PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

LSD

Protein Properties

Length: 215aa MW: 22474.5 Da PI: 7.9433

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM08G03690.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	43.3	5.9e-14	99	123	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr+lL+YP+GA+sV+Ca+C tV OGLUM08G03690.1 99 CSGCRNLLMYPAGATSVCCAVCSTV 123 ***********************99 PP
2	zf-LSD1	46	8.6e-15	138	162	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+tV OGLUM08G03690.1 138 CGGCHTLLMYIRGATSVQCSCCHTV 162 ************************9 PP
3	zf-LSD1	41.1	3e-13	176	200	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C++V OGLUM08G03690.1 176 CGNCRMLLMYQYGARSVKCAVCNFV 200 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.9E-13	96	126	IPR005735	Zinc finger, LSD1-type
SuperFamily	SSF48695	8.27E-5	99	197	IPR011031	Multihaem cytochrome
Pfam	PF06943	3.2E-11	99	123	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.6E-14	135	164	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.4E-12	138	162	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	7.3E-12	173	203	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.8E-12	176	200	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009814	Biological Process	defense response, incompatible interaction
GO:0034051	Biological Process	negative regulation of plant-type hypersensitive response
GO:0034052	Biological Process	positive regulation of plant-type hypersensitive response
GO:0045595	Biological Process	regulation of cell differentiation
GO:2000121	Biological Process	regulation of removal of superoxide radicals

Sequence ? help Back to Top
Protein Sequence Length: 215 aa Download sequence Send to blast
MTSVKCTIPI PMLLMDYILS QAVVLVQKIL LLHLSAGFLS CRERKGDFSC LTAARICEAS 60 TSDAVIQAAG TAMPVPLAPY PTPPVPFTPP NGAQSQLVCS GCRNLLMYPA GATSVCCAVC 120 STVTAVPAPG TEMAQLVCGG CHTLLMYIRG ATSVQCSCCH TVNLAMEANQ VAHVNCGNCR 180 MLLMYQYGAR SVKCAVCNFV TSVGASPGTD QKPSS

Functional Description ? help Back to Top
Source	Description
UniProt	Negative regulator of programmed cell death and hypersensitive response (HR). Positive regulator of callus differentiation. {ECO:0000269\|PubMed:15915636}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. Down-regulated by dark. {ECO:0000269\|PubMed:15915636}.

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AK111759	0.0	AK111759.1 Oryza sativa Japonica Group cDNA clone:J023055E16, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015648106.1	1e-126	protein LSD1 isoform X3
Refseq	XP_015648107.1	1e-126	protein LSD1 isoform X3
Swissprot	Q0J7V9	1e-132	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A0E0AR35	1e-154	A0A0E0AR35_9ORYZ; Uncharacterized protein
STRING	OGLUM08G03690.1	1e-154	(Oryza glumipatula)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1347	38	124

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.3	1e-60	lsd one like 1

Publications ? help Back to Top
Kikuchi S, et al. Collection, mapping, and annotation of over 28,000 cDNA clones from japonica rice. Science, 2003. 301(5631): p. 376-9 [PMID:12869764]