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

Pavir.7NG233500.2.p

Organism

Panicum virgatum

Taxonomic ID

38727

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

NAC

Protein Properties

Length: 396aa MW: 43501.8 Da PI: 5.3039

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pavir.7NG233500.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	93.4	3.7e-29	51	196	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkk......lelee....vikev.diykvePwdLpkkvkaeekewyfFskrdkkyatgkrknra.. 77 lp+G++F+P+d el+ ++L+ k + ++ + + +i+e+ +i++++P++Lp +k + ++ +fF+k +++y g+rk+r+ Pavir.7NG233500.2.p 51 LPAGVKFDPSDLELL-QHLQGKSSVQNsnshalI---DdfipTIEELgGICYTHPKNLP-GIKMDGSSAHFFHKVSNAYGCGHRKRRKis 135 799**********.889999877774555442...144435999988******.66778899***************867 PP NAM 78 .......tksgyWkatgkdkevlskkgelvglkktLvfykgrapkge...ktdWvmheyrl 128 ++ +W++tg +k++++++g ++g kk+Lv+ykg+++ g + +Wvmh+y+l Pavir.7NG233500.2.p 136 gndrsvcDEHMRWHKTGASKPIYDENGFKKGWKKILVLYKGSKRCGGkidRDNWVMHQYHL 196 877777655788*************************998876333789****98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	5.62E-34	36	215	IPR003441	NAC domain
PROSITE profile	PS51005	28.617	51	215	IPR003441	NAC domain
Pfam	PF02365	2.5E-11	52	196	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: 396 aa Download sequence Send to blast
MTGVGLVKRI RNATHLISLR LGELVAEPYI KCPNCECGID TTNVSLVWPE LPAGVKFDPS 60 DLELLQHLQG KSSVQNSNSH ALIDDFIPTI EELGGICYTH PKNLPGIKMD GSSAHFFHKV 120 SNAYGCGHRK RRKISGNDRS VCDEHMRWHK TGASKPIYDE NGFKKGWKKI LVLYKGSKRC 180 GGKIDRDNWV MHQYHLGADE DEADGELVVS KVFYQLLAKK NDKSGMDDVE LGSEPSAAKI 240 DPRTPNSEPS VSKIDPRTPK TDPPQPHLPS NSPCNTEQYT PIQADQEEEE CGTSIRRVKV 300 EGAECSAWFA ELPPAIVVAD LPASDEPRQL RDAPPVSPEP EATIPVNGSN TDLFNGLTDL 360 DTTFPCLGTP SDSIADIQFG SQDSFGGWLD SFKFY*

Sequence ? help Back to Top

Protein Sequence Length: 396 aa Download sequence Send to blast

MTGVGLVKRI RNATHLISLR LGELVAEPYI KCPNCECGID TTNVSLVWPE LPAGVKFDPS  60
DLELLQHLQG KSSVQNSNSH ALIDDFIPTI EELGGICYTH PKNLPGIKMD GSSAHFFHKV  120
SNAYGCGHRK RRKISGNDRS VCDEHMRWHK TGASKPIYDE NGFKKGWKKI LVLYKGSKRC  180
GGKIDRDNWV MHQYHLGADE DEADGELVVS KVFYQLLAKK NDKSGMDDVE LGSEPSAAKI  240
DPRTPNSEPS VSKIDPRTPK TDPPQPHLPS NSPCNTEQYT PIQADQEEEE CGTSIRRVKV  300
EGAECSAWFA ELPPAIVVAD LPASDEPRQL RDAPPVSPEP EATIPVNGSN TDLFNGLTDL  360
DTTFPCLGTP SDSIADIQFG SQDSFGGWLD SFKFY*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pvr.35789	0.0	callus

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	Pavir.7NG233500.2.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 -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025824944.1	0.0	SUPPRESSOR OF GAMMA RESPONSE 1-like isoform X1
Swissprot	Q6NQK2	2e-64	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	A0A2S3I7M8	0.0	A0A2S3I7M8_9POAL; Uncharacterized protein
TrEMBL	A0A2T7CWA8	0.0	A0A2T7CWA8_9POAL; Uncharacterized protein
STRING	Pavir.Gb01338.1.p	0.0	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25580.1	1e-66	NAC family protein

Link Out ? help Back to Top
Phytozome	Pavir.7NG233500.2.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]