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 Carubv10027198m
Common NameCARUB_v10027198mg
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: 188aa    MW: 21505.8 Da    PI: 4.5915
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10027198mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM108.76.8e-3431181128
              NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevls 94 
                      lppGfrF Ptdeelvv++L++k +  +++  +vi+++d+y ++PwdLp k+ +e ++wyf+s++         + r+t++gyW + g d++v++
  Carubv10027198m   3 LPPGFRFFPTDEELVVHFLHRKSSLLPCHP-DVIPDLDLYPYDPWDLPGKALGEGRQWYFYSRKT--------QDRVTSNGYWGSMGMDEPVYT 87 
                      79*************************999.99***************87778899*****9974........5799****************9 PP

              NAM  95 k.kgelvglkktLvfykgrapkgektdWvmheyrl 128
                      + ++++vg+kk L+fy g++    +t+W+m+ey+l
  Carubv10027198m  88 SsTHKKVGIKKYLTFYLGDS----QTNWIMQEYSL 118
                      877888**********7654....68*******97 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.44E-431155IPR003441NAC domain
PROSITE profilePS5100541.7243155IPR003441NAC domain
PfamPF023658.2E-224118IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010089Biological Processxylem development
GO:0043067Biological Processregulation of programmed cell death
GO:0048367Biological Processshoot system development
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 188 aa     Download sequence    Send to blast
MNLPPGFRFF PTDEELVVHF LHRKSSLLPC HPDVIPDLDL YPYDPWDLPG KALGEGRQWY  60
FYSRKTQDRV TSNGYWGSMG MDEPVYTSST HKKVGIKKYL TFYLGDSQTN WIMQEYSLPD  120
SSSSSRSSKR SSRASSSSSH KPDYSKWVIC RVYEQNCSEE EDDDGTELSC LDEVFLSLDD  180
LDEVSLP*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A4e-36116115171NO APICAL MERISTEM PROTEIN
1ut4_B4e-36116115171NO APICAL MERISTEM PROTEIN
1ut7_A4e-36116115171NO APICAL MERISTEM PROTEIN
1ut7_B4e-36116115171NO APICAL MERISTEM PROTEIN
3swm_A4e-36116118174NAC domain-containing protein 19
3swm_B4e-36116118174NAC domain-containing protein 19
3swm_C4e-36116118174NAC domain-containing protein 19
3swm_D4e-36116118174NAC domain-containing protein 19
3swp_A4e-36116118174NAC domain-containing protein 19
3swp_B4e-36116118174NAC domain-containing protein 19
3swp_C4e-36116118174NAC domain-containing protein 19
3swp_D4e-36116118174NAC domain-containing protein 19
4dul_A4e-36116115171NAC domain-containing protein 19
4dul_B4e-36116115171NAC 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}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10027198m
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_006281164.11e-136NAC domain-containing protein 104
SwissprotQ8GWK61e-121NC104_ARATH; NAC domain-containing protein 104
TrEMBLR0EXT11e-135R0EXT1_9BRAS; Uncharacterized protein
STRINGCagra.0248s0135.1.p1e-136(Capsella grandiflora)
STRINGXP_006281164.11e-136(Capsella rubella)
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
AT5G64530.11e-104xylem 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]