PlantTFDB
PlantRegMap/PlantTFDB v5.0
Plant Transcription Factor Database
Previous version: v3.0 v4.0
Transcription Factor Information
Basic Information | Signature Domain | Sequence | 
Basic Information? help Back to Top
TF ID Solyc05g009840.2.1
Common NameLOC101265920
Organism
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon
Family NAC
Protein Properties Length: 436aa    MW: 48990.1 Da    PI: 4.6254
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
Solyc05g009840.2.1genomeITAGView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM104.41.4e-32561951128
                 NAM   1 lppGfrFhPtdeelvveyLkkkvegkk......leleevikevd....iykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratk.. 79 
                         lp+G++F+Ptd+e++  +L  kveg +      +++  +i++v+    i++++P++Lp  vk++    +fF+++ k+y+tg+rk+r+++  
  Solyc05g009840.2.1  56 LPRGVKFDPTDQEII-WHLIGKVEGGDrnshpfIDE--FIPTVNeddgICYTHPQNLP-GVKQDGCVAHFFHRAIKAYNTGTRKRRKIHgd 142
                         799************.78999999998676544222..3444422335**********.666777788******************85545 PP

                 NAM  80 ...sgyWkatgkdkevlskkgelvglkktLvfy..kgrapkgektdWvmheyrl 128
                            + +W++tg++k+v+  +g + g+kk++v+y    +  k+ekt+Wvmh+y+l
  Solyc05g009840.2.1 143 nsgDVRWHKTGRTKPVIL-DGIQRGCKKIMVLYisPSKGGKAEKTNWVMHQYHL 195
                         544778************.99************6534677788*********98 PP

Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019414.97E-3942214IPR003441NAC domain
PROSITE profilePS5100530.93956214IPR003441NAC domain
PfamPF023653.9E-1457195IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0000077Biological ProcessDNA damage checkpoint
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0010332Biological Processresponse to gamma radiation
GO:0040020Biological Processregulation of meiotic nuclear division
GO:0005634Cellular Componentnucleus
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 436 aa     Download sequence    Send to blast
MARPSWLVDS RRIATKIKSA SGDPATVNWK SNPTKACPNC QFIIDNNDVS HDWPGLPRGV  60
KFDPTDQEII WHLIGKVEGG DRNSHPFIDE FIPTVNEDDG ICYTHPQNLP GVKQDGCVAH  120
FFHRAIKAYN TGTRKRRKIH GDNSGDVRWH KTGRTKPVIL DGIQRGCKKI MVLYISPSKG  180
GKAEKTNWVM HQYHLGTGED EREGEYVVSK VFYQQQQVKQ GEKIEQEFPE DSECMVAKVD  240
PHTPKSVTPE PPRSDRLSSS MDARQQIAAA SPVNQYHEVE DYVEDDMGAL PEQPEDQDQN  300
IENQIDETGT KIETETGDDP KWWDSESQYL LDSQQLVEGL SLCDDLLASQ SPNRDGNEND  360
QVQKCRPSLA DYARLGPEDL KKDLEECQQF VADPANIEIG TPPDFRLSQL EFGSQDSYIA  420
WGGNKYGFDS AEQNG*
Expression -- UniGene ? help Back to Top
UniGene ID E-value Expressed in
Les.150560.0callus| cell culture| fruit| leaf| trichome
Expression -- Description ? help Back to Top
Source Description
UniprotTISSUE SPECIFICITY: Expressed in shoot and root apical meristems, in lateral root primordia, in the vasculature of young leaves and in the root stele. {ECO:0000269|PubMed:23907539}.
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
PlantRegMapSolyc05g009840.2.1
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 -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_004238966.10.0SUPPRESSOR OF GAMMA RESPONSE 1
SwissprotQ6NQK21e-177NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBLA0A3Q7H7810.0A0A3Q7H781_SOLLC; Uncharacterized protein
STRINGSolyc05g009840.2.10.0(Solanum lycopersicum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA81622430
Representative plantOGRP82641016
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25580.11e-180NAC family protein
Publications ? help Back to Top
  1. Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD
    Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments.
    Theor. Appl. Genet., 2005. 112(1): p. 72-84
    [PMID:16208505]
  2. 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]
  3. 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]
  4. 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]
  5. 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]
  6. 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]
  7. Yoshiyama KO
    SOG1: a master regulator of the DNA damage response in plants.
    Genes Genet. Syst., 2016. 90(4): p. 209-16
    [PMID:26617076]
  8. 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]
  9. 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]
  10. Pedroza-GarcĂ­a 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]
  11. 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]
  12. 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]
  13. 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]
  14. 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]
  15. 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]
  16. 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]