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 Carubv10002665m
Common NameCARUB_v10002665mg
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: 363aa    MW: 39737.6 Da    PI: 6.9904
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Carubv10002665mgenomeJGIView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM105.18.7e-33581991128
              NAM   1 lppGfrFhPtdeelvveyLkkkvegkk......lelee.....vikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknr.a..... 77 
                      lp+G++F+Ptdee++ e+L++k+  +       +   +     v ++v+i++++P++Lp  v+++ ++++fF k++++y++g+rk+r +     
  Carubv10002665m  58 LPKGVKFEPTDEEVI-EHLEAKCGIDGlkphllI---QdficsVTQDVGINYTHPQNLP-GVSKDGTSVFFFNKTAHAYQNGQRKRRrVtptsl 146
                      799************.99****877775566552...03444478999***********.66778899******************95456555 PP

              NAM  78 tk.sgyWkatgkdkevlskkgelvglkktLvfykg..rapkgektdWvmheyrl 128
                      t+ s +W++tg++k+v++ +g ++g+kk++v+yk   +  k+ek++Wv+h+y+l
  Carubv10002665m 147 TDeSVRWHKTGQTKPVMV-NGVQKGCKKIMVLYKSarKGLKPEKSNWVLHQYHL 199
                      225888************.999***********6422556778*********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.06E-3643217IPR003441NAC domain
PROSITE profilePS5100530.36358217IPR003441NAC domain
PfamPF023652.9E-1359199IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 363 aa     Download sequence    Send to blast
MKTLPRAWIV DGPWIARNVK NASVSSSLQI KDCGAYINCP NCSYPVDNSN VLPPWPGLPK  60
GVKFEPTDEE VIEHLEAKCG IDGLKPHLLI QDFICSVTQD VGINYTHPQN LPGVSKDGTS  120
VFFFNKTAHA YQNGQRKRRR VTPTSLTDES VRWHKTGQTK PVMVNGVQKG CKKIMVLYKS  180
ARKGLKPEKS NWVLHQYHLG TEEGEIGEFV VSKITYQKQK QWEKTIDESE SFGGRGGPST  240
PKTTTPTQAR PVISVDEDEI TTCDNTKMVL DSLAEGLGNI QEGSVDSTSN KRAQLAGNLS  300
VSEDSLASKK VEASSSLVEK NPNYGNFDMG SGNFSVSDLE NAELGTLPDL LSVRTSDTHT  360
HT*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1135139RKRRR
2136140KRRRV
Functional Description ? help Back to Top
Source Description
UniProtTranscription factor regulating the transcriptional activation response to gamma irradiation (PubMed:19549833). Required for stem-cell death induced by UVB or by gamma irradiation (PubMed:20634150). Not required for ATM activation, but participates in pathways governed by both ATM and ATR sensor kinases (PubMed:19549833). Involved in DNA damage response (DDR) system that regulates cell cycle arrest (PubMed:24399300). Functional homolog of animal p53 (PubMed:24736489). Regulates SMR5 and SMR7 transcription (PubMed:24399300). Regulates DNA repair and cytokinin signaling separately and plays a key role in controlling lateral root formation under genotoxic stress. {ECO:0000269|PubMed:19549833, ECO:0000269|PubMed:20634150, ECO:0000269|PubMed:24399300, ECO:0000305|PubMed:24736489}.
Cis-element ? help Back to Top
SourceLink
PlantRegMapCarubv10002665m
Regulation -- Description ? help Back to Top
Source Description
UniProtINDUCTION: Not induced by zeocin or ionizing radiation treatment. {ECO:0000269|PubMed:23907539}.
Regulation -- PlantRegMap ? help Back to Top
Source Upstream Regulator Target Gene
PlantRegMapRetrieve-
Annotation -- Nucleotide ? help Back to Top
Source Hit ID E-value Description
GenBankAL1637921e-159AL163792.1 Arabidopsis thaliana DNA chromosome 5, BAC clone T15N1 (ESSA project).
GenBankAL1638171e-159AL163817.1 Arabidopsis thaliana DNA chromosome 5, BAC clone F18O22 (ESSA project).
