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 Carubv10004997m
Common NameCARUB_v10004997mg
Organism
Capsella rubella
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella
Family NAC
Protein Properties Length: 393aa    MW: 45252.7 Da    PI: 6.3329
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10004997mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM179.31e-55251541129
              NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk..kvka.eekewyfFskrdkkyatgkrknratksgyWkatgkdke 91 
                      +ppGfrFhPtdeelv +yL+kkv+++k++l +vi+++d+y++ePwdL++  ++   e++ewyfFs++dkky+tg+r+nrat +g+Wkatg+dk+
  Carubv10004997m  25 VPPGFRFHPTDEELVGYYLRKKVASQKIDL-DVIRDIDLYRIEPWDLQErcRIGYeERNEWYFFSHKDKKYPTGTRTNRATMAGFWKATGRDKA 117
                      69****************************.9***************953433332556*********************************** PP

              NAM  92 vlskkgelvglkktLvfykgrapkgektdWvmheyrle 129
                      v++ k++l+g++ktLvfykgrap+g+ktdW+mheyrle
  Carubv10004997m 118 VYD-KSKLIGMRKTLVFYKGRAPNGQKTDWIMHEYRLE 154
                      ***.999*****************************85 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019413.01E-6121174IPR003441NAC domain
PROSITE profilePS5100559.69325174IPR003441NAC domain
PfamPF023657.4E-2926153IPR003441NAC 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:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 393 aa     Download sequence    Send to blast
YSIHIYISTG SRKEIMESVD QSCSVPPGFR FHPTDEELVG YYLRKKVASQ KIDLDVIRDI  60
DLYRIEPWDL QERCRIGYEE RNEWYFFSHK DKKYPTGTRT NRATMAGFWK ATGRDKAVYD  120
KSKLIGMRKT LVFYKGRAPN GQKTDWIMHE YRLESDENAP PQEEGWVVCR AFKKRPTTGQ  180
AKNTETWNSS YIYDELPSGV SSVMEPLNYV SKQKQNIFAQ DLMFKQELEG SDIGLNFIHC  240
DQFIQLPQLE SPSLPLMKRP VSSTSITSLE KNQNSYKRKL IEEDVSFSAL ISSDNKDNKK  300
KKTSVMTTDW RALDKFVASQ LMSQEDGVSG FGGHQAEDSN KIIGHYNNEE SNNNGVETVS  360
STLLSDREEE NRFISGFLCS NLEYDLYKDL HV*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3ulx_A3e-51101752169Stress-induced transcription factor NAC1
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
MP00471DAPTransfer from AT4G36160Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10004997m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL0221410.0AL022141.1 Arabidopsis thaliana DNA chromosome 4, BAC clone F23E13 (ESSAII project).
GenBankAL1615880.0AL161588.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 84.
GenBankCP0026870.0CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006283880.20.0NAC domain-containing protein 76
SwissprotO655080.0NAC76_ARATH; NAC domain-containing protein 76
TrEMBLR0H0040.0R0H004_9BRAS; Uncharacterized protein (Fragment)
STRINGXP_006283880.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM36862661
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT4G36160.10.0NAC domain containing protein 76
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. Ding Y, et al.
    Four distinct types of dehydration stress memory genes in Arabidopsis thaliana.
    BMC Plant Biol., 2013. 13: p. 229
    [PMID:24377444]
  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]