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

Potri.010G229700.2

Common Name

POPTR_0010s23630g

Organism

Populus trichocarpa

Taxonomic ID

3694

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Salicaceae; Saliceae; Populus

Family

NAC

Protein Properties

Length: 363aa MW: 40627.8 Da PI: 6.324

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Potri.010G229700.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	96.6	3.7e-30	11	88	50	128
NAM 50 kvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 ++k++++ewyfFs+ dkky +g r nrat +gyWkatgkd+e+ + + +l +kktLvf++grap g +t+Wvmheyrl Potri.010G229700.2 11 RLKSRDQEWYFFSPLDKKYGNGARMNRATGKGYWKATGKDREIRR-ECQLLAMKKTLVFHSGRAPGGLRTNWVMHEYRL 88 6778999***********************************9.8899*************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS51005	37.673	1	112	IPR003441	NAC domain
SuperFamily	SSF101941	4.18E-36	13	113	IPR003441	NAC domain
Pfam	PF02365	4.7E-14	16	88	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: 363 aa Download sequence Send to blast
MQLCWSVDKS RLKSRDQEWY FFSPLDKKYG NGARMNRATG KGYWKATGKD REIRRECQLL 60 AMKKTLVFHS GRAPGGLRTN WVMHEYRLID EELERTGAMQ IDSYVLCRVF HKNNIGPPTG 120 NRYAPFIEEE WDDRGAALIP GEDAADEVVV TYDTGGEMHR TEQDSHSINK SPLGITEVPG 180 DSQNALPVCK TESVEDCPPL CVLNTEAPFP LLQYKRRKHN NETGSNRSNG SENSTRTSQD 240 PCSSTTTTAA TTSAEMMMAT TSATTTAISA LLEFSLMEPL EPKENPRVPP PALDAASLDS 300 SMSPSCRKFI NDLQSEIRKI SVERETLKLE MMSAHAMINI LQSRVDFLNK ENEDLKRSVH 360 AK*

Sequence ? help Back to Top

Protein Sequence Length: 363 aa Download sequence Send to blast

MQLCWSVDKS RLKSRDQEWY FFSPLDKKYG NGARMNRATG KGYWKATGKD REIRRECQLL  60
AMKKTLVFHS GRAPGGLRTN WVMHEYRLID EELERTGAMQ IDSYVLCRVF HKNNIGPPTG  120
NRYAPFIEEE WDDRGAALIP GEDAADEVVV TYDTGGEMHR TEQDSHSINK SPLGITEVPG  180
DSQNALPVCK TESVEDCPPL CVLNTEAPFP LLQYKRRKHN NETGSNRSNG SENSTRTSQD  240
PCSSTTTTAA TTSAEMMMAT TSATTTAISA LLEFSLMEPL EPKENPRVPP PALDAASLDS  300
SMSPSCRKFI NDLQSEIRKI SVERETLKLE MMSAHAMINI LQSRVDFLNK ENEDLKRSVH  360
AK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	1e-33	16	114	70	167	NO APICAL MERISTEM PROTEIN
1ut4_B	1e-33	16	114	70	167	NO APICAL MERISTEM PROTEIN
1ut7_A	1e-33	16	114	70	167	NO APICAL MERISTEM PROTEIN
1ut7_B	1e-33	16	114	70	167	NO APICAL MERISTEM PROTEIN
3swm_A	9e-34	16	114	73	170	NAC domain-containing protein 19
3swm_B	9e-34	16	114	73	170	NAC domain-containing protein 19
3swm_C	9e-34	16	114	73	170	NAC domain-containing protein 19
3swm_D	9e-34	16	114	73	170	NAC domain-containing protein 19
3swp_A	9e-34	16	114	73	170	NAC domain-containing protein 19
3swp_B	9e-34	16	114	73	170	NAC domain-containing protein 19
3swp_C	9e-34	16	114	73	170	NAC domain-containing protein 19
3swp_D	9e-34	16	114	73	170	NAC domain-containing protein 19
4dul_A	1e-33	16	114	70	167	NAC domain-containing protein 19
4dul_B	1e-33	16	114	70	167	NAC domain-containing protein 19
Search in ModeBase

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Pth.3225	0.0	bud\| stem

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}.

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	Potri.010G229700.2

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	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	EF145394	0.0	EF145394.1 Populus trichocarpa clone WS01124_C05 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002315336.1	0.0	NAC domain containing protein 50
Swissprot	Q9SQY0	1e-116	NAC52_ARATH; NAC domain containing protein 52
TrEMBL	A9PB02	0.0	A9PB02_POPTR; Uncharacterized protein
STRING	POPTR_0010s23630.1	0.0	(Populus trichocarpa)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G10480.1	1e-112	NAC domain containing protein 50

Link Out ? help Back to Top
Phytozome	Potri.010G229700.2
Entrez Gene	7463465

Publications ? help Back to Top
Ralph SG, et al. Analysis of 4,664 high-quality sequence-finished poplar full-length cDNA clones and their utility for the discovery of genes responding to insect feeding. BMC Genomics, 2008. 9: p. 57 [PMID:18230180] 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]