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

Rsa1.0_00951.1_g00019.1

Organism

Raphanus sativus

Taxonomic ID

3726

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: 448aa MW: 50308.4 Da PI: 5.1717

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Rsa1.0_00951.1_g00019.1	genome	RGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	160.8	5.3e-50	26	176	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp.k........................kvkaeekewyfF 61 l+pGfrFhPtdeelv++yLk+kv gk++++ ++i evdiyk+ePwdL + +++++++ewyf+ Rsa1.0_00951.1_g00019.1 26 LAPGFRFHPTDEELVSYYLKRKVLGKPVRF-DAIGEVDIYKHEPWDLAgQevllllrvsqyisgliffslsvfsRLRTRDQEWYFY 110 579**********************999.99**********85489************9999988888999* PP NAM 62 skrdkkyatgkrknratksgyWkatgkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 s dkky +g r nrat++gyWkatgkd+ev + + + g+kktLvf++grap+g +t+Wvmheyrl Rsa1.0_00951.1_g00019.1 111 SALDKKYGNGARMNRATNKGYWKATGKDREVRR-DVQILGMKKTLVFHSGRAPDGLRTNWVMHEYRL 176 ****************************9.999**************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	2.09E-55	19	201	IPR003441	NAC domain
PROSITE profile	PS51005	54.507	26	200	IPR003441	NAC domain
Pfam	PF02365	1.8E-26	28	176	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: 448 aa Download sequence Send to blast
MGRESVVAVV SSPATAPSTV VAATALAPGF RFHPTDEELV SYYLKRKVLG KPVRFDAIGE 60 VDIYKHEPWD LAGQEVLLLL RVSQYISGLI FFSLSVFSRL RTRDQEWYFY SALDKKYGNG 120 ARMNRATNKG YWKATGKDRE VRRDVQILGM KKTLVFHSGR APDGLRTNWV MHEYRLVDYE 180 TESNGNLVQD AYVLCRIFHK NNIGPPSGNR YAPFMEEEWA DDGVALIPGV DVSVRAEPIP 240 LANGNSQSAS KDIININEPP RETTTTPMDI EVNHKDNNNN HCDDEDEEEA LKREEAGEED 300 EHPPPPSLCI LNKEAPLPLL QYKRRRQNES TRTTTTQDHS SSTITTVDNT PTTTAAAATN 360 TAISALLEFS LMGLSDKKDS QPQPLTPLAS SEEKLNDLQK EIHQMSVERE TFKLEMMSAE 420 AMISILQSRI DALRQENDEL KKNSANGH

Sequence ? help Back to Top

Protein Sequence Length: 448 aa Download sequence Send to blast

MGRESVVAVV SSPATAPSTV VAATALAPGF RFHPTDEELV SYYLKRKVLG KPVRFDAIGE  60
VDIYKHEPWD LAGQEVLLLL RVSQYISGLI FFSLSVFSRL RTRDQEWYFY SALDKKYGNG  120
ARMNRATNKG YWKATGKDRE VRRDVQILGM KKTLVFHSGR APDGLRTNWV MHEYRLVDYE  180
TESNGNLVQD AYVLCRIFHK NNIGPPSGNR YAPFMEEEWA DDGVALIPGV DVSVRAEPIP  240
LANGNSQSAS KDIININEPP RETTTTPMDI EVNHKDNNNN HCDDEDEEEA LKREEAGEED  300
EHPPPPSLCI LNKEAPLPLL QYKRRRQNES TRTTTTQDHS SSTITTVDNT PTTTAAAATN  360
TAISALLEFS LMGLSDKKDS QPQPLTPLAS SEEKLNDLQK EIHQMSVERE TFKLEMMSAE  420
AMISILQSRI DALRQENDEL KKNSANGH

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3swm_A	6e-44	25	202	19	170	NAC domain-containing protein 19
3swm_B	6e-44	25	202	19	170	NAC domain-containing protein 19
3swm_C	6e-44	25	202	19	170	NAC domain-containing protein 19
3swm_D	6e-44	25	202	19	170	NAC domain-containing protein 19
3swp_A	6e-44	25	202	19	170	NAC domain-containing protein 19
3swp_B	6e-44	25	202	19	170	NAC domain-containing protein 19
3swp_C	6e-44	25	202	19	170	NAC domain-containing protein 19
3swp_D	6e-44	25	202	19	170	NAC domain-containing protein 19
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcriptional repressor that binds to the motif 5'-(C/T)A(C/A)G-3' in the promoter of target genes (PubMed:25578968). Binds also to the 5'-CTTGNNNNNCAAG-3' consensus sequence in chromatin (PubMed:26617990). Can bind to the mitochondrial dysfunction motif (MDM) present in the upstream regions of mitochondrial dysfunction stimulon (MDS) genes involved in mitochondrial retrograde regulation (MRR) (PubMed:24045019). Together with NAC050 and JMJ14, regulates gene expression and flowering time by associating with the histone demethylase JMJ14, probably by the promotion of RNA-mediated gene silencing (PubMed:25578968, PubMed:26617990). Regulates siRNA-dependent post-transcriptional gene silencing (PTGS) through SGS3 expression modulation (PubMed:28207953). Required during pollen development (PubMed:19237690). {ECO:0000269\|PubMed:19237690, ECO:0000269\|PubMed:24045019, ECO:0000269\|PubMed:25578968, ECO:0000269\|PubMed:26617990, ECO:0000269\|PubMed:28207953}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Rsa1.0_00951.1_g00019.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Induced by type III effector proteins (TTEs) secreted by the pathogenic bacteria P.syringae pv. tomato DC3000 during basal defense. {ECO:0000269\|PubMed:16553893}.

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	KC966753	0.0	KC966753.1 Brassica napus NAC transcription factor 51 (NAC51.1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018439556.1	0.0	PREDICTED: NAC domain-containing protein 53-like isoform X2
Swissprot	Q9SQY0	0.0	NAC52_ARATH; NAC domain containing protein 52
TrEMBL	A0A0D3AEQ2	0.0	A0A0D3AEQ2_BRAOL; Uncharacterized protein
STRING	Bo1g143850.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1780	28	80

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G10490.2	0.0	NAC domain containing protein 52

Publications ? help Back to Top
Higgins JD,Ferdous M,Osman K,Franklin FC The RecQ helicase AtRECQ4A is required to remove inter-chromosomal telomeric connections that arise during meiotic recombination in Arabidopsis. Plant J., 2011. 65(3): p. 492-502 [PMID:21265901] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444] Zhang S, et al. C-terminal domains of a histone demethylase interact with a pair of transcription factors and mediate specific chromatin association. Cell Discov, 2019. [PMID:26617990] Butel N,Le Masson I,Bouteiller N,Vaucheret H,Elmayan T sgs1: a neomorphic nac52 allele impairing post-transcriptional gene silencing through SGS3 downregulation. Plant J., 2017. 90(3): p. 505-519 [PMID:28207953] Elmayan T, et al. Arabidopsis mutants impaired in cosuppression. Plant Cell, 1998. 10(10): p. 1747-58 [PMID:9761800]