PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Home  TFext  BLAST  Prediction  Download  Help  About  Links  PlantRegMap
(e.g., LFY)
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID XP_009103538.1
Organism
Brassica rapa
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica
Family NAC
Protein Properties Length: 294aa    MW: 34042.4 Da    PI: 6.0809
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
XP_009103538.1genomeNCBIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM1738.8e-54121382127
             NAM   2 ppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...kvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevl 93 
                     ppGfrFhPtdeelv +yLkkkv++++++l +vi+e+d+yk+ePwdL++     ++e+kewyfFs++dkky+tg+r+nrat +g+Wkatg+dk+v+
  XP_009103538.1  12 PPGFRFHPTDEELVGYYLKKKVASQSIDL-DVIREIDLYKIEPWDLQErcrIGYEEQKEWYFFSHKDKKYPTGTRTNRATMAGFWKATGRDKAVY 105
                     9****************************.9***************953432234677************************************* PP

             NAM  94 skkgelvglkktLvfykgrapkgektdWvmheyr 127
                       +++l+g++ktLvfy+grap+g+k+dW++hey 
  XP_009103538.1 106 L-NSKLIGMRKTLVFYRGRAPNGQKSDWIIHEYY 138
                     *.999***************************95 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.44E-597162IPR003441NAC domain
PROSITE profilePS5100557.40611162IPR003441NAC domain
PfamPF023659.6E-2712137IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0048759Biological Processxylem vessel member cell differentiation
GO:1901348Biological Processpositive regulation of secondary cell wall biogenesis
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 294 aa     Download sequence    Send to blast
MMGLVDQESS IPPGFRFHPT DEELVGYYLK KKVASQSIDL DVIREIDLYK IEPWDLQERC  60
RIGYEEQKEW YFFSHKDKKY PTGTRTNRAT MAGFWKATGR DKAVYLNSKL IGMRKTLVFY  120
RGRAPNGQKS DWIIHEYYSL ESHQNAPQQQ EEGWVVCRAF KKRTTVPTKR RQLWDPNCFI  180
YDDATLLEPL DKNVLIKRAK HNTDGLAVTP FKQELPSEAN QIVDDGFFGS YLKSMGDDEL  240
SQLPQLESPS LASEKLPETT SRTGEDDLGA EKRMTDWRAL DKFVASQFLM SGEE
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A4e-501016616169NO APICAL MERISTEM PROTEIN
1ut4_B4e-501016616169NO APICAL MERISTEM PROTEIN
1ut7_A4e-501016616169NO APICAL MERISTEM PROTEIN
1ut7_B4e-501016616169NO APICAL MERISTEM PROTEIN
3swm_A4e-501016619172NAC domain-containing protein 19
3swm_B4e-501016619172NAC domain-containing protein 19
3swm_C4e-501016619172NAC domain-containing protein 19
3swm_D4e-501016619172NAC domain-containing protein 19
3swp_A4e-501016619172NAC domain-containing protein 19
3swp_B4e-501016619172NAC domain-containing protein 19
3swp_C4e-501016619172NAC domain-containing protein 19
3swp_D4e-501016619172NAC domain-containing protein 19
4dul_A4e-501016616169NAC domain-containing protein 19
4dul_B4e-501016616169NAC domain-containing protein 19
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: Detected in root protoxylem and metaxylem poles and in vessels of protoxylems, outermost metaxylems, inner metaxylems, shoots and hypocotyls. Expressed in roots, hypocotyls, cotyledons and leaves (PubMed:18445131). Present in developing xylems (PubMed:16103214, PubMed:17565617). 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:17565617, 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
MP00590DAPTransfer from AT5G66300Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapXP_009103538.1
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankKF7382780.0KF738278.1 Brassica napus NAC transcription factor 105 (NAC105.1) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_009103538.10.0PREDICTED: NAC domain-containing protein 105 isoform X1
RefseqXP_013651740.10.0NAC domain-containing protein 105 isoform X1
SwissprotQ9FH591e-170NC105_ARATH; NAC domain-containing protein 105
TrEMBLA0A078I5N50.0A0A078I5N5_BRANA; BnaA07g12690D protein
TrEMBLA0A3P6B0A00.0A0A3P6B0A0_BRACM; Uncharacterized protein
STRINGBra012065.1-P0.0(Brassica rapa)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM151341619
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G66300.11e-160NAC domain containing protein 105
Publications ? help Back to Top
  1. Tan TT, et al.
    Transcription Factors VND1-VND3 Contribute to Cotyledon Xylem Vessel Formation.
    Plant Physiol., 2018. 176(1): p. 773-789
    [PMID:29133368]