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 MDP0000165845
Organism
Malus domestica
Taxonomic ID
Taxonomic Lineage
cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Rosaceae; Maloideae; Maleae; Malus
Family NAC
Protein Properties Length: 471aa    MW: 53235.3 Da    PI: 4.6468
Description NAC family protein
Gene Model
Gene Model ID Type Source Coding Sequence
MDP0000165845genomeGDRView CDS
Signature Domain? help Back to Top
Signature Domain
No. Domain Score E-value Start End HMM Start HMM End
1NAM99.35.6e-31581981128
            NAM   1 lppGfrFhPtdeelvveyLkkkvegkk.....leleevikevd....iykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratk......sg 81 
                    lp+G++F+Ptd+e++++ L+k+  g++     ++++  i +vd    i+ ++P++Lp +vk + +  +fF+++ k+y+tg+rk+r+++      + 
  MDP0000165845  58 LPKGVKFDPTDQEIMWHLLAKSGVGDQkphpfIDEF--ILTVDddegICCSHPRKLP-NVKLDGSPSHFFHRAIKAYNTGTRKRRKIHdgdgdgDV 150
                    799**************9999966555476543332..433322344**********.667788999******************97644443355 PP

            NAM  82 yWkatgkdkevlskkgelvglkktLvfy..kgrapkgektdWvmheyrl 128
                    +W++tg++k+v+  +g + g+kk++v+y  +    k++kt+Wvmh+y+l
  MDP0000165845 151 RWHKTGRTKPVIL-DGVQRGCKKIMVLYmsTVXGGKPVKTNWVMHQYHL 198
                    7************.99************5434667778*********98 PP
Protein Features ? help Back to Top
3D Structure
Database Entry ID E-value Start End InterPro ID Description
SuperFamilySSF1019411.7E-3843217IPR003441NAC domain
PROSITE profilePS5100530.05758217IPR003441NAC domain
PfamPF023651.7E-1359198IPR003441NAC domain
Gene Ontology ? help Back to Top
GO Term GO Category GO Description
GO:0006355Biological Processregulation of transcription, DNA-templated
GO:0003677Molecular FunctionDNA binding
Sequence ? help Back to Top
Protein Sequence    Length: 471 aa     Download sequence    Send to blast
MAGPSWLFDK NRIATKIRSA SGSYDSVGIK WQSNPTKSCP KCQYTMDNSD VAQEWPGLPK  60
GVKFDPTDQE IMWHLLAKSG VGDQKPHPFI DEFILTVDDD EGICCSHPRK LPNVKLDGSP  120
SHFFHRAIKA YNTGTRKRRK IHDGDGDGDV RWHKTGRTKP VILDGVQRGC KKIMVLYMST  180
VXGGKPVKTN WVMHQYHLGI EEDEKDGEYV ISKIYYQQQE AKQADKTDQD VPESIDAVIT  240
KVDPVTPKXA TPEPPRAERK LGDFXLGLDT PAPSRDPXLQ ILIWAYFYGF CIQLKYREED  300
GAEDEVRPDV DSALDEVHPE VNRAEDVRPE SEIPDDYDQH KVENQADEVI NNTENIDHAQ  360
EDPKWWDNES QNLLDSQQLV EGLSLCDELL QSQSPNRGGH ENGEQAHVKP RLADYAKLGP  420
EDLKKDLEAC QNIVLDPANI MDLDTPPDFR LSQLEFGSQE SFLSWGGKVA D
3D Structure ? help Back to Top
Structure
PDB ID Evalue Query Start Query End Hit Start Hit End Description
3swm_A5e-145822320174NAC domain-containing protein 19
3swm_B5e-145822320174NAC domain-containing protein 19
3swm_C5e-145822320174NAC domain-containing protein 19
3swm_D5e-145822320174NAC domain-containing protein 19
3swp_A5e-145822320174NAC domain-containing protein 19
3swp_B5e-145822320174NAC domain-containing protein 19
3swp_C5e-145822320174NAC domain-containing protein 19
3swp_D5e-145822320174NAC domain-containing protein 19
Search in ModeBase
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}.
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_028947239.10.0SUPPRESSOR OF GAMMA RESPONSE 1
SwissprotQ6NQK21e-173NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBLA0A498IBI30.0A0A498IBI3_MALDO; Uncharacterized protein
STRINGXP_008389315.10.0(Malus domestica)
Orthologous Group ? help Back to Top
LineageOrthologous Group IDTaxa NumberGene Number
FabidsOGEF56623354
Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID E-value Description
AT1G25580.11e-175NAC family protein
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]