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

Itr_sc000065.1_g00033.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

NAC

Protein Properties

Length: 474aa MW: 53961.8 Da PI: 4.8959

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc000065.1_g00033.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	105.7	5.8e-33	56	195	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkk......leleevikevd....iykvePwdLpkkvkaeekewyfFskrdkkyatgkrknr 76 lp+G++F+P+d+e++++ L+ kv ++ ++ e+i++v+ i++++P++Lp vk++ + +fF+++ k+y+tg+rk+r Itr_sc000065.1_g00033.1 56 LPRGVKFDPSDQEIIWHLLA-KVGLNDlkshpfID--EFIPTVNeddgICYTHPQNLP-GVKQDGTVSHFFHRAIKAYNTGTRKRR 137 799**********66555.55555534543322..23444423345******.677888999************** PP NAM 77 atk.....sgyWkatgkdkevlskkgelvglkktLvfy..kgrapkgektdWvmheyrl 128 +++ + +W++tg++k+v+ +g + g+kk++v+y +++ k+ekt+Wvmh+y+l Itr_sc000065.1_g00033.1 138 KIHgdnfgDVRWHKTGRTKPVVL-DGIQRGCKKIMVLYvsSAKGGKAEKTNWVMHQYHL 195 86555555888********.99********6545666778*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	2.09E-39	41	214	IPR003441	NAC domain
PROSITE profile	PS51005	30.939	56	214	IPR003441	NAC domain
Pfam	PF02365	1.4E-13	57	195	IPR003441	NAC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000077	Biological Process	DNA damage checkpoint
GO:0006355	Biological Process	regulation of transcription, DNA-templated
GO:0010332	Biological Process	response to gamma radiation
GO:0040020	Biological Process	regulation of meiotic nuclear division
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 474 aa Download sequence Send to blast
MARPSWLVDS KRIATKIRSA SDDPGNINWK SNPTRTCPSC HYIIDNHDET HEWPGLPRGV 60 KFDPSDQEII WHLLAKVGLN DLKSHPFIDE FIPTVNEDDG ICYTHPQNLP GVKQDGTVSH 120 FFHRAIKAYN TGTRKRRKIH GDNFGDVRWH KTGRTKPVVL DGIQRGCKKI MVLYVSSAKG 180 GKAEKTNWVM HQYHLGTGED EREGEYVVSK VFYQQQQVKH SEKNELESPE ETECLDAKKD 240 PSTPKTVTPE PLHTETRPSS FVAGLETPIP YISSNIQHRE VEYTEADMEI PLEKADNQVE 300 ITQNQTEQME LQNENEAGEE RKWWDSESQN LLDSQQLVEG LSLCDELLQS QSPSRDGDQN 360 GKEHKSTSCL SDYRHLGPEN FKKDLEECQE LVLDLPPTNQ SGKEKKCMPH LSDYGHLGTE 420 NFKLLENNQD LVLDPENIML DTPPDFRLSQ LEFASQDSYI AWGGNNIDST EQGS

Sequence ? help Back to Top

Protein Sequence Length: 474 aa Download sequence Send to blast

MARPSWLVDS KRIATKIRSA SDDPGNINWK SNPTRTCPSC HYIIDNHDET HEWPGLPRGV  60
KFDPSDQEII WHLLAKVGLN DLKSHPFIDE FIPTVNEDDG ICYTHPQNLP GVKQDGTVSH  120
FFHRAIKAYN TGTRKRRKIH GDNFGDVRWH KTGRTKPVVL DGIQRGCKKI MVLYVSSAKG  180
GKAEKTNWVM HQYHLGTGED EREGEYVVSK VFYQQQQVKH SEKNELESPE ETECLDAKKD  240
PSTPKTVTPE PLHTETRPSS FVAGLETPIP YISSNIQHRE VEYTEADMEI PLEKADNQVE  300
ITQNQTEQME LQNENEAGEE RKWWDSESQN LLDSQQLVEG LSLCDELLQS QSPSRDGDQN  360
GKEHKSTSCL SDYRHLGPEN FKKDLEECQE LVLDLPPTNQ SGKEKKCMPH LSDYGHLGTE  420
NFKLLENNQD LVLDPENIML DTPPDFRLSQ LEFASQDSYI AWGGNNIDST EQGS

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_019181110.1	0.0	PREDICTED: NAC domain-containing protein 8
Swissprot	Q6NQK2	1e-171	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	A0A2Z5HVN1	0.0	A0A2Z5HVN1_IPOBA; NAC11 protein
STRING	PGSC0003DMT400002122	0.0	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA8162	24	30

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25580.1	1e-173	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]