GenBankCP0026881e-159CP002688.1 Arabidopsis thaliana chromosome 5 sequence.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006289216.20.0SUPPRESSOR OF GAMMA RESPONSE 1
SwissprotQ6NQK21e-70NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBLR0GYW90.0R0GYW9_9BRAS; Uncharacterized protein
STRINGXP_006289216.10.0(Capsella rubella)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
MalvidsOGEM50452651
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT5G14490.10.0NAC domain containing protein 85
Publications ? help Back to Top
  1. Yi D, et al.
    The Arabidopsis SIAMESE-RELATED cyclin-dependent kinase inhibitors SMR5 and SMR7 regulate the DNA damage checkpoint in response to reactive oxygen species.
    Plant Cell, 2014. 26(1): p. 296-309
    [PMID:24399300]
  2. Biever JJ,Brinkman D,Gardner G
    UV-B inhibition of hypocotyl growth in etiolated Arabidopsis thaliana seedlings is a consequence of cell cycle arrest initiated by photodimer accumulation.
    J. Exp. Bot., 2014. 65(11): p. 2949-61
    [PMID:24591052]
  3. Hu Z,Cools T,Kalhorzadeh P,Heyman J,De Veylder L
    Deficiency of the Arabidopsis helicase RTEL1 triggers a SOG1-dependent replication checkpoint in response to DNA cross-links.
    Plant Cell, 2015. 27(1): p. 149-61
    [PMID:25595823]
  4. Chen P,Umeda M
    DNA double-strand breaks induce the expression of flavin-containing monooxygenase and reduce root meristem size in Arabidopsis thaliana.
    Genes Cells, 2015. 20(8): p. 636-46
    [PMID:26033196]
  5. Sjogren CA,Bolaris SC,Larsen PB
    Aluminum-Dependent Terminal Differentiation of the Arabidopsis Root Tip Is Mediated through an ATR-, ALT2-, and SOG1-Regulated Transcriptional Response.
    Plant Cell, 2015. 27(9): p. 2501-15
    [PMID:26320227]
  6. Yoshiyama KO
    SOG1: a master regulator of the DNA damage response in plants.
    Genes Genet. Syst., 2016. 90(4): p. 209-16
    [PMID:26617076]
  7. Weimer AK, et al.
    The plant-specific CDKB1-CYCB1 complex mediates homologous recombination repair in Arabidopsis.
    EMBO J., 2016. 35(19): p. 2068-2086
    [PMID:27497297]
  8. Davis OM,Ogita N,Inagaki S,Takahashi N,Umeda M
    DNA damage inhibits lateral root formation by up-regulating cytokinin biosynthesis genes in Arabidopsis thaliana.
    Genes Cells, 2016. 21(11): p. 1195-1208
    [PMID:27658920]
  9. Pedroza-García JA, et al.
    Function of the Plant DNA Polymerase Epsilon in Replicative Stress Sensing, a Genetic Analysis.
    Plant Physiol., 2017. 173(3): p. 1735-1749
    [PMID:28153919]
  10. Horvath BM, et al.
    Arabidopsis RETINOBLASTOMA RELATED directly regulates DNA damage responses through functions beyond cell cycle control.
    EMBO J., 2017. 36(9): p. 1261-1278
    [PMID:28320736]
  11. Sjogren CA,Larsen PB
    SUV2, which encodes an ATR-related cell cycle checkpoint and putative plant ATRIP, is required for aluminium-dependent root growth inhibition in Arabidopsis.
    Plant Cell Environ., 2017. 40(9): p. 1849-1860
    [PMID:28556304]
  12. Yoshiyama KO,Kaminoyama K,Sakamoto T,Kimura S
    Increased Phosphorylation of Ser-Gln Sites on SUPPRESSOR OF GAMMA RESPONSE1 Strengthens the DNA Damage Response in Arabidopsis thaliana.
    Plant Cell, 2017. 29(12): p. 3255-3268
    [PMID:29208704]
  13. Johnson RA, et al.
    SUPPRESSOR OF GAMMA RESPONSE1 Links DNA Damage Response to Organ Regeneration.
    Plant Physiol., 2018. 176(2): p. 1665-1675
    [PMID:29222192]
  14. Ogita N, et al.
    Identifying the target genes of SUPPRESSOR OF GAMMA RESPONSE 1, a master transcription factor controlling DNA damage response in Arabidopsis.
    Plant J., 2018. 94(3): p. 439-453
    [PMID:29430765]
  15. Cao X, et al.
    Roles of MSH2 and MSH6 in cadmium-induced G2/M checkpoint arrest in Arabidopsis roots.
    Chemosphere, 2018. 201: p. 586-594
    [PMID:29533809]