PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Previous version: v3.0 v4.0

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Basic Information? help Back to Top

TF ID

Glyma.15G192000.1.p

Common Name

GLYMA_15G192000

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: 203aa MW: 21883.5 Da PI: 8.5471

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Glyma.15G192000.1.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	43.5	5.1e-14	33	57	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr++L YPrGA++V+CalC+tV Glyma.15G192000.1.p 33 CNGCRNILVYPRGATNVCCALCNTV 57 ************************9 PP
2	zf-LSD1	45.6	1.2e-14	72	96	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC tlL+Y+rGA+sVRC++C+t+ Glyma.15G192000.1.p 72 CGGCTTLLMYTRGATSVRCSCCHTI 96 ***********************97 PP
3	zf-LSD1	41.8	1.8e-13	110	132	1	23
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCd 23 C +Crt+L+YP+GA+sV+Ca+C Glyma.15G192000.1.p 110 CTNCRTTLMYPYGASSVKCAICR 132 99********************7 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	4.1E-13	30	60	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.8E-11	33	57	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.6E-15	69	99	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.7E-12	72	96	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	4.7E-11	108	136	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.4E-13	110	134	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0016021	Cellular Component	integral component of membrane

Sequence ? help Back to Top
Protein Sequence Length: 203 aa Download sequence Send to blast
MFLSHFRQIS FNFIIIIIII SWGFWFMGSQ LVCNGCRNIL VYPRGATNVC CALCNTVTSV 60 PPPGMDMSQL YCGGCTTLLM YTRGATSVRC SCCHTINLVP VLESNQVIHC TNCRTTLMYP 120 YGASSVKCAI CRYITNVSMT NGRLPIPVQR PNGTANSGTV SSTSSSMPHS QSQTVVVENP 180 MSVDSSGKLV SNVVVGVTTE KK*

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Gma.20449	0.0	flower\| leaf

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.15G192000.1.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_003546559.1	1e-124	protein LSD1 isoform X2
Refseq	XP_028202517.1	1e-124	protein LSD1-like isoform X2
Swissprot	P94077	1e-70	LSD1_ARATH; Protein LSD1
TrEMBL	A0A0R0G337	1e-144	A0A0R0G337_SOYBN; Uncharacterized protein
STRING	GLYMA15G22140.1	1e-114	(Glycine max)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4027	33	61
Representative plant	OGRP1146	17	53

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	3e-70	LSD family protein

Link Out ? help Back to Top
Phytozome	Glyma.15G192000.1.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]