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

Oropetium_20150105_23290A

Organism

Oropetium thomaeum

Taxonomic ID

1148796

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Cynodonteae; Tripogoninae; Oropetium

Family

LSD

Protein Properties

Length: 136aa MW: 14810 Da PI: 9.2504

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Oropetium_20150105_23290A	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	28.9	1.9e-09	34	57	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 C+gC t+L Y rGA+++RC++C t Oropetium_20150105_23290A 34 CNGCPTILVYNRGASNIRCPNCRT 57 **********************98 PP
2	zf-LSD1	23.2	1.1e-07	73	97	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg C t+L Y +GA+ V Ca C +V Oropetium_20150105_23290A 73 CGRCTTTLKYQLGASTVECARCRHV 97 ************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.8E-9	32	59	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.3E-9	34	57	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	7.3E-6	70	99	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.1E-7	73	97	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 136 aa Download sequence Send to blast
MSKQVPITGM PEQLYCNTFT SVNPSAREMS ELVCNGCPTI LVYNRGASNI RCPNCRTLNS 60 TRSGANQFGQ LQCGRCTTTL KYQLGASTVE CARCRHVNPV RDARPQTVLV ENPKTLDDKG 120 KLVSNVAVGV TSWKR*

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Oropetium_20150105_23290A

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_021320000.1	2e-58	protein LOL4 isoform X3
Refseq	XP_021320001.1	2e-58	protein LOL4 isoform X3
Swissprot	Q84UR0	3e-59	LOL4_ORYSJ; Protein LOL4
TrEMBL	A0A0E0LQX3	5e-57	A0A0E0LQX3_ORYPU; Uncharacterized protein
STRING	OPUNC08G01880.1	9e-58	(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
AT4G20380.7	4e-26	LSD family protein

Link Out ? help Back to Top
Phytozome	Oropetium_20150105_23290A

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]