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

Araha.37771s0001.1.p

Organism

Arabidopsis halleri

Taxonomic ID

81970

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: 240aa MW: 27055.8 Da PI: 9.1354

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araha.37771s0001.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	102.8	4.5e-32	58	199	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkk......lelee.....vikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknra. 77 lp+G++F+Ptdee++ e+L++k+ + + + v ++v+i++++P++Lp v+++ ++++fF k++++y++g rk+r Araha.37771s0001.1.p 58 LPKGVKFEPTDEEVI-EHLEAKCGIDGlkphllI---QdficsVTQDVGINYTHPQNLP-GVSKDGTSVFFFNKTAHAYQNGLRKRRRi 141 799**********.99877775566552...03444478999*******.66778899**************954 PP NAM 78 ......tksgyWkatgkdkevlskkgelvglkktLvfykg..rapkgektdWvmheyrl 128 +s +W++tg++k+v++ +g ++g+kk++v+yk + k+ek++Wv+h+y+l Araha.37771s0001.1.p 142 tptslkDESVRWHKTGQTKPVIV-NGVQKGCKKIMVLYKSarKGFKPEKSNWVLHQYHL 199 55544434899********.999*******6422555778*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	2.75E-37	45	217	IPR003441	NAC domain
PROSITE profile	PS51005	30.093	58	217	IPR003441	NAC domain
Pfam	PF02365	2.0E-13	59	199	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:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 240 aa Download sequence Send to blast
MKTLHRTWIV DGPWIARNVK NASVSSALQI KDCEAYINCP NCYYPVDNSN VLTPWPGLPK 60 GVKFEPTDEE VIEHLEAKCG IDGLKPHLLI QDFICSVTQD VGINYTHPQN LPGVSKDGTS 120 VFFFNKTAHA YQNGLRKRRR ITPTSLKDES VRWHKTGQTK PVIVNGVQKG CKKIMVLYKS 180 ARKGFKPEKS NWVLHQYHLG TEEGEIGEYV VSKITYQQPK QWEKTIDESE SSGARGGPTT

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	135	139	RKRRR
2	136	140	KRRRI

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	Araha.37771s0001.1.p

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AL163792	1e-168	AL163792.1 Arabidopsis thaliana DNA chromosome 5, BAC clone T15N1 (ESSA project).
GenBank	AL163817	1e-168	AL163817.1 Arabidopsis thaliana DNA chromosome 5, BAC clone F18O22 (ESSA project).
GenBank	CP002688	1e-168	CP002688.1 Arabidopsis thaliana chromosome 5 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020878606.1	1e-176	SUPPRESSOR OF GAMMA RESPONSE 1 isoform X1
Swissprot	Q6NQK2	1e-73	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	D7M6K1	1e-174	D7M6K1_ARALL; Predicted protein
STRING	Al_scaffold_0006_1351	1e-175	(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
AT5G14490.1	1e-174	NAC domain containing protein 85

Link Out ? help Back to Top
Phytozome	Araha.37771s0001.1.p

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]