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

PGSC0003DMP400030575

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

LSD

Protein Properties

Length: 111aa MW: 11642.5 Da PI: 8.2802

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PGSC0003DMP400030575	genome	PGSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	42.9	8e-14	28	52	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr+lL YP GA+sV+Ca+C++V PGSC0003DMP400030575 28 CSGCRNLLLYPVGATSVCCAVCNAV 52 ************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	6.0E-13	25	55	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	9.0E-11	28	52	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009814	Biological Process	defense response, incompatible interaction
GO:0034051	Biological Process	negative regulation of plant-type hypersensitive response
GO:0034052	Biological Process	positive regulation of plant-type hypersensitive response
GO:0045595	Biological Process	regulation of cell differentiation
GO:2000121	Biological Process	regulation of removal of superoxide radicals

Sequence ? help Back to Top
Protein Sequence Length: 111 aa Download sequence Send to blast
MPVPLAPYPT PPTPFTPPAN GTQSQLVCSG CRNLLLYPVG ATSVCCAVCN AVTAVPPPAY 60 QIGSRILEYV VTSCTCIRLS IIFDVPARAR IENGHDSPSP RSTVQTGRPF *

Functional Description ? help Back to Top
Source	Description
UniProt	Positive regulator of reactive oxygen-induced cell death. May be involved in the repression of the copper/zinc superoxide dismutase CSD1 and CSD2 that detoxify accumulating superoxide before the reactive oxygen species (ROS) can trigger a cell death cascade. LSD1 and LOL1 have antagonistic effects on CSD1 and CSD2 accumulation to regulate oxidative stress-induced cell death. {ECO:0000269\|PubMed:12732715}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PGSC0003DMP400030575

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	HG975523	1e-80	HG975523.1 Solanum lycopersicum chromosome ch11, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024994470.1	4e-30	protein LOL1
Swissprot	Q93ZB1	5e-20	LOL1_ARATH; Protein LOL1
TrEMBL	M1BH54	7e-72	M1BH54_SOLTU; Uncharacterized protein
STRING	VIT_02s0012g00990.t01	2e-28	(Vitis vinifera)
STRING	cassava4.1_018557m	7e-29	(Manihot esculenta)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.3	2e-08	lsd one like 1

Link Out ? help Back to Top
Phytozome	PGSC0003DMP400030575

Publications ? help Back to Top
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]