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

OBART03G27110.2

Organism

Oryza barthii

Taxonomic ID

65489

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: 232aa MW: 25024.6 Da PI: 9.2933

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OBART03G27110.2	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	41.9	1.6e-13	89	113	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr +L+YP GApsV+CalC+++ OBART03G27110.2 89 CHGCRSVLRYPSGAPSVCCALCQAI 113 ***********************97 PP
2	zf-LSD1	39.2	1.1e-12	130	154	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+r+A VRC++C tV OBART03G27110.2 130 CGGCRTLLMYTRNADTVRCSCCSTV 154 ***********************99 PP
3	zf-LSD1	48.5	1.4e-15	168	191	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt+L+YP+GApsV+Ca+C+ OBART03G27110.2 168 CGQCRTTLMYPYGAPSVKCAICHY 191 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.7E-12	86	116	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.2E-10	89	113	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.6E-14	127	157	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.4E-10	130	154	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	7.3E-12	165	193	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.7E-14	168	192	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 232 aa Download sequence Send to blast
MTSRAEPRLV VLLPNPTLLA IPPPRRRRRR EEPPPCCWCS VDRRAVGALP FPGATTTTTH 60 CRRGVGGLRC GGLVSFLLLL LLRRSQIVCH GCRSVLRYPS GAPSVCCALC QAITTVPPPA 120 PVMEMAHLIC GGCRTLLMYT RNADTVRCSC CSTVNLVRPV NNIAHVSCGQ CRTTLMYPYG 180 APSVKCAICH YITNTGPTSR PQNVTVVVEN PMTVDEKGKL VSNVVVGVTT GK

Nucleic Localization Signal ? help Back to Top

No.	Start	End	Sequence
1	24	29	RRRRRR

Functional Description ? help Back to Top
Source	Description
UniProt	Putative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.

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	CT830679	0.0	CT830679.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCRA116O15, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006650331.1	7e-95	PREDICTED: protein LOL3
Refseq	XP_015690721.1	7e-95	PREDICTED: protein LOL3
Swissprot	Q6ASS2	2e-95	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A0D3FLM1	1e-163	A0A0D3FLM1_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0NYP4	1e-163	A0A0E0NYP4_ORYRU; Uncharacterized protein
STRING	ORUFI03G28180.1	1e-138	(Oryza rufipogon)
STRING	OBART03G27110.1	1e-138	(Oryza barthii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	7e-58	LSD family protein

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]