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

GSBRNA2T00111649001

Common Name

GSBRNA2T00111649001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

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

Family

NAC

Protein Properties

Length: 457aa MW: 51262.6 Da PI: 6.0896

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00111649001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	156.6	1.1e-48	24	176	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpk...........................kvkaeekewyfFsk 63 l+pGfrFhPtd+elv++yLk+kv +k++++ ++i +vdiyk+ePw+L +k++++ewyf++ GSBRNA2T00111649001 24 LAPGFRFHPTDDELVSYYLKRKVLDKPVRF-DAIGDVDIYKHEPWELAGcntfffflaacasvwfacvsgnevlfsWLKTRDQEWYFYCA 112 579**********************999.99**********845799*********99999999887777999*** PP NAM 64 rdkkyatgkrknratksgyWkatgkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 dkky +g r nrat++gyWkatgkd+e+ s + + g+kktLvf++grap+g +t+Wvmheyrl GSBRNA2T00111649001 113 LDKKYGNGARMNRATNKGYWKATGKDREIRS-DVQILGMKKTLVFHSGRAPDGLRTNWVMHEYRL 176 ***************************.999**************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	5.36E-54	17	72	IPR003441	NAC domain
PROSITE profile	PS51005	53.409	24	200	IPR003441	NAC domain
Pfam	PF02365	1.7E-26	26	176	IPR003441	NAC domain
SuperFamily	SSF101941	5.36E-54	96	201	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:0005634	Cellular Component	nucleus
GO:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 457 aa Download sequence Send to blast
MGRESVSAVS SPPTTTATAV ATALAPGFRF HPTDDELVSY YLKRKVLDKP VRFDAIGDVD 60 IYKHEPWELA GCNTFFFFLA ACASVWFACV SGNEVLFSWL KTRDQEWYFY CALDKKYGNG 120 ARMNRATNKG YWKATGKDRE IRSDVQILGM KKTLVFHSGR APDGLRTNWV MHEYRLVDYE 180 TENNGNPVQD AYVLCRIFHK NNIGPPCGNR YAPFMEEEWD GDGAALIPGV NVSVRVEPVP 240 VANGNIQMDQ PESKGLININ EPPREATPMD IEVNHQETAL KPHENNNDED EKALRRENAN 300 KDERPPAVCV LNKEAPLPLI QYKRRRQNES SNNNSSRTAE DYCSSTTTTV DNTPTLVSSS 360 TAAAATNSAI SALLEFSLMG ISKKKENLLR PHKEATLEEK LNDLQKESKQ MSDERKSFKL 420 EMMGAEAMIS ILQSRIDALR QENDELKKNN NSANGH*

Sequence ? help Back to Top

Protein Sequence Length: 457 aa Download sequence Send to blast

MGRESVSAVS SPPTTTATAV ATALAPGFRF HPTDDELVSY YLKRKVLDKP VRFDAIGDVD  60
IYKHEPWELA GCNTFFFFLA ACASVWFACV SGNEVLFSWL KTRDQEWYFY CALDKKYGNG  120
ARMNRATNKG YWKATGKDRE IRSDVQILGM KKTLVFHSGR APDGLRTNWV MHEYRLVDYE  180
TENNGNPVQD AYVLCRIFHK NNIGPPCGNR YAPFMEEEWD GDGAALIPGV NVSVRVEPVP  240
VANGNIQMDQ PESKGLININ EPPREATPMD IEVNHQETAL KPHENNNDED EKALRRENAN  300
KDERPPAVCV LNKEAPLPLI QYKRRRQNES SNNNSSRTAE DYCSSTTTTV DNTPTLVSSS  360
TAAAATNSAI SALLEFSLMG ISKKKENLLR PHKEATLEEK LNDLQKESKQ MSDERKSFKL  420
EMMGAEAMIS ILQSRIDALR QENDELKKNN NSANGH*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	2e-42	23	202	16	167	NO APICAL MERISTEM PROTEIN
1ut4_B	2e-42	23	202	16	167	NO APICAL MERISTEM PROTEIN
1ut7_A	2e-42	23	202	16	167	NO APICAL MERISTEM PROTEIN
1ut7_B	2e-42	23	202	16	167	NO APICAL MERISTEM PROTEIN
3swm_A	2e-42	23	202	19	170	NAC domain-containing protein 19
3swm_B	2e-42	23	202	19	170	NAC domain-containing protein 19
3swm_C	2e-42	23	202	19	170	NAC domain-containing protein 19
3swm_D	2e-42	23	202	19	170	NAC domain-containing protein 19
3swp_A	2e-42	23	202	19	170	NAC domain-containing protein 19
3swp_B	2e-42	23	202	19	170	NAC domain-containing protein 19
3swp_C	2e-42	23	202	19	170	NAC domain-containing protein 19
3swp_D	2e-42	23	202	19	170	NAC domain-containing protein 19
4dul_A	2e-42	23	202	16	167	NAC domain-containing protein 19
4dul_B	2e-42	23	202	16	167	NAC domain-containing protein 19
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Bna.10609	1e-149	microspore-derived embryo\| root\| seed

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Mostly expressed in floral organs, and, at low levels, in other organs. {ECO:0000269\|PubMed:25578968}.

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	GSBRNA2T00111649001

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	KC966752	0.0	KC966752.1 Brassica napus NAC transcription factor 50 (NAC50.1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009135111.1	0.0	PREDICTED: NAC domain-containing protein 4-like
Swissprot	Q9SQY0	0.0	NAC52_ARATH; NAC domain containing protein 52
TrEMBL	A0A3P5ZMY5	0.0	A0A3P5ZMY5_BRACM; Uncharacterized protein
STRING	Bra001365.1-P	0.0	(Brassica rapa)

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
AT3G10480.3	0.0	NAC domain containing protein 50

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] Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]