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

cra_locus_2287_iso_5

Organism

Catharanthus roseus

Taxonomic ID

4058

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Gentianales; Apocynaceae; Rauvolfioideae; Vinceae; Catharanthinae; Catharanthus

Family

NAC

Protein Properties

Length: 396aa MW: 44341.7 Da PI: 5.1545

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
cra_locus_2287_iso_5	genome	MPGR	-

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	168	3.2e-52	28	155	1	128
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLp..kkvkaeekewyfFskrdkkyatgk 72 l+pGfrFhPtdeelv +yL++k+ gk++++ ++++e+d+yk+ePw+L +++k+++ ewyfFs+ d+ky +g+ cra_locus_2287_iso_5_len_1933_ver_3 28 LAPGFRFHPTDEELVRYYLRRKACGKPFRF-QAVSEIDVYKSEPWELAcfSSLKTRDLEWYFFSPVDRKYGNGS 100 579***********************99.88**********85347777888************ PP NAM 73 rknratksgyWkatgkdkevlskkgelvglkktLvfykgrapkgektdWvmheyrl 128 r nrat +gyWkatgkd++v + k++++g+kktLvf++grap+g++t+Wvmheyrl cra_locus_2287_iso_5_len_1933_ver_3 101 RLNRATGKGYWKATGKDRPVRH-KNQTIGMKKTLVFHSGRAPDGKRTNWVMHEYRL 155 ******************.9999*************************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	4.18E-62	24	178	IPR003441	NAC domain
PROSITE profile	PS51005	57.73	28	178	IPR003441	NAC domain
Pfam	PF02365	2.6E-28	30	155	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: 396 aa Download sequence Send to blast
MGQELVAVTP ATPVGGGISG SAPPATSLAP GFRFHPTDEE LVRYYLRRKA CGKPFRFQAV 60 SEIDVYKSEP WELACFSSLK TRDLEWYFFS PVDRKYGNGS RLNRATGKGY WKATGKDRPV 120 RHKNQTIGMK KTLVFHSGRA PDGKRTNWVM HEYRLVDEEL EKAGVPQDTF VLCRIFQKSG 180 LGPPNGDRYA PFIEEEWDDD AALMVVPGGE AEDDMANGDE ARVGCNDLDQ DMNKATRRGE 240 NPVEGMIPFM CKRERSEEPE PLSLGQAKRS KHDDPNSSHA NGSEDSTTTS QDPTLMTTTN 300 FSSALLEFPL LESVEPKESQ PSNPQTFDSS NLEKSVPPGY LKFISNLENE ILNVSMERET 360 LKIEVMRAQA MINILQSRID LLNKENEDLR RLGRGG

Sequence ? help Back to Top

Protein Sequence Length: 396 aa Download sequence Send to blast

MGQELVAVTP ATPVGGGISG SAPPATSLAP GFRFHPTDEE LVRYYLRRKA CGKPFRFQAV  60
SEIDVYKSEP WELACFSSLK TRDLEWYFFS PVDRKYGNGS RLNRATGKGY WKATGKDRPV  120
RHKNQTIGMK KTLVFHSGRA PDGKRTNWVM HEYRLVDEEL EKAGVPQDTF VLCRIFQKSG  180
LGPPNGDRYA PFIEEEWDDD AALMVVPGGE AEDDMANGDE ARVGCNDLDQ DMNKATRRGE  240
NPVEGMIPFM CKRERSEEPE PLSLGQAKRS KHDDPNSSHA NGSEDSTTTS QDPTLMTTTN  300
FSSALLEFPL LESVEPKESQ PSNPQTFDSS NLEKSVPPGY LKFISNLENE ILNVSMERET  360
LKIEVMRAQA MINILQSRID LLNKENEDLR RLGRGG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3swm_A	2e-52	27	178	19	168	NAC domain-containing protein 19
3swm_B	2e-52	27	178	19	168	NAC domain-containing protein 19
3swm_C	2e-52	27	178	19	168	NAC domain-containing protein 19
3swm_D	2e-52	27	178	19	168	NAC domain-containing protein 19
3swp_A	2e-52	27	178	19	168	NAC domain-containing protein 19
3swp_B	2e-52	27	178	19	168	NAC domain-containing protein 19
3swp_C	2e-52	27	178	19	168	NAC domain-containing protein 19
3swp_D	2e-52	27	178	19	168	NAC domain-containing protein 19
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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

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_027104903.1	0.0	NAC domain containing protein 50-like
Swissprot	Q9SQY0	1e-115	NAC52_ARATH; NAC domain containing protein 52
TrEMBL	A0A068TWS9	0.0	A0A068TWS9_COFCA; Uncharacterized protein
STRING	XP_009619467.1	0.0	(Nicotiana tomentosiformis)

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]