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

Araha.4954s0011.1.p

Organism

Arabidopsis halleri

Taxonomic ID

81970

Taxonomic Lineage

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

Family

NAC

Protein Properties

Length: 352aa MW: 39975.5 Da PI: 5.4911

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araha.4954s0011.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	68.4	2e-21	2	54	75	128
NAM 75 nratksgyWkatgkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 nrat++gyWkatgkd+e+ + + +l g+kktLvf++grap+g +t+Wvmheyrl Araha.4954s0011.1.p 2 NRATNRGYWKATGKDREIRR-DIQLLGMKKTLVFHSGRAPDGLRTNWVMHEYRL 54 8****************9.999**************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51005	30.921	1	78	IPR003441	NAC domain
Pfam	PF02365	2.9E-10	2	54	IPR003441	NAC domain
SuperFamily	SSF101941	1.83E-26	2	79	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:0009555	Biological Process	pollen development
GO:0010228	Biological Process	vegetative to reproductive phase transition of meristem
GO:0005730	Cellular Component	nucleolus
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: 352 aa Download sequence Send to blast
MNRATNRGYW KATGKDREIR RDIQLLGMKK TLVFHSGRAP DGLRTNWVMH EYRLVEYETE 60 KNGNLVQDAY VLCRVFHKNN IGPPSGNRYA PFMEEEWADD AGALIPGIDV KLRLEPPPVA 120 NGNNQMDQEI QSGSKSLINI NEPPRETAPM DIEPNQQNHH ENELKPQEHN NNNNYDENEE 180 TLKREHTEED ERPAPPVCVL NKEAPLPLLQ YKRRRQNESN NNSSRNTQDH CSSTTTTVDN 240 TTTLISSSAA ATNTAISALL EFSLMGISDK KEKPQQPLRP HKEPSPPQTP LASPEEKVND 300 LQKEIHQMSV ERETFKLEMM SAEAMISILQ SRIDALRQEN EELKKNNANG Q*

Sequence ? help Back to Top

Protein Sequence Length: 352 aa Download sequence Send to blast

MNRATNRGYW KATGKDREIR RDIQLLGMKK TLVFHSGRAP DGLRTNWVMH EYRLVEYETE  60
KNGNLVQDAY VLCRVFHKNN IGPPSGNRYA PFMEEEWADD AGALIPGIDV KLRLEPPPVA  120
NGNNQMDQEI QSGSKSLINI NEPPRETAPM DIEPNQQNHH ENELKPQEHN NNNNYDENEE  180
TLKREHTEED ERPAPPVCVL NKEAPLPLLQ YKRRRQNESN NNSSRNTQDH CSSTTTTVDN  240
TTTLISSSAA ATNTAISALL EFSLMGISDK KEKPQQPLRP HKEPSPPQTP LASPEEKVND  300
LQKEIHQMSV ERETFKLEMM SAEAMISILQ SRIDALRQEN EELKKNNANG Q*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	1e-21	2	80	90	167	NO APICAL MERISTEM PROTEIN
1ut4_B	1e-21	2	80	90	167	NO APICAL MERISTEM PROTEIN
1ut7_A	1e-21	2	80	90	167	NO APICAL MERISTEM PROTEIN
1ut7_B	1e-21	2	80	90	167	NO APICAL MERISTEM PROTEIN
3swm_A	1e-21	2	80	93	170	NAC domain-containing protein 19
3swm_B	1e-21	2	80	93	170	NAC domain-containing protein 19
3swm_C	1e-21	2	80	93	170	NAC domain-containing protein 19
3swm_D	1e-21	2	80	93	170	NAC domain-containing protein 19
3swp_A	1e-21	2	80	93	170	NAC domain-containing protein 19
3swp_B	1e-21	2	80	93	170	NAC domain-containing protein 19
3swp_C	1e-21	2	80	93	170	NAC domain-containing protein 19
3swp_D	1e-21	2	80	93	170	NAC domain-containing protein 19
4dul_A	1e-21	2	80	90	167	NAC domain-containing protein 19
4dul_B	1e-21	2	80	90	167	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}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00612	ChIP-seq	Transfer from AT3G10490	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Araha.4954s0011.1.p

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	AY059795	0.0	AY059795.1 Arabidopsis thaliana unknown protein (At3g10480) mRNA, complete cds.
GenBank	AY091262	0.0	AY091262.1 Arabidopsis thaliana unknown protein (At3g10480) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002882676.1	0.0	NAC domain-containing protein 26 isoform X1
Swissprot	Q9SQY0	0.0	NAC52_ARATH; NAC domain containing protein 52
TrEMBL	D7L8Z6	0.0	D7L8Z6_ARALL; ANAC051/ANAC052
STRING	fgenesh2_kg.3__1083__AT3G10490.2	0.0	(Arabidopsis lyrata)

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

Link Out ? help Back to Top
Phytozome	Araha.4954s0011.1.p

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]