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

Ciclev10031598m

Common Name

CICLE_v10031598mg

Organism

Citrus clementina

Taxonomic ID

85681

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Sapindales; Rutaceae; Aurantioideae; Citrus

Family

NAC

Protein Properties

Length: 433aa MW: 48150.5 Da PI: 5.1277

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Ciclev10031598m	genome	ICGC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	105.4	7.3e-33	58	197	1	128
NAM 1 lppGfrFhPtdeelvveyLkkk.vegkk....leleevikevd....iykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratk.....s 80 lp+G++F+P+d+e+v++ L+k +eg + + +e+i++vd i++++P++Lp vk++ + +fF ++ k+y+tg+rk+r+++ + Ciclev10031598m 58 LPRGVKFDPSDQEIVWHLLAKAgLEGLNphpfI--DEFIPTVDqdggICYTHPQNLP-GVKQDGSAAHFFYRAIKAYSTGTRKRRKINgddfgE 148 799**********998888745554464322..345777765677******.777888999**************865556558 PP NAM 81 gyWkatgkdkevlskkgelvglkktLvfy..kgrapkgektdWvmheyrl 128 +W++tg++k+v+ +g ++g+kk++v+y r k+ekt+Wvmh+y+l Ciclev10031598m 149 VRWHKTGRTKPVML-DGVQKGCKKIMVLYmsMVRGGKAEKTNWVMHQYHL 197 89********.99********6546899999*******98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	5.75E-39	43	216	IPR003441	NAC domain
PROSITE profile	PS51005	31.588	58	216	IPR003441	NAC domain
Pfam	PF02365	1.3E-13	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: 433 aa Download sequence Send to blast
MAGPSWLVDS NRIATKIKSA SGTGDPERVK WKSNPTKACP NCHHVIDNSD VAHEWPGLPR 60 GVKFDPSDQE IVWHLLAKAG LEGLNPHPFI DEFIPTVDQD GGICYTHPQN LPGVKQDGSA 120 AHFFYRAIKA YSTGTRKRRK INGDDFGEVR WHKTGRTKPV MLDGVQKGCK KIMVLYMSMV 180 RGGKAEKTNW VMHQYHLGTE EDEKDDNYVI SKIFYQQQQA KYGDKIEQDI LESTGAIIPK 240 VDPVTPKSVT PDPPRTERHP DFGPRQESPT TDAFDQQSEI RHVEELQPLC ENPGSNDKIE 300 AENHANMMVG NNDNGSQAGD DRKWWDSESQ NGLSQNILDT QQLAEALTLC EEFLNSQSDG 360 NANDGTSKGK PGLSDYARLG SEHLKKDLEE CQMLVHDPAN IELDTPPEFG LSQLEFNSQD 420 SFIPFGGSKA IN*

Sequence ? help Back to Top

Protein Sequence Length: 433 aa Download sequence Send to blast

MAGPSWLVDS NRIATKIKSA SGTGDPERVK WKSNPTKACP NCHHVIDNSD VAHEWPGLPR  60
GVKFDPSDQE IVWHLLAKAG LEGLNPHPFI DEFIPTVDQD GGICYTHPQN LPGVKQDGSA  120
AHFFYRAIKA YSTGTRKRRK INGDDFGEVR WHKTGRTKPV MLDGVQKGCK KIMVLYMSMV  180
RGGKAEKTNW VMHQYHLGTE EDEKDDNYVI SKIFYQQQQA KYGDKIEQDI LESTGAIIPK  240
VDPVTPKSVT PDPPRTERHP DFGPRQESPT TDAFDQQSEI RHVEELQPLC ENPGSNDKIE  300
AENHANMMVG NNDNGSQAGD DRKWWDSESQ NGLSQNILDT QQLAEALTLC EEFLNSQSDG  360
NANDGTSKGK PGLSDYARLG SEHLKKDLEE CQMLVHDPAN IELDTPPEFG LSQLEFNSQD  420
SFIPFGGSKA IN*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ccl.20490	0.0	abscission zone

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}.

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_006437738.1	0.0	SUPPRESSOR OF GAMMA RESPONSE 1
Swissprot	Q6NQK2	1e-180	NAC8_ARATH; SUPPRESSOR OF GAMMA RESPONSE 1
TrEMBL	V4ST09	0.0	V4ST09_9ROSI; Uncharacterized protein
STRING	XP_006437738.1	0.0	(Citrus clementina)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM9707	27	36

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G25580.1	0.0	NAC family protein

Link Out ? help Back to Top
Phytozome	Ciclev10031598m
Entrez Gene	18044024

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]