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 RrC4607_p1
Organism
Raphanus raphanistrum
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus
Family NAC
Protein Properties Length: 195aa    MW: 22424 Da    PI: 4.734
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
RrC4607_p1genomeMSUView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM93.92.6e-29161257128
         NAM   7 FhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlsk.kgelvglkk 104
                 F Ptdeelvv++L++k++  +++  +vi+++d+y ++PwdLp k+ +e ++wyf+s++         ++r+t++gyW + g d++++ + ++++vg+kk
  RrC4607_p1  16 FFPTDEELVVHFLQRKASLLPCHP-DVIPDLDLYPYDPWDLPGKALGEGRQWYFYSRKT--------QERVTSNGYWGSMGIDEPIFISsTHKKVGIKK 105
                 99*******************999.99***************87778899*****9975........5799***************99867888***** PP

         NAM 105 tLvfykgrapkgektdWvmheyrl 128
                  ++fy g++    +t+W+m+ey+l
  RrC4607_p1 106 YFTFYLGDS----QTNWIMQEYSL 125
                 *****7654....68*******97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
PROSITE profilePS5100534.91810163IPR003441NAC domain
SuperFamilySSF1019413.27E-3715163IPR003441NAC domain
PfamPF023652.7E-1816125IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 195 aa     Download sequence    Send to blast
MKAKEERKVG SIILWFFPTD EELVVHFLQR KASLLPCHPD VIPDLDLYPY DPWDLPGKAL  60
GEGRQWYFYS RKTQERVTSN GYWGSMGIDE PIFISSTHKK VGIKKYFTFY LGDSQTNWIM  120
QEYSLPDSSS SSKRSSKKSG RGSTSSSHKT DYSKWAICRV YEQNCSEEED DDGTELSCLD  180
EVFLSLDDLD EVSLP
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3swm_A1e-281616926174NAC domain-containing protein 19
3swm_B1e-281616926174NAC domain-containing protein 19
3swm_C1e-281616926174NAC domain-containing protein 19
3swm_D1e-281616926174NAC domain-containing protein 19
3swp_A1e-281616926174NAC domain-containing protein 19
3swp_B1e-281616926174NAC domain-containing protein 19
3swp_C1e-281616926174NAC domain-containing protein 19
3swp_D1e-281616926174NAC domain-containing protein 19
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtProbable transcription factor that influences tracheary elements and xylem development by negatively regulating secondary cell wall fiber synthesis and programmed cell death. {ECO:0000269|PubMed:18069942, ECO:0000269|PubMed:20458494}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAK1187830.0AK118783.1 Arabidopsis thaliana At5g64530 mRNA for unknown protein, complete cds, clone: RAFL21-11-N14.
GenBankBT0257460.0BT025746.1 Arabidopsis thaliana At5g64530 mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_018489325.11e-129PREDICTED: NAC domain-containing protein 104-like
SwissprotQ8GWK61e-109NC104_ARATH; NAC domain-containing protein 104
TrEMBLA0A397Z6T61e-110A0A397Z6T6_BRACM; Uncharacterized protein
STRINGBra024306.1-P1e-109(Brassica rapa)
STRINGBo3g101220.11e-109(Brassica oleracea)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM36742862
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G64530.13e-90xylem NAC domain 1
Publications ? help Back to Top
  1. Zhao C, et al.
    XYLEM NAC DOMAIN1, an angiosperm NAC transcription factor, inhibits xylem differentiation through conserved motifs that interact with RETINOBLASTOMA-RELATED.
    New Phytol., 2017. 216(1): p. 76-89
    [PMID:28742236]
  2. Tang N, et al.
    Natural variation at XND1 impacts root hydraulics and trade-off for stress responses in Arabidopsis.
    Nat Commun, 2018. 9(1): p. 3884
    [PMID:30250259]