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

PGSC0003DMP400040416

Common Name

LOC102601251

Organism

Solanum tuberosum

Taxonomic ID

4113

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

NAC

Protein Properties

Length: 392aa MW: 43871.4 Da PI: 5.0592

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400040416	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	166.7	8e-52	22	149	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp..kkvkaeekewyfFskrdkkyatgkrknratksgyWkatg 87 l+pGfrFhPtdeelv +yL++kv gk++++ ++++e+d+yk+eP dL ++vk+++ ewyfFs+ dkky +g+r nrat +gyWkatg PGSC0003DMP400040416 22 LAPGFRFHPTDEELVRYYLRRKVCGKPFRF-QAVTEIDVYKSEPCDLAeySSVKSRDMEWYFFSPVDKKYCNGSRLNRATGQGYWKATG 109 579***********************99.88**********84348888999*************************** PP NAM 88 kdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 kd+++ + k++++g+kktLvf++grap+g++t+Wvmheyrl PGSC0003DMP400040416 110 KDRHISH-KSQAIGMKKTLVFHSGRAPDGKRTNWVMHEYRL 149 **9.999**************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	2.35E-60	16	172	IPR003441	NAC domain
PROSITE profile	PS51005	56.308	22	172	IPR003441	NAC domain
Pfam	PF02365	2.1E-28	24	149	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: 392 aa Download sequence Send to blast
MEQEGSKGAV TVAAPAAAPT SLAPGFRFHP TDEELVRYYL RRKVCGKPFR FQAVTEIDVY 60 KSEPCDLAEY SSVKSRDMEW YFFSPVDKKY CNGSRLNRAT GQGYWKATGK DRHISHKSQA 120 IGMKKTLVFH SGRAPDGKRT NWVMHEYRLA DKELEKAGIV QDSFVLCRIF QKSGLGPPTG 180 DRYAPFIEEE WDDDSAVLPG GETEDDAVNG VDARVESNDL DQDAPPKIAC DSENVIELQS 240 LPFACKRERS EEPELLSLSQ TKKLKHDVPN SSRANGSEDS TITSQDPVNM MTTKDYPLAL 300 LGFPLLESFE PKDPQPSNTL TFDSSNLEKS VPPGYLKFIS NLETEILNVS MERETLKIEV 360 MRAQAMINVL QSRIDLLTKE NEDMRKLVRG G*

Sequence ? help Back to Top

Protein Sequence Length: 392 aa Download sequence Send to blast

MEQEGSKGAV TVAAPAAAPT SLAPGFRFHP TDEELVRYYL RRKVCGKPFR FQAVTEIDVY  60
KSEPCDLAEY SSVKSRDMEW YFFSPVDKKY CNGSRLNRAT GQGYWKATGK DRHISHKSQA  120
IGMKKTLVFH SGRAPDGKRT NWVMHEYRLA DKELEKAGIV QDSFVLCRIF QKSGLGPPTG  180
DRYAPFIEEE WDDDSAVLPG GETEDDAVNG VDARVESNDL DQDAPPKIAC DSENVIELQS  240
LPFACKRERS EEPELLSLSQ TKKLKHDVPN SSRANGSEDS TITSQDPVNM MTTKDYPLAL  300
LGFPLLESFE PKDPQPSNTL TFDSSNLEKS VPPGYLKFIS NLETEILNVS MERETLKIEV  360
MRAQAMINVL QSRIDLLTKE NEDMRKLVRG G*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
1ut4_A	3e-50	21	172	16	165	NO APICAL MERISTEM PROTEIN
1ut4_B	3e-50	21	172	16	165	NO APICAL MERISTEM PROTEIN
1ut7_A	3e-50	21	172	16	165	NO APICAL MERISTEM PROTEIN
1ut7_B	3e-50	21	172	16	165	NO APICAL MERISTEM PROTEIN
3swm_A	2e-50	21	172	19	168	NAC domain-containing protein 19
3swm_B	2e-50	21	172	19	168	NAC domain-containing protein 19
3swm_C	2e-50	21	172	19	168	NAC domain-containing protein 19
3swm_D	2e-50	21	172	19	168	NAC domain-containing protein 19
3swp_A	2e-50	21	172	19	168	NAC domain-containing protein 19
3swp_B	2e-50	21	172	19	168	NAC domain-containing protein 19
3swp_C	2e-50	21	172	19	168	NAC domain-containing protein 19
3swp_D	2e-50	21	172	19	168	NAC domain-containing protein 19
4dul_A	3e-50	21	172	16	165	NAC domain-containing protein 19
4dul_B	3e-50	21	172	16	165	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	PGSC0003DMP400040416

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	BT014626	0.0	BT014626.1 Lycopersicon esculentum clone 134129R, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006345842.1	0.0	PREDICTED: NAC domain-containing protein 78-like
Swissprot	Q9SQY0	1e-105	NAC52_ARATH; NAC domain containing protein 52
TrEMBL	M1C569	0.0	M1C569_SOLTU; Uncharacterized protein
STRING	PGSC0003DMT400060087	0.0	(Solanum tuberosum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA3140	24	48

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G10490.1	3e-94	NAC domain containing protein 52

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400040416
Entrez Gene	102601251

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] Xu X, et al. Genome sequence and analysis of the tuber crop potato. Nature, 2011. 475(7355): p. 189-95 [PMID:21743474] 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]