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 28623.m000400
Common NameLOC8258343, RCOM_0292300
Organism
Ricinus communis
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus
Family NAC
Protein Properties Length: 349aa    MW: 40091.6 Da    PI: 4.8296
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
28623.m000400genomeJCVIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM179.21.1e-5591381129
            NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...kvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevl 93 
                    +ppGfrFhPtdeelv +yL+kkv+++k++l +vi+++d+y++ePwdL+      ++e++ewyfFs++dkky+tg+r+nrat +g+Wkatg+dk+v+
  28623.m000400   9 VPPGFRFHPTDEELVGYYLRKKVASQKIDL-DVIRDIDLYRIEPWDLQDrcgIGYEEQNEWYFFSHKDKKYPTGTRTNRATMAGFWKATGRDKAVY 103
                    69****************************.9***************953543334677************************************* PP

            NAM  94 skkgelvglkktLvfykgrapkgektdWvmheyrle 129
                    + k++l+g++ktLvfykgrap+g+ktdW+mheyrle
  28623.m000400 104 D-KTKLIGMRKTLVFYKGRAPNGQKTDWIMHEYRLE 138
                    *.999*****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019416.8E-615158IPR003441NAC domain
PROSITE profilePS5100559.5139158IPR003441NAC domain
PfamPF023653.6E-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: 349 aa     Download sequence    Send to blast
MMEPMESCVP PGFRFHPTDE ELVGYYLRKK VASQKIDLDV IRDIDLYRIE PWDLQDRCGI  60
GYEEQNEWYF FSHKDKKYPT GTRTNRATMA GFWKATGRDK AVYDKTKLIG MRKTLVFYKG  120
RAPNGQKTDW IMHEYRLESD ENGPPQEEGW VVCRAFKKRT TGQNKSIEGW DSSYFYDESS  180
VVSSVVDPID YISRQPQNFL AQNFLCKQEI EADNLSFMHA DSFVQLPQLE SPSLPLLKRP  240
SSLSLISEIN NNNNNEKDEQ ARGCSSNNNN NINNKRVTDW RALDKFVASQ LSQEDRYDGD  300
AASSFGVAEN NTDMQLLLLQ SGRDEEGNKF NGFLSSSSDC DIGICIFEK
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A1e-50916417171NO APICAL MERISTEM PROTEIN
1ut4_B1e-50916417171NO APICAL MERISTEM PROTEIN
1ut7_A1e-50916417171NO APICAL MERISTEM PROTEIN
1ut7_B1e-50916417171NO APICAL MERISTEM PROTEIN
3swm_A1e-50916420174NAC domain-containing protein 19
3swm_B1e-50916420174NAC domain-containing protein 19
3swm_C1e-50916420174NAC domain-containing protein 19
3swm_D1e-50916420174NAC domain-containing protein 19
3swp_A1e-50916420174NAC domain-containing protein 19
3swp_B1e-50916420174NAC domain-containing protein 19
3swp_C1e-50916420174NAC domain-containing protein 19
3swp_D1e-50916420174NAC domain-containing protein 19
4dul_A1e-50916417171NAC domain-containing protein 19
4dul_B1e-50916417171NAC 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}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00266DAPTransfer from AT2G18060Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMap28623.m000400
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_002531517.10.0NAC domain-containing protein 37
SwissprotQ9SL411e-168NAC37_ARATH; NAC domain-containing protein 37
TrEMBLB9SZU80.0B9SZU8_RICCO; NAC domain-containing protein, putative
STRINGXP_002531517.10.0(Ricinus communis)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF45653459
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT2G18060.11e-131vascular 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. 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]
  3. Tan TT, et al.
    Transcription Factors VND1-VND3 Contribute to Cotyledon Xylem Vessel Formation.
    Plant Physiol., 2018. 176(1): p. 773-789
    [PMID:29133368]