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

Bradi1g43840.5.p

Common Name

BRADI_1g43840, LOC100834693

Organism

Brachypodium distachyon

Taxonomic ID

15368

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium

Family

NAC

Protein Properties

Length: 416aa MW: 46630.8 Da PI: 4.6989

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bradi1g43840.5.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	107.6	1.5e-33	58	197	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkk.....leleev.ikev.diykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratk.....sg 81 lp+G++F+P+d+el+++ L+k+ ++ ++++ ++e +i++++P++Lp +k++ + +fF+++ k+y+tg+rk+r ++ + Bradi1g43840.5.p 58 LPKGVKFDPSDQELLSHLLAKHDKAGAephpfIDEFIPtVEEDdGICYTHPQKLP-GLKQDGSVSHFFHRTYKAYNTGTRKRRRINtgdlaDV 149 799**********988877644444555443332322444435******.667788899**************7552344467 PP NAM 82 yWkatgkdkevlskkgelvglkktLvfy..kgrapkgektdWvmheyrl 128 +W++tgk+k+v++ +g++ g+kk++v+y + + k++kt+Wvmh+y+l Bradi1g43840.5.p 150 RWHKTGKTKPVMV-DGKHLGCKKIMVLYmsTVKGGKPKKTNWVMHQYHL 197 8********.999*******6644666777*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	4.71E-38	43	216	IPR003441	NAC domain
PROSITE profile	PS51005	31.534	58	216	IPR003441	NAC domain
Pfam	PF02365	5.6E-15	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:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 416 aa Download sequence Send to blast
MTGTSWLIDS QRIASKIKNV SGSMDLSKQK WVSNPTKECP RCSHIIDNSD VVHQWPGLPK 60 GVKFDPSDQE LLSHLLAKHD KAGAEPHPFI DEFIPTVEED DGICYTHPQK LPGLKQDGSV 120 SHFFHRTYKA YNTGTRKRRR INTGDLADVR WHKTGKTKPV MVDGKHLGCK KIMVLYMSTV 180 KGGKPKKTNW VMHQYHLGTG EDEQNGEYVV SKLFFQQQFK PGEKYAEELT TADALETIAA 240 EADLPDLPEP ALDEQGEEHI SSITNQEVLH NNEHTADREA LPYQESRNCD ITMEEKAAEE 300 DAAYPSSEKP EDGDNPSSQD PKWWDGESQF LLTSQQLAES LPCLDEFLQS QTSGDEQDTI 360 KPKLADYANL PVEDLKQDLE KCHELGLSDA DFRLSQIEFS QDSCTAAWAG GNMLD*

Sequence ? help Back to Top

Protein Sequence Length: 416 aa Download sequence Send to blast

MTGTSWLIDS QRIASKIKNV SGSMDLSKQK WVSNPTKECP RCSHIIDNSD VVHQWPGLPK  60
GVKFDPSDQE LLSHLLAKHD KAGAEPHPFI DEFIPTVEED DGICYTHPQK LPGLKQDGSV  120
SHFFHRTYKA YNTGTRKRRR INTGDLADVR WHKTGKTKPV MVDGKHLGCK KIMVLYMSTV  180
KGGKPKKTNW VMHQYHLGTG EDEQNGEYVV SKLFFQQQFK PGEKYAEELT TADALETIAA  240
EADLPDLPEP ALDEQGEEHI SSITNQEVLH NNEHTADREA LPYQESRNCD ITMEEKAAEE  300
DAAYPSSEKP EDGDNPSSQD PKWWDGESQF LLTSQQLAES LPCLDEFLQS QTSGDEQDTI  360
KPKLADYANL PVEDLKQDLE KCHELGLSDA DFRLSQIEFS QDSCTAAWAG GNMLD*

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	Bradi1g43840.5.p

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	KP729147	1e-109	KP729147.1 Stipa purpurea microsatellite ZH4 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010227769.1	0.0	SUPPRESSOR OF GAMMA RESPONSE 1
Swissprot	Q6NQK2	1e-130	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	A0A2K2DP70	0.0	A0A2K2DP70_BRADI; Uncharacterized protein
STRING	BRADI1G43840.1	0.0	(Brachypodium distachyon)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25580.1	1e-133	NAC family protein

Link Out ? help Back to Top
Phytozome	Bradi1g43840.5.p
Entrez Gene	100834693

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]