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

Gh_D05G1056

Organism

Gossypium hirsutum

Taxonomic ID

3635

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

LSD

Protein Properties

Length: 184aa MW: 19695 Da PI: 8.3457

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Gh_D05G1056	genome	NAU-NBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	39.9	6.9e-13	24	48	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+ Cr++L YPrGA++V+CalC+t+ Gh_D05G1056 24 CSRCRNILLYPRGATNVCCALCNTI 48 9**********************97 PP
2	zf-LSD1	42.7	9.2e-14	63	87	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+ GA+sVRC++C+ + Gh_D05G1056 63 CGGCRTLLMYTCGATSVRCSCCNII 87 **********************976 PP
3	zf-LSD1	47	4.1e-15	101	125	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Crt+L+YP+GApsV+Ca+C+ V Gh_D05G1056 101 CGHCRTTLMYPYGAPSVKCAVCHYV 125 **********************987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	3.8E-12	22	51	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.2E-11	24	48	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.9E-14	60	90	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.5E-11	63	86	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.0E-12	98	128	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.4E-14	101	125	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 184 aa Download sequence Send to blast
MRFMKSSFTS FFTMIADMQS EVVCSRCRNI LLYPRGATNV CCALCNTITQ VPPPGMEMAQ 60 LVCGGCRTLL MYTCGATSVR CSCCNIINHV TASNPMAHIN CGHCRTTLMY PYGAPSVKCA 120 VCHYVTNVGT GNVRCPLPAS RPNATGTMPS TSTSQTVVVE NPMSVDESGK LVSNVVVGIT 180 TDKK

Expression -- UniGene ? help Back to Top
UniGene ID	E-value	Expressed in
Ghi.23601	0.0	boll

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}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012446873.1	1e-118	PREDICTED: protein LSD1-like isoform X1
Refseq	XP_012446874.1	1e-118	PREDICTED: protein LSD1-like isoform X1
Refseq	XP_016688784.1	1e-118	PREDICTED: protein LSD1-like isoform X1
Refseq	XP_016688785.1	1e-118	PREDICTED: protein LSD1-like isoform X1
Swissprot	P94077	2e-69	LSD1_ARATH; Protein LSD1
TrEMBL	A0A2P5VX73	1e-131	A0A2P5VX73_GOSBA; Uncharacterized protein
STRING	Gorai.009G116000.1	1e-132	(Gossypium raimondii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM5345	26	50

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	2e-71	LSD family protein

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]