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

RrC2193_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

NAC

Protein Properties

Length: 284aa MW: 32713.6 Da PI: 6.5192

Description

NAC family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC2193_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	NAM	118	9.4e-37	10	102	1	94
NAM 1 lppGfrFhPtdeelvveyLkkkvegkkleleevikevdiykvePwdLpkkvkaeekewyfFskrdkkyatgkrknratksgyWkatgkdkevls 94 lppGfrFhPtdeel+ +yL+kkv++ +++l +vi++vdiyk++PwdLp k+ +ekewyfFs+rd+ky++g r+nra++sgyWkatg+dk + RrC2193_p1 10 LPPGFRFHPTDEELILHYLRKKVSSLPVPL-SVIADVDIYKSDPWDLPDKAPFGEKEWYFFSPRDRKYPNGARPNRAAASGYWKATGTDKLIAL 102 79**************************.99***********888899**********************************9976 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF101941	1.44E-44	7	113	IPR003441	NAC domain
PROSITE profile	PS51005	38.141	10	169	IPR003441	NAC domain
Pfam	PF02365	9.9E-17	11	98	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:0003677	Molecular Function	DNA binding

Sequence ? help Back to Top
Protein Sequence Length: 284 aa Download sequence Send to blast
MISKDPRSSL PPGFRFHPTD EELILHYLRK KVSSLPVPLS VIADVDIYKS DPWDLPDKAP 60 FGEKEWYFFS PRDRKYPNGA RPNRAAASGY WKATGTDKLI ALDDWVLCRI YKKSHTSLSS 120 PDVASATSNQ KHEENDKEPF LVSETLMPNL ENNQTLKRQK SSFSNLLDAT DLTFLTNFLN 180 ETPENHTQPE FSFMFENFSN PNFYGNPYLD QKLPRLSPPS SETSFIGNKR QRMDYAEETT 240 NTSKKMINNF SYNNSIDHLD HSMVQQSSFL NHELLMSPRL PYQG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
3swm_A	1e-47	9	117	19	172	NAC domain-containing protein 19
3swm_B	1e-47	9	117	19	172	NAC domain-containing protein 19
3swm_C	1e-47	9	117	19	172	NAC domain-containing protein 19
3swm_D	1e-47	9	117	19	172	NAC domain-containing protein 19
3swp_A	1e-47	9	117	19	172	NAC domain-containing protein 19
3swp_B	1e-47	9	117	19	172	NAC domain-containing protein 19
3swp_C	1e-47	9	117	19	172	NAC domain-containing protein 19
3swp_D	1e-47	9	117	19	172	NAC domain-containing protein 19
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Transcription factor that binds to the promoter of ACO5, an ACC oxidase involved in ethylene biosynthesis. Mediates waterlogging-induced hyponastic leaf movement, and cell expansion in abaxial cells of the basal petiole region, by directly regulating the expression of ACO5 (PubMed:24363315). Required for normal seed development and morphology (PubMed:18849494). {ECO:0000269\|PubMed:18849494, ECO:0000269\|PubMed:24363315}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By root flooding (PubMed:24363315). Induced by senescence (PubMed:24659488). {ECO:0000269\|PubMed:24363315, ECO:0000269\|PubMed:24659488}.

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	KF974760	1e-113	KF974760.1 Brassica napus NAC transcription factor 47-1 (NAC47-1.1) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	NP_001118568.1	1e-151	NAC domain containing protein 47
Swissprot	Q84TD6	1e-90	NAC47_ARATH; NAC transcription factor 47
TrEMBL	Q9SQQ5	1e-150	Q9SQQ5_ARATH; NAC domain containing protein 47
STRING	XP_006408226.1	1e-104	(Eutrema salsugineum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7723	25	40

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G04070.2	1e-154	NAC domain containing protein 47

Publications ? help Back to Top
Hofmann NR A NAC transcription factor for flooding: SHYG helps plants keep their leaves in the air. Plant Cell, 2013. 25(12): p. 4771 [PMID:24363314] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]