++g++ktLvfy+grap+g+k+dW+mheyrl
  evm_27.model.AmTr_v1.0_scaffold00017.45  77 YPTGTRTNRATLAGFWKATGRDKTIFSKGNKVIGMRKTLVFYQGRAPNGRKSDWIMHEYRL 137
                                              ***********************************************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019413.53E-594158IPR003441NAC domain
PROSITE profilePS5100558.1088158IPR003441NAC domain
PfamPF023653.1E-279137IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0045491Biological Processxylan metabolic process
GO:0045893Biological Processpositive regulation of transcription, DNA-templated
GO:0090059Biological Processprotoxylem development
GO:0005634Cellular Componentnucleus
GO:0042803Molecular Functionprotein homodimerization activity
GO:0043565Molecular Functionsequence-specific DNA binding
GO:0044212Molecular Functiontranscription regulatory region DNA binding
GO:0046982Molecular Functionprotein heterodimerization activity
Sequence ? help Back to Top
Protein Sequence    Length: 282 aa     Download sequence    Send to blast
MEMDTMIVPP GFRFHPTEEE LVGYYLTKKI TSQQIDLDII RDIDLYRIEP WDLHERCGNL  60
YEEQKEWYFF SYKDRKYPTG TRTNRATLAG FWKATGRDKT IFSKGNKVIG MRKTLVFYQG  120
RAPNGRKSDW IMHEYRLQTT EDAPPQEEGW VVCRAFRKQS SSTKGSTEAW RSINQARIPL  180
LTDVFDLSSQ FSDSPPLIPL NEYQNASSCN DGSHLDNMNT PQFLHLPKLE SSNSPMQQLQ  240
KTDFEPSYTL VEDQENENSS RGKATTWGAL DWIFNSLLDQ P*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A3e-49316412171NO APICAL MERISTEM PROTEIN
1ut4_B3e-49316412171NO APICAL MERISTEM PROTEIN
1ut7_A3e-49316412171NO APICAL MERISTEM PROTEIN
1ut7_B3e-49316412171NO APICAL MERISTEM PROTEIN
3swm_A3e-49316415174NAC domain-containing protein 19
3swm_B3e-49316415174NAC domain-containing protein 19
3swm_C3e-49316415174NAC domain-containing protein 19
3swm_D3e-49316415174NAC domain-containing protein 19
3swp_A3e-49316415174NAC domain-containing protein 19
3swp_B3e-49316415174NAC domain-containing protein 19
3swp_C3e-49316415174NAC domain-containing protein 19
3swp_D3e-49316415174NAC domain-containing protein 19
4dul_A3e-49316412171NAC domain-containing protein 19
4dul_B3e-49316412171NAC domain-containing protein 19
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscription activator that binds to the secondary wall NAC binding element (SNBE), 5'-(T/A)NN(C/T)(T/C/G)TNNNNNNNA(A/C)GN(A/C/T)(A/T)-3', in the promoter of target genes (By similarity). Involved in xylem formation by promoting the expression of secondary wall-associated transcription factors and of genes involved in secondary wall biosynthesis and programmed cell death, genes driven by the secondary wall NAC binding element (SNBE). Triggers thickening of secondary walls (PubMed:25148240). {ECO:0000250|UniProtKB:Q9LVA1, ECO:0000269|PubMed:25148240}.
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Induced by chitin (e.g. chitooctaose) (PubMed:17722694). Accumulates in plants exposed to callus induction medium (CIM) (PubMed:17581762). {ECO:0000269|PubMed:17581762, ECO:0000269|PubMed:17722694}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_020524437.10.0NAC domain-containing protein 37
RefseqXP_020524438.10.0NAC domain-containing protein 37
RefseqXP_020524439.10.0NAC domain-containing protein 37
SwissprotQ9SL411e-96NAC37_ARATH; NAC domain-containing protein 37
TrEMBLW1PF050.0W1PF05_AMBTC; Uncharacterized protein
STRINGERN085670.0(Amborella trichopoda)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
Representative plantOGRP1715800
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G18060.11e-85vascular related NAC-domain protein 1
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. Amborella Genome Project
    The Amborella genome and the evolution of flowering plants.
    Science, 2013. 342(6165): p. 1241089
    [PMID:24357323]
  3. Negi S,Tak H,Ganapathi TR
    Cloning and functional characterization of MusaVND1 using transgenic banana plants.
    Transgenic Res., 2015. 24(3): p. 571-85
    [PMID:25523085]
  4. Tan TT, et al.
    Transcription Factors VND1-VND3 Contribute to Cotyledon Xylem Vessel Formation.
    Plant Physiol., 2018. 176(1): p. 773-789
    [PMID:29133368]