PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Protein Features |

Function |

Regulation |

Orthologous Group |

Publication

Basic Information? help Back to Top

TF ID

OGLUM08G02000.1

Organism

Oryza glumaepatula

Taxonomic ID

40148

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: 106aa MW: 11619.4 Da PI: 9.2597

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
OGLUM08G02000.1	genome	OGE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	28.5	2.6e-09	6	28	1	23
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCd 23 C+gC tlL Y rGA+++RC++C+ OGLUM08G02000.1 6 CSGCPTLLFYNRGASNIRCPSCN 28 **********************8 PP
2	zf-LSD1	33.2	8.4e-11	44	68	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Crt+L+ P+GA+ V+Ca C V OGLUM08G02000.1 44 CGQCRTTLMHPPGASTVQCATCRYV 68 **********************876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.3E-10	4	31	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.1E-9	6	28	IPR005735	Zinc finger, LSD1-type
Gene3D	G3DSA:3.30.40.10	7.5E-4	20	73	IPR013083	Zinc finger, RING/FYVE/PHD-type
TIGRFAMs	TIGR01053	5.4E-11	41	71	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.7E-11	44	68	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 106 aa Download sequence Send to blast
MSELICSGCP TLLFYNRGAS NIRCPSCNRL NSTRSANQIA HLTCGQCRTT LMHPPGASTV 60 QCATCRYVNH VRDARPQTVL VENPKTLDDK GKLVSNVVVG VTSWKR

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	AK120454	1e-180	AK120454.1 Oryza sativa Japonica Group cDNA clone:J013104B05, full insert sequence.
GenBank	CT830765	1e-180	CT830765.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCFA016M05, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015648991.1	3e-73	protein LOL4
Swissprot	Q84UR0	3e-74	LOL4_ORYSJ; Protein LOL4
TrEMBL	A0A0E0AQG5	1e-72	A0A0E0AQG5_9ORYZ; Uncharacterized protein
TrEMBL	A0A0E0I6V3	1e-72	A0A0E0I6V3_ORYNI; Uncharacterized protein
TrEMBL	A0A0E0LQX3	5e-72	A0A0E0LQX3_ORYPU; Uncharacterized protein
STRING	OGLUM08G02000.1	2e-73	(Oryza glumipatula)
STRING	ONIVA08G01810.1	2e-73	(Oryza nivara)
STRING	OPUNC08G01880.1	8e-73	(Oryza punctata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP12333	29	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.6	9e-29	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]