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 Carubv10013694m
Common NameCARUB_v10013694mg
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: 448aa    MW: 50514.4 Da    PI: 6.2481
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10013694mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM1707.4e-53271541128
              NAM   1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp..kkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkev 92 
                      l+pGfrFhPtdeelv++yLk+kv gk++++ ++i evdiyk+ePwdL   +++k++++ewyfFs  dkky +g r nrat++gyWkatgkd+e+
  Carubv10013694m  27 LAPGFRFHPTDEELVSYYLKRKVLGKPVRF-DAIGEVDIYKHEPWDLAvfSRLKTRDQEWYFFSALDKKYGNGARMNRATNKGYWKATGKDREI 119
                      579************************999.99**************8544899999************************************* PP

              NAM  93 lskkgelvglkktLvfykgrapkgektdWvmheyrl 128
                       + + +l g+kktLvf++grap+g +t+Wvmheyrl
  Carubv10013694m 120 RR-DIQLLGMKKTLVFHSGRAPDGLRTNWVMHEYRL 154
                      *9.999****************************98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019415.89E-6120178IPR003441NAC domain
PROSITE profilePS5100557.44227177IPR003441NAC domain
PfamPF023651.4E-2729154IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0010228Biological Processvegetative to reproductive phase transition of meristem
GO:0045892Biological Processnegative regulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0000976Molecular Functiontranscription regulatory region sequence-specific DNA binding
GO:0003700Molecular Functiontranscription factor activity, sequence-specific DNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 448 aa     Download sequence    Send to blast
MGRESVAVVS SPPSATAPST AVSATSLAPG FRFHPTDEEL VSYYLKRKVL GKPVRFDAIG  60
EVDIYKHEPW DLAVFSRLKT RDQEWYFFSA LDKKYGNGAR MNRATNKGYW KATGKDREIR  120
RDIQLLGMKK TLVFHSGRAP DGLRTNWVMH EYRLVEYETE NNGSLLDAYV LCRVFHKNNI  180
GPPSGNRYAP FMEEEWADGG GALIPGVDVS VRVEPLPQAN GNKHMDQEIH SASKNLININ  240
EPPRDGTPMD IEPNQQNHHE SDIKPQEHNN HNAYDEDEET LKREHAEEDE RPPPLCILNK  300
EAPLPLLQYK RRRQNESNSS SRNSQDHCSS TITTVDNTTT LNSSSAAATN TAISALLEFS  360
LMGISEKKEN QQLRPHKEAS PSTPLVSPEE KVNDLQKEIH QMSVERETFK LEMMSAEAMI  420
SILQSRIDAL RQENEELKKK NANGQAI*
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
1ut4_A8e-502217912167NO APICAL MERISTEM PROTEIN
1ut4_B8e-502217912167NO APICAL MERISTEM PROTEIN
1ut7_A8e-502217912167NO APICAL MERISTEM PROTEIN
1ut7_B8e-502217912167NO APICAL MERISTEM PROTEIN
3swm_A7e-502217915170NAC domain-containing protein 19
3swm_B7e-502217915170NAC domain-containing protein 19
3swm_C7e-502217915170NAC domain-containing protein 19
3swm_D7e-502217915170NAC domain-containing protein 19
3swp_A7e-502217915170NAC domain-containing protein 19
3swp_B7e-502217915170NAC domain-containing protein 19
3swp_C7e-502217915170NAC domain-containing protein 19
3swp_D7e-502217915170NAC domain-containing protein 19
4dul_A8e-502217912167NAC domain-containing protein 19
4dul_B8e-502217912167NAC domain-containing protein 19
Search in ModeBase
Functional Description ? help Back to Top
Source Description
UniProtTranscriptional repressor that binds to the motif 5'-(C/T)A(C/A)G-3' in the promoter of target genes (PubMed:25578968). Binds also to the 5'-CTTGNNNNNCAAG-3' consensus sequence in chromatin (PubMed:26617990). Can bind to the mitochondrial dysfunction motif (MDM) present in the upstream regions of mitochondrial dysfunction stimulon (MDS) genes involved in mitochondrial retrograde regulation (MRR) (PubMed:24045019). Together with NAC051/NAC052 and JMJ14, regulates gene expression and flowering time by associating with the histone demethylase JMJ14, probably by the promotion of RNA-mediated gene silencing (PubMed:25578968, PubMed:26617990). {ECO:0000269|PubMed:24045019, ECO:0000269|PubMed:25578968, ECO:0000269|PubMed:26617990}.
Binding Motif ? help Back to Top
Motif ID Method Source Motif file
MP00342DAPTransfer from AT3G10480Download
Motif logo
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10013694m
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieveRetrieve
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAY0597950.0AY059795.1 Arabidopsis thaliana unknown protein (At3g10480) mRNA, complete cds.
GenBankAY0912620.0AY091262.1 Arabidopsis thaliana unknown protein (At3g10480) mRNA, complete cds.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_023641100.10.0NAC domain containing protein 50 isoform X2
SwissprotQ9SQX90.0NAC50_ARATH; NAC domain containing protein 50
TrEMBLR0G4Z30.0R0G4Z3_9BRAS; Uncharacterized protein
STRINGXP_006297669.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM17802880
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G10480.20.0NAC domain containing protein 50
Publications ? help Back to Top
  1. Zhang S, et al.
    C-terminal domains of a histone demethylase interact with a pair of transcription factors and mediate specific chromatin association.
    Cell Discov, 2019.
    [PMID:26617990]