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

ONIVA08G03570.3

Organism

Oryza nivara

Taxonomic ID

4536

Taxonomic Lineage

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: 184aa MW: 19033.1 Da PI: 7.8316

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ONIVA08G03570.3	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	43.6	4.7e-14	68	92	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr+lL+YP+GA+sV+Ca+C tV ONIVA08G03570.3 68 CSGCRNLLMYPAGATSVCCAVCSTV 92 ***********************99 PP
2	zf-LSD1	46.3	6.9e-15	107	131	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+tV ONIVA08G03570.3 107 CGGCHTLLMYIRGATSVQCSCCHTV 131 ************************9 PP
3	zf-LSD1	41.4	2.4e-13	145	169	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C++V ONIVA08G03570.3 145 CGNCRMLLMYQYGARSVKCAVCNFV 169 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.5E-13	65	95	IPR005735	Zinc finger, LSD1-type
SuperFamily	SSF48695	5.55E-5	68	166	IPR011031	Multihaem cytochrome
Pfam	PF06943	2.6E-11	68	92	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.3E-14	104	133	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.9E-12	107	131	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	5.8E-12	142	172	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.5E-12	145	169	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: 184 aa Download sequence Send to blast
MHLSAGFLSC RERKGDFSCL TAARICEAST SDAVVQAAGT AMPVPLAPYP TPPVPFTPPN 60 GAQSQLVCSG CRNLLMYPAG ATSVCCAVCS TVTAVPAPGT EMAQLVCGGC HTLLMYIRGA 120 TSVQCSCCHT VNLAMEANQV AHVNCGNCRM LLMYQYGARS VKCAVCNFVT SVGASPGIDQ 180 KPSS

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-125	protein LSD1 isoform X3
Refseq	XP_015648107.1	1e-125	protein LSD1 isoform X3
Swissprot	Q0J7V9	1e-132	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A0E0I7G4	1e-130	A0A0E0I7G4_ORYNI; Uncharacterized protein
STRING	ONIVA08G03570.1	1e-131	(Oryza nivara)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.3	2e-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]