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

RrC6409_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Raphanus

Family

NAC

Protein Properties

Length: 531aa MW: 59879.2 Da PI: 4.3541

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC6409_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	164.2	4.8e-51	18	146	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp.k.kvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlskkg 97 l+pGfrFhPtdeelv +yLk+k+ +k+l + ++i+ +++yk+ePwdLp + k+k+++ ewyfFs d+ky++g+++nrat++gyWk+tgkd+e+ + +g RrC6409_p1 18 LAPGFRFHPTDEELVRYYLKRKICNKPLMF-DAISVTHVYKSEPWDLPsQsKLKSRDLEWYFFSVLDNKYSNGSKTNRATEKGYWKTTGKDREIRNGSG 115 579**********************988.99**********95247777888**********************************9 PP NAM 98 elvglkktLvfykgrapkgektdWvmheyrl 128 +vg+kktLv++kgrap+ge+++Wvmheyrl RrC6409_p1 116 VVVGMKKTLVYHKGRAPRGERSNWVMHEYRL 146 *****************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	7.19E-60	13	169	IPR003441	NAC domain
PROSITE profile	PS51005	56.686	18	169	IPR003441	NAC domain
Pfam	PF02365	1.3E-27	20	146	IPR003441	NAC domain

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009819	Biological Process	drought recovery
GO:0010150	Biological Process	leaf senescence
GO:0045893	Biological Process	positive regulation of transcription, DNA-templated
GO:2000377	Biological Process	regulation of reactive oxygen species metabolic process
GO:0005634	Cellular Component	nucleus
GO:0005737	Cellular Component	cytoplasm
GO:0005886	Cellular Component	plasma membrane
GO:0003677	Molecular Function	DNA binding
GO:0003700	Molecular Function	transcription factor activity, sequence-specific DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 531 aa Download sequence Send to blast
MGRLRGGGSS SSSETSSLAP GFRFHPTDEE LVRYYLKRKI CNKPLMFDAI SVTHVYKSEP 60 WDLPSQSKLK SRDLEWYFFS VLDNKYSNGS KTNRATEKGY WKTTGKDREI RNGSGVVVGM 120 KKTLVYHKGR APRGERSNWV MHEYRLVDDE IVKAGVQKDA YVVCKIFQKS GSGPKNGEQY 180 GAPFVEEEWE EEDGMTFVPD QDLEDQVYVD INDIDQKLDV YDAIPIHLGF DQGESSNNVE 240 TNYSDSTNYI VPGNYVHTNG YFEGPVEEQK HIIHDVSLQN EENGRGVQEE SRENLQSSDN 300 ILEPDASIYN DFPVESRYFT GEEFLEPNSS LLQNDGLYLE TNDLNSTEQD GFNFEDYFTF 360 FDEDDQNLTF DPSQLMGTED VIPDQEELFQ MAETEAASGG KQVVEEASCS KQVRADATEF 420 EPDYKDSLLK KASHMIGAIP SPTKFASEIL TKDGVVRLQA GQPSGSVHVS MITISDSNMG 480 WSYGKNGNLD LLLSFGLVQE NVSGKSENHL TRVMLIFVCF WVLLLSVSFK A

Sequence ? help Back to Top

Protein Sequence Length: 531 aa Download sequence Send to blast

MGRLRGGGSS SSSETSSLAP GFRFHPTDEE LVRYYLKRKI CNKPLMFDAI SVTHVYKSEP  60
WDLPSQSKLK SRDLEWYFFS VLDNKYSNGS KTNRATEKGY WKTTGKDREI RNGSGVVVGM  120
KKTLVYHKGR APRGERSNWV MHEYRLVDDE IVKAGVQKDA YVVCKIFQKS GSGPKNGEQY  180
GAPFVEEEWE EEDGMTFVPD QDLEDQVYVD INDIDQKLDV YDAIPIHLGF DQGESSNNVE  240
TNYSDSTNYI VPGNYVHTNG YFEGPVEEQK HIIHDVSLQN EENGRGVQEE SRENLQSSDN  300
ILEPDASIYN DFPVESRYFT GEEFLEPNSS LLQNDGLYLE TNDLNSTEQD GFNFEDYFTF  360
FDEDDQNLTF DPSQLMGTED VIPDQEELFQ MAETEAASGG KQVVEEASCS KQVRADATEF  420
EPDYKDSLLK KASHMIGAIP SPTKFASEIL TKDGVVRLQA GQPSGSVHVS MITISDSNMG  480
WSYGKNGNLD LLLSFGLVQE NVSGKSENHL TRVMLIFVCF WVLLLSVSFK A

