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 Potri.007G014400.2
Common NamePtVNS01, WND5A
Organism
Populus trichocarpa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus
Family NAC
Protein Properties Length: 346aa    MW: 39774.3 Da    PI: 4.8368
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Potri.007G014400.2genomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM179.87.2e-5691381129
                 NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...kvkaeekewyfFskrdkkyatgkrknratksgyWkatgk 88 
                         +ppGfrFhPtdeelv +yL+kkv+++k++l +vi+e+d+y++ePwdL++     ++e++ewyfFs++dkky+tg+r+nrat +g+Wkatg+
  Potri.007G014400.2   9 VPPGFRFHPTDEELVGYYLRKKVASQKIDL-DVIREIDLYRIEPWDLQErcrIGYEEQNEWYFFSHKDKKYPTGTRTNRATMAGFWKATGR 98 
                         69****************************.9***************953432233667******************************** PP

                 NAM  89 dkevlskkgelvglkktLvfykgrapkgektdWvmheyrle 129
                         dk+v++ k++l+g++ktLvfykgrap+g+ktdW+mheyrle
  Potri.007G014400.2  99 DKSVYD-KTKLIGMRKTLVFYKGRAPNGQKTDWIMHEYRLE 138
                         ******.999*****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019419.29E-615158IPR003441NAC domain
PROSITE profilePS5100559.6579158IPR003441NAC domain
PfamPF023654.3E-2910137IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010200Biological Processresponse to chitin
GO:0048759Biological Processxylem vessel member cell differentiation
GO:1901348Biological Processpositive regulation of secondary cell wall biogenesis
GO:1990110Biological Processcallus formation
GO:0005634Cellular Componentnucleus
GO:0044212Molecular Functiontranscription regulatory region DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 346 aa     Download sequence    Send to blast
MMESMESCVP PGFRFHPTDE ELVGYYLRKK VASQKIDLDV IREIDLYRIE PWDLQERCRI  60
GYEEQNEWYF FSHKDKKYPT GTRTNRATMA GFWKATGRDK SVYDKTKLIG MRKTLVFYKG  120
RAPNGQKTDW IMHEYRLESD ENGPPQEEGW VVCRAFKKRT TGQNKSIEGW DSSYFYEESS  180
GVSSVVDPMD YITRQPQNFL AQNFLCKQEI EGDNLSFMHS ENFVQLPQLE SPSLPLIKRP  240
SSSVSLISEN NNSNNEVEEQ NRMLSNNNTQ KVTDWRALDK FVASQLSQED RYDGDGVSSF  300
VGAENNSSDM SLLLLQSGRD EGNNKFNGFL SSSPDCDIGI CIFEK*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3ulx_A2e-51615912169Stress-induced transcription factor NAC1
Search in ModeBase
Expression -- Description ? help Back to Top
Source Description
UniprotDEVELOPMENTAL STAGE: Up-regulated during xylem vessel element formation. Expressed preferentially in procambial cells adjacent to root meristem. {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:25148240}.
UniprotTISSUE SPECIFICITY: Expressed in root metaxylem pole and in shoot pre-procambium and procambium (PubMed:18445131). Present in root developing xylems (PubMed:16103214). Specifically expressed in vessels but not in interfascicular fibers in stems (PubMed:25148240). {ECO:0000269|PubMed:16103214, ECO:0000269|PubMed:18445131, ECO:0000269|PubMed:25148240}.
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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00266DAPTransfer from AT2G18060Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapPotri.007G014400.2
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
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAB5999320.0AB599932.1 Populus trichocarpa PtVNS01 mRNA for transcription factor, complete cds.
GenBankHQ2158550.0HQ215855.1 Populus trichocarpa wood-associated NAC domain transcription factor 5A (WND5A) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_024460834.10.0NAC domain-containing protein 37 isoform X2
SwissprotQ9SL411e-172NAC37_ARATH; NAC domain-containing protein 37
TrEMBLA0A2K1ZMJ00.0A0A2K1ZMJ0_POPTR; NAC family protein
STRINGPOPTR_0007s13910.10.0(Populus trichocarpa)
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G18060.11e-154vascular 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. Zhong R,Lee C,Ye ZH
    Functional characterization of poplar wood-associated NAC domain transcription factors.
    Plant Physiol., 2010. 152(2): p. 1044-55
    [PMID:19965968]
  3. Ohtani M, et al.
    A NAC domain protein family contributing to the regulation of wood formation in poplar.
    Plant J., 2011. 67(3): p. 499-512
    [PMID:21649762]
  4. 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]
  5. Tan TT, et al.
    Transcription Factors VND1-VND3 Contribute to Cotyledon Xylem Vessel Formation.
    Plant Physiol., 2018. 176(1): p. 773-789
    [PMID:29133368]