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

XP_013595886.1

Organism

Brassica oleracea

Taxonomic ID

3712

Taxonomic Lineage

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

Family

LSD

Protein Properties

Length: 170aa MW: 18252.3 Da PI: 8.6079

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013595886.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	36.1	1.1e-11	7	27	1	21
zf-LSD1 1 CggCrtlLsYPrGApsVRCal 21 C gCrt+L+YPrGA +V+Cal XP_013595886.1 7 CRGCRTTLMYPRGAINVCCAL 27 9*******************8 PP
2	zf-LSD1	37.9	2.8e-12	44	67	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 CggC t+L+Y+r A+sVRC++C+t XP_013595886.1 44 CGGCATMLMYTRSATSVRCSCCQT 67 ***********************8 PP
3	zf-LSD1	45	1.8e-14	83	107	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr++L+YP+GA+sV+Ca+C+ V XP_013595886.1 83 CGHCRIILMYPYGASSVKCAVCQYV 107 ***********************87 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	2.3E-10	4	32	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.0E-9	7	27	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	9.4E-14	42	71	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.6E-9	44	67	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.7E-12	81	110	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.4E-13	83	107	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 170 aa Download sequence Send to blast
MQEQLVCRGC RTTLMYPRGA INVCCALYRT INPPQGMDMA NIVCGGCATM LMYTRSATSV 60 RCSCCQTLNL VPAPSNQTAR INCGHCRIIL MYPYGASSVK CAVCQYVTNV HLRNGMAPFS 120 MNRPNVTASP PTTMPSASTT QTVVVENPMS LDESGKLVSN VVVGVTTAKN

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	XP_013595886.1

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_013595886.1	1e-121	PREDICTED: protein LSD1-like
Refseq	XP_013595887.1	1e-121	PREDICTED: protein LSD1-like
Swissprot	P94077	2e-71	LSD1_ARATH; Protein LSD1
TrEMBL	A0A0D3D903	1e-119	A0A0D3D903_BRAOL; Uncharacterized protein
STRING	Bo7g067690.1	1e-120	(Brassica oleracea)

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]