PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

871410

Common Name

ARALYDRAFT_670854

Organism

Arabidopsis lyrata

Taxonomic ID

81972

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis

Family

NAC

Protein Properties

Length: 358aa MW: 39172.1 Da PI: 5.3037

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
871410	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	97	2.8e-30	56	197	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkk......lelee....vikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknra.......tksgyWkat 86 lp+G++F+P de+++ e+L++k+ +e e v ++v+i++++P++Lp ++++ +++fF+k+ ++y tg+rk+r+ + +W++t 871410 56 LPKGVKFEPADEDII-EFLEAKCGIGGsaphvlIE--EfirpVTEDVGINYTHPQNLP-GANKDGVSVFFFHKTVQAYGTGQRKRRKitptlvnDEPVRWHKT 154 799**********.9*8877656665533..1344457889*******.445566799**************7455555433788 PP NAM 87 gkdkevlskkgelvglkktLvfykg..rapkgektdWvmheyrl 128 g++k+vl +g + g+kk++v+yk + +k+ek++Wv+h+y+l 871410 155 GRTKPVLL-NGVQRGCKKIMVLYKSarKGSKPEKSNWVLHQYHL 197 ****.99********5433666778*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.96E-35	41	215	IPR003441	NAC domain
PROSITE profile	PS51005	28.995	56	215	IPR003441	NAC domain
Pfam	PF02365	7.2E-12	57	197	IPR003441	NAC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 358 aa Download sequence Send to blast
MASRAWIVDG RGIATKVKNA SLSSALQIQD CGAHINCPNC SYRIDNSNVL IPWPGLPKGV 60 KFEPADEDII EFLEAKCGIG GSAPHVLIEE FIRPVTEDVG INYTHPQNLP GANKDGVSVF 120 FFHKTVQAYG TGQRKRRKIT PTLVNDEPVR WHKTGRTKPV LLNGVQRGCK KIMVLYKSAR 180 KGSKPEKSNW VLHQYHLGTE GKEIGDYVVS KITYQQQKLG ENPDEGESSG VRGGPRTPKT 240 NTPTPPSLVD GVAGDEEAFD DSKVFDPFFE GLDSIPEAAL GKMWSKKARM DEEFVVNLSE 300 DNLTCDESIE ASSLWENQVI PNPTSLGTVG EFDGFSISDL ENADLGTPPD LLTVRFS*

Sequence ? help Back to Top

Protein Sequence Length: 358 aa Download sequence Send to blast

MASRAWIVDG RGIATKVKNA SLSSALQIQD CGAHINCPNC SYRIDNSNVL IPWPGLPKGV  60
KFEPADEDII EFLEAKCGIG GSAPHVLIEE FIRPVTEDVG INYTHPQNLP GANKDGVSVF  120
FFHKTVQAYG TGQRKRRKIT PTLVNDEPVR WHKTGRTKPV LLNGVQRGCK KIMVLYKSAR  180
KGSKPEKSNW VLHQYHLGTE GKEIGDYVVS KITYQQQKLG ENPDEGESSG VRGGPRTPKT  240
NTPTPPSLVD GVAGDEEAFD DSKVFDPFFE GLDSIPEAAL GKMWSKKARM DEEFVVNLSE  300
DNLTCDESIE ASSLWENQVI PNPTSLGTVG EFDGFSISDL ENADLGTPPD LLTVRFS*

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription 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
Source	Link
PlantRegMap	871410

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Not induced by zeocin or ionizing radiation treatment. {ECO:0000269\|PubMed:23907539}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	ATAC009325	0.0	AC009325.8 Arabidopsis thaliana chromosome III BAC F4P13 genomic sequence, complete sequence.
GenBank	CP002686	0.0	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002884273.2	0.0	SUPPRESSOR OF GAMMA RESPONSE 1 isoform X1
Swissprot	Q6NQK2	1e-76	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	D7L9N2	0.0	D7L9N2_ARALL; Predicted protein
STRING	Al_scaffold_0003_51	0.0	(Arabidopsis lyrata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5045	26	51

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G01600.1	0.0	NAC domain containing protein 44

Link Out ? help Back to Top
Phytozome	871410
Entrez Gene	9318239

Publications ? help Back to Top
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] 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] 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] 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] 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] Yoshiyama KO SOG1: a master regulator of the DNA damage response in plants. Genes Genet. Syst., 2016. 90(4): p. 209-16 [PMID:26617076] 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] 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] 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] 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] 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] 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] 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] 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] 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]