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

Dca6000.1

Organism

Dianthus caryophyllus

Taxonomic ID

3570

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Caryophyllaceae; Caryophylleae; Dianthus

Family

NAC

Protein Properties

Length: 387aa MW: 43467 Da PI: 4.6529

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Dca6000.1	genome	DCA	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	108.9	6e-34	21	160	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkk.....leleevikevd....iykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratk.....sgyWkat 86 lp+G++F+Ptd+e++++ L+++ +g++ + +e+i++vd i++++P++Lp vk++ + +fF+++ k+y+tgkrk+r ++ + +W++t Dca6000.1 21 LPRGVKFDPTDQEIIQHLLAQSGKGNErphpfI--SEFIPTVDeeegICYTHPSNLP-GVKQDGTASHFFHRSIKAYNTGKRKRRRIHsddegDVRWHKT 117 799***************9999998776442..334555544445******.777888999**************75545544778 PP NAM 87 gkdkevlskkgelvglkktLvfy..kgrapkgektdWvmheyrl 128 g++k+v++ ++ ++g+kk++v+y + + k+ekt+Wvmh+y+l Dca6000.1 118 GRTKPVIV-NDVQKGCKKIMVLYvsTSKGGKAEKTNWVMHQYHL 160 ****.999*******6655777888*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.83E-36	12	179	IPR003441	NAC domain
PROSITE profile	PS51005	30.633	21	179	IPR003441	NAC domain
Pfam	PF02365	3.3E-15	22	160	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: 387 aa Download sequence Send to blast
MCRNAETGDF VTKVIQEWPG LPRGVKFDPT DQEIIQHLLA QSGKGNERPH PFISEFIPTV 60 DEEEGICYTH PSNLPGVKQD GTASHFFHRS IKAYNTGKRK RRRIHSDDEG DVRWHKTGRT 120 KPVIVNDVQK GCKKIMVLYV STSKGGKAEK TNWVMHQYHL GVQEDENEGE FVISKVFLQQ 180 QHVKQNDNSG RNVPDTPDKL VVKLDPVTPK PVTPDHQQIE IQCNLIEEPL LPSLDSVTQD 240 DGIEYADEMK LPEASRSSDH DNDADETAAD QGLDHDNNQI GSEENIYLVD SQQLIAGLQL 300 CADFFQSQSP TRDENSGDVA RKRSVLSEYA QLGSEVLKKD LEECHNFVPD AASVDIDTQP 360 EVRLSQLDFC SQESYSAWGS NKIDDST

Sequence ? help Back to Top

Protein Sequence Length: 387 aa Download sequence Send to blast

MCRNAETGDF VTKVIQEWPG LPRGVKFDPT DQEIIQHLLA QSGKGNERPH PFISEFIPTV  60
DEEEGICYTH PSNLPGVKQD GTASHFFHRS IKAYNTGKRK RRRIHSDDEG DVRWHKTGRT  120
KPVIVNDVQK GCKKIMVLYV STSKGGKAEK TNWVMHQYHL GVQEDENEGE FVISKVFLQQ  180
QHVKQNDNSG RNVPDTPDKL VVKLDPVTPK PVTPDHQQIE IQCNLIEEPL LPSLDSVTQD  240
DGIEYADEMK LPEASRSSDH DNDADETAAD QGLDHDNNQI GSEENIYLVD SQQLIAGLQL  300
CADFFQSQSP TRDENSGDVA RKRSVLSEYA QLGSEVLKKD LEECHNFVPD AASVDIDTQP  360
EVRLSQLDFC SQESYSAWGS NKIDDST

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3ulx_A	1e-12	21	160	15	140	Stress-induced transcription factor NAC1
Search in ModeBase

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	97	102	KRKRRR
2	98	102	RKRRR
3	99	103	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}.

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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021723887.1	1e-155	SUPPRESSOR OF GAMMA RESPONSE 1-like
Swissprot	Q6NQK2	1e-121	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	A0A0K9RQ22	1e-151	A0A0K9RQ22_SPIOL; Uncharacterized protein (Fragment)
STRING	XP_010695823.1	1e-150	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25580.1	1e-123	NAC family protein

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]