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

Lj2g3v1172440.1

Organism

Lotus japonicus

Taxonomic ID

34305

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus

Family

NAC

Protein Properties

Length: 467aa MW: 52712.5 Da PI: 4.7441

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj2g3v1172440.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	108.5	7.9e-34	58	197	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkk.....leleevikevd..iykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratk.....sgy 82 lp+G++F+P+d+e++++ L+k +g++ ++++ + evd i++++P++Lp vk++ + +fF+++ k+y+tg+rk+r+++ + + Lj2g3v1172440.1 58 LPKGVKFDPSDQEIIWHLLAKVGSGNSrphpfIDEFIATLEVDdgICYTHPQNLP-GVKQDGNASHFFHRAIKAYNTGTRKRRKIHgqdfgDVR 150 799**********888887777777887665554554455345******.778889999**************86555555888 PP NAM 83 WkatgkdkevlskkgelvglkktLvfy..kgrapkgektdWvmheyrl 128 W++tgk+k+v+ +g ++g+kk++v+y + r k+ekt+Wvmh+y+l Lj2g3v1172440.1 151 WHKTGKTKPVIL-NGVQKGCKKIMVLYmnTVRGGKPEKTNWVMHQYHL 197 ********.999*******6544778888*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	7.19E-39	43	216	IPR003441	NAC domain
PROSITE profile	PS51005	31.137	58	216	IPR003441	NAC domain
Pfam	PF02365	3.2E-14	59	197	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: 467 aa Download sequence Send to blast
MAGPSWLVDK SRIATKIKSA SGGCDPEQIA WKSNPSKTCP NCQHAIDNND VAHEWPGLPK 60 GVKFDPSDQE IIWHLLAKVG SGNSRPHPFI DEFIATLEVD DGICYTHPQN LPGVKQDGNA 120 SHFFHRAIKA YNTGTRKRRK IHGQDFGDVR WHKTGKTKPV ILNGVQKGCK KIMVLYMNTV 180 RGGKPEKTNW VMHQYHLGTE EDEKDGEFVI SKVFYQQTLV KLGDKDHQNV TEAIETTEAT 240 IVKADPVTPK SVSPEPLCTE REYSDFDVGP EMHTIPQLPQ MDRLDEIRAD CEDLLKADLL 300 MVENQLNEDM DNQENNADEE NMDNKENNAD EGQKWWDCGS QNLLDSQQLD NKENNADEGQ 360 KWWDSESQNL LDSQQLVEAL SLCDDLLHSQ SPGRDGKRGE HKDQLGLSVY AQLGPEHLKK 420 DIEECQKLVL DPANIEHDTP PSEFRLSQLE FGSQDSFTSW GYGKTVN

Sequence ? help Back to Top

Protein Sequence Length: 467 aa Download sequence Send to blast

MAGPSWLVDK SRIATKIKSA SGGCDPEQIA WKSNPSKTCP NCQHAIDNND VAHEWPGLPK  60
GVKFDPSDQE IIWHLLAKVG SGNSRPHPFI DEFIATLEVD DGICYTHPQN LPGVKQDGNA  120
SHFFHRAIKA YNTGTRKRRK IHGQDFGDVR WHKTGKTKPV ILNGVQKGCK KIMVLYMNTV  180
RGGKPEKTNW VMHQYHLGTE EDEKDGEFVI SKVFYQQTLV KLGDKDHQNV TEAIETTEAT  240
IVKADPVTPK SVSPEPLCTE REYSDFDVGP EMHTIPQLPQ MDRLDEIRAD CEDLLKADLL  300
MVENQLNEDM DNQENNADEE NMDNKENNAD EGQKWWDCGS QNLLDSQQLD NKENNADEGQ  360
KWWDSESQNL LDSQQLVEAL SLCDDLLHSQ SPGRDGKRGE HKDQLGLSVY AQLGPEHLKK  420
DIEECQKLVL DPANIEHDTP PSEFRLSQLE FGSQDSFTSW GYGKTVN

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE 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
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	Lj2g3v1172440.1

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	AP010508	0.0	AP010508.1 Lotus japonicus genomic DNA, chromosome 2, clone: LjT28N02, TM1615, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003614420.1	0.0	SUPPRESSOR OF GAMMA RESPONSE 1 isoform X1
Swissprot	Q6NQK2	1e-177	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	G7JX37	0.0	G7JX37_MEDTR; NAC transcription factor-like protein
STRING	AES97378	0.0	(Medicago truncatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF5662	33	54

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25580.1	1e-176	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]