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

Glyma.09G083500.2.p

Common Name

GLYMA_09G083500

Organism

Glycine max

Taxonomic ID

3847

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Glycine; Soja

Family

LSD

Protein Properties

Length: 137aa MW: 14522.7 Da PI: 8.4117

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.09G083500.2.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	46.4	6.4e-15	8	32	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC tlL+Y+rGA+sVRC++C+t+ Glyma.09G083500.2.p 8 CGGCTTLLMYTRGATSVRCSCCHTI 32 ***********************97 PP
2	zf-LSD1	38.5	1.9e-12	44	65	1	22
zf-LSD1 1 CggCrtlLsYPrGApsVRCalC 22 C +Crt+L+YP+GA+sV+Ca+C Glyma.09G083500.2.p 44 CANCRTTLMYPYGASSVKCAIC 65 9********************* PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	8.6E-16	5	35	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.0E-12	8	32	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.3E-10	42	69	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.1E-12	44	68	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 137 aa Download sequence Send to blast
MDMSQLYCGG CTTLLMYTRG ATSVRCSCCH TINLVPESNQ VIHCANCRTT LMYPYGASSV 60 KCAICCYITN ISMTNGRLSI PVQRPNGTAN SGTVSSTSSS MPYSQSQTVV VENPMSVDSS 120 GKLVRNVVVG VTTDKK*

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in cotyledons, roots, rosette leaves, stems, inflorescences and flowers. {ECO:0000269\|PubMed:20456049}.

Functional Description ? help Back to Top
Source	Description
UniProt	Negative regulator of reactive oxygen-induced cell death, cold stress-induced cell death, pathogen-induced hypersensitive response (HR), basal disease resistance. May be involved in the induction 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. Antagonizes the function of BZIP10, a positive regulator of cell death, by interacting in the cytoplasm and preventing its nuclear localization. Controls lysigenous aerenchyma in hypocotyls under root hypoxia. Required for leaf acclimation in response to excess excitation energy. {ECO:0000269\|PubMed:10550898, ECO:0000269\|PubMed:11595797, ECO:0000269\|PubMed:11844114, ECO:0000269\|PubMed:12732715, ECO:0000269\|PubMed:15347794, ECO:0000269\|PubMed:16957775, ECO:0000269\|PubMed:18055613, ECO:0000269\|PubMed:18790826, ECO:0000269\|PubMed:20456049, ECO:0000269\|PubMed:21097903}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Glyma.09G083500.2.p

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By methyl viologen. {ECO:0000269\|PubMed:20456049}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003533828.1	4e-86	protein LSD1 isoform X1
Refseq	XP_028180956.1	4e-86	protein LSD1-like
Swissprot	P94077	2e-53	LSD1_ARATH; Protein LSD1
TrEMBL	A0A0R0ICV2	5e-93	A0A0R0ICV2_SOYBN; Uncharacterized protein
STRING	GLYMA09G10010.1	2e-85	(Glycine max)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	4e-53	LSD family protein

Link Out ? help Back to Top
Phytozome	Glyma.09G083500.2.p

Publications ? help Back to Top
Spedaletti V, et al. Characterization of a lysine-specific histone demethylase from Arabidopsis thaliana. Biochemistry, 2008. 47(17): p. 4936-47 [PMID:18393445] Szechyńska-Hebda M,Czarnocka W,Hebda M,Bernacki MJ,Karpiński S PAD4, LSD1 and EDS1 regulate drought tolerance, plant biomass production, and cell wall properties. Plant Cell Rep., 2016. 35(3): p. 527-39 [PMID:26754794] Czarnocka W, et al. The dual role of LESION SIMULATING DISEASE 1 as a condition-dependent scaffold protein and transcription regulator. Plant Cell Environ., 2017. 40(11): p. 2644-2662 [PMID:28555890] Bernacki MJ, et al. LSD1-, EDS1- and PAD4-dependent conditional correlation among salicylic acid, hydrogen peroxide, water use efficiency and seed yield in Arabidopsis thaliana. Physiol Plant, 2019. 165(2): p. 369-382 [PMID:30461017]