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	4e-41	17	175	16	171	NO APICAL MERISTEM PROTEIN
1ut4_B	4e-41	17	175	16	171	NO APICAL MERISTEM PROTEIN
1ut7_A	4e-41	17	175	16	171	NO APICAL MERISTEM PROTEIN
1ut7_B	4e-41	17	175	16	171	NO APICAL MERISTEM PROTEIN
3swm_A	4e-41	17	175	19	174	NAC domain-containing protein 19
3swm_B	4e-41	17	175	19	174	NAC domain-containing protein 19
3swm_C	4e-41	17	175	19	174	NAC domain-containing protein 19
3swm_D	4e-41	17	175	19	174	NAC domain-containing protein 19
3swp_A	4e-41	17	175	19	174	NAC domain-containing protein 19
3swp_B	4e-41	17	175	19	174	NAC domain-containing protein 19
3swp_C	4e-41	17	175	19	174	NAC domain-containing protein 19
3swp_D	4e-41	17	175	19	174	NAC domain-containing protein 19
3ulx_A	4e-41	17	175	14	174	Stress-induced transcription factor NAC1
4dul_A	4e-41	17	175	16	171	NAC domain-containing protein 19
4dul_B	4e-41	17	175	16	171	NAC domain-containing protein 19
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Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional activator activated by proteolytic cleavage through regulated intramembrane proteolysis (RIP) (Ref.6, PubMed:24323506, PubMed:25219309). Promotes reactive oxygen species (ROS) production during drought-induced leaf senescence. In response to abscisic acid (ABA)-mediated drought stress signals, binds directly to the promoters of RBOHC and RBOHE genes, encoding ROS biosynthetic enzymes, resulting in ROS accumulation and triggering leaf senescence via programmed cell death (PCD). ROS-induced leaf senescence sustains plant survival under drought conditions (PubMed:22313226). Involved in heat stress response. Modulates PCD through a ROS-mediated positive feedback control under heat stress conditions. This may provide an adaptation strategy for plant survival under extreme heat stress conditions (PubMed:25219309). Acts as repressor in preventing anther dehiscence during stamen development by suppressing genes that participate in jasmonic acid (JA) biosynthesis, such as DAD1, AOS, AOC3, OPR3 and 4CLL5/OPCL1 (PubMed:24323506). {ECO:0000269\|PubMed:22313226, ECO:0000269\|PubMed:24323506, ECO:0000269\|PubMed:25219309, ECO:0000269\|Ref.6}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00343	DAP	Transfer from AT3G10500	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By abscisic acid (ABA) (PubMed:22313226, PubMed:25219309). Induced by heat shock (PubMed:25219309). Induced by cold, drought stress and methyl methanesulfonate (MMS) treatment (PubMed:17158162). {ECO:0000269\|PubMed:17158162, ECO:0000269\|PubMed:22313226, ECO:0000269\|PubMed:25219309}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018439551.1	0.0	PREDICTED: NAC domain-containing protein 53 isoform X1
Swissprot	Q949N0	0.0	NAC53_ARATH; NAC domain-containing protein 53
TrEMBL	A0A078HVH3	0.0	A0A078HVH3_BRANA; BnaA01g31650D protein
TrEMBL	A0A3P5ZBD4	0.0	A0A3P5ZBD4_BRACM; Uncharacterized protein
STRING	Bo1g143830.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM3192	27	62

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G10500.1	0.0	NAC domain containing protein 53

Publications ? help Back to Top
Duarte JM, et al. Expression pattern shifts following duplication indicative of subfunctionalization and neofunctionalization in regulatory genes of Arabidopsis. Mol. Biol. Evol., 2006. 23(2): p. 469-78 [PMID:16280546] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Vermeirssen V,De Clercq I,Van Parys T,Van Breusegem F,Van de Peer Y Arabidopsis ensemble reverse-engineered gene regulatory network discloses interconnected transcription factors in oxidative stress. Plant Cell, 2014. 26(12): p. 4656-79 [PMID:25549671] Gladman NP,Marshall RS,Lee KH,Vierstra RD The Proteasome Stress Regulon Is Controlled by a Pair of NAC Transcription Factors in Arabidopsis. Plant Cell, 2016. 28(6): p. 1279-96 [PMID:27194708] Sanz-Fernández M, et al. Screening Arabidopsis mutants in genes useful for phytoremediation. J. Hazard. Mater., 2017. 335: p. 143-151 [PMID:28441590]