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

Manes.16G062400.1.p

Organism

Manihot esculenta

Taxonomic ID

3983

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Crotonoideae; Manihoteae; Manihot

Family

LSD

Protein Properties

Length: 175aa MW: 18380.3 Da PI: 8.4398

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Manes.16G062400.1.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	44.1	3.3e-14	7	31	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr++L YPrGA++V+CalC+t+ Manes.16G062400.1.p 7 CSGCRNILLYPRGATNVCCALCNTI 31 ***********************97 PP
2	zf-LSD1	40.5	4.4e-13	47	70	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 C gCrtlL+Y rGA+sVRC++C+t Manes.16G062400.1.p 47 CLGCRTLLMYSRGATSVRCSCCHT 70 99*********************9 PP
3	zf-LSD1	49.2	8.4e-16	85	109	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Crt+L+YP+GApsV+Ca+C+ V Manes.16G062400.1.p 85 CGNCRTTLMYPYGAPSVKCAICQYV 109 ***********************87 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.9E-13	4	32	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.1E-12	7	31	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.2E-14	44	72	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.5E-10	47	70	IPR005735	Zinc finger, LSD1-type
Gene3D	G3DSA:3.30.40.10	2.0E-4	61	114	IPR013083	Zinc finger, RING/FYVE/PHD-type
TIGRFAMs	TIGR01053	2.0E-13	82	112	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.5E-14	85	109	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 175 aa Download sequence Send to blast
MQSQLQCSGC RNILLYPRGA TNVCCALCNT ITFAPPPLGV EMAHLVCLGC RTLLMYSRGA 60 TSVRCSCCHT TNPAPASSQV AHINCGNCRT TLMYPYGAPS VKCAICQYVT NVSMGNVRVP 120 LPANRPNGAA AMIPSTSTSP HSQTQTVVVE NPMSVDESGK LVSNVVVGVT TERK*

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	Manes.16G062400.1.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_021597095.1	1e-123	protein LSD1 isoform X1
Swissprot	P94077	2e-77	LSD1_ARATH; Protein LSD1
TrEMBL	A0A2C9U9B8	1e-122	A0A2C9U9B8_MANES; Uncharacterized protein
STRING	cassava4.1_017533m	1e-123	(Manihot esculenta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4027	33	61

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	9e-79	LSD family protein

Link Out ? help Back to Top
Phytozome	Manes.16G062400.1.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]