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_08384A

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: 141aa MW: 14511.4 Da PI: 9.3495

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Oropetium_20150105_08384A	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	49.5	6.7e-16	47	70	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt+L+YP+GApsV+Ca+C+ Oropetium_20150105_08384A 47 CGHCRTTLMYPYGAPSVKCAICNY 70 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	8.1E-13	44	72	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	9.7E-15	47	71	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 141 aa Download sequence Send to blast
MPRVPDRPAL PARGAQRLLR GVPSHHHCPT ASDFHFGAVN NVAHVNCGHC RTTLMYPYGA 60 PSVKCAICNY ITATINAVTP TPSTTAPSNG SSYSASSTSA PKTQPQNVTV VVENPMTVDE 120 KGKLVSSVVV GVTAGSAGKN *

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_08384A

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_002464188.1	5e-48	protein LOL3
Swissprot	Q6ASS2	1e-40	LOL3_ORYSJ; Protein LOL3