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 PGSC0003DMP400022333
Organism
Solanum tuberosum
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
Family NAC
Protein Properties Length: 394aa    MW: 43767.5 Da    PI: 5.1035
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
PGSC0003DMP400022333genomePGSCView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM1033.9e-32551971128
                   NAM   1 lppGfrFhPtdeelvveyLkkkvegkk...lelee....vikevd....iykvePwdLpkkvkaeekewyfFskrdkkyatgkrknra. 77 
                           lp+G++F+P+d elv e+L++k+   +   +   +    +i+++d    i++++P++Lp  +k++ ++++fF +  ++yatgkrk+r+ 
  PGSC0003DMP400022333  55 LPVGVKFDPSDAELV-EHLEAKCGVGNseqH---KfideFIPTLDvhegICYTHPENLP-GAKKDGSSIHFFYRITNAYATGKRKRRKi 138
                           799************.99****887773442...3222245555555559*********.556778899******************86 PP

                   NAM  78 .......tksgyWkatgkdkevlskkgelvglkktLvfykg..rapkgektdWvmheyrl 128
                                   ++ +W++tgk+k v++ +g ++g+kk++v+y+   + +k ekt+Wvmh+y+l
  PGSC0003DMP400022333 139 hdennlmKEHVRWHKTGKTKVVME-NGFQKGCKKVMVLYQTikKGSKQEKTNWVMHQYHL 197
                           777777666999**********99.999***********6433777888*********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019414.84E-3741216IPR003441NAC domain
PROSITE profilePS5100529.53555216IPR003441NAC domain
PfamPF023654.5E-1456197IPR003441NAC 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: 394 aa     Download sequence    Send to blast
MGRSWLINGR GLASKVKNAS APAAHQIKDC GAKRQCPNCH YSIDNKDVSH EWPGLPVGVK  60
FDPSDAELVE HLEAKCGVGN SEQHKFIDEF IPTLDVHEGI CYTHPENLPG AKKDGSSIHF  120
FYRITNAYAT GKRKRRKIHD ENNLMKEHVR WHKTGKTKVV MENGFQKGCK KVMVLYQTIK  180
KGSKQEKTNW VMHQYHLGPD EDEKEGEYVV SKILYQQQKQ SVKANDSSDN EEASVGANQT  240
GPTTPKTVTP NPPRDGETPS YDDIVDDSLP FSPDQEVEVA KEPGQPSDAK IKCEMEYTTC  300
LAGESQAADA NDVDNSLLCD EHNDYSFLDS FGPNLGPSAD YTHSTCHLPQ ENGNTTCGIS  360
ELDNLEPDSP PDFQLADLPF GSQENIFSWL DRL*
Nucleic Localization Signal ? help Back to Top
NLS
No. Start End Sequence
1131136KRKRRK
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
PlantRegMapPGSC0003DMP400022333
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
GenBankAC2153730.0AC215373.2 Solanum lycopersicum cultivar Heinz 1706 chromosome 2 clone C02HBa0064B17, complete sequence.
GenBankAC2154530.0AC215453.2 Solanum lycopersicum cultivar Heinz 1706 chromosome 2 clone C02SLe0034H10, complete sequence.
GenBankHG9755140.0HG975514.1 Solanum lycopersicum chromosome ch02, complete genome.
Annotation -- Protein ? help Back to Top
Source Hit ID E-value Description
RefseqXP_006338624.10.0PREDICTED: NAC domain-containing protein 8
SwissprotQ6NQK21e-86NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBLM1AY510.0M1AY51_SOLTU; Uncharacterized protein
STRINGPGSC0003DMT4000328290.0(Solanum tuberosum)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
AsteridsOGEA81752229
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT3G01600.19e-96NAC domain containing protein 44
Publications ? help Back to Top
  1. Xu X, et al.
    Genome sequence and analysis of the tuber crop potato.
    Nature, 2011. 475(7355): p. 189-95
    [PMID:21743474]
  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-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]
  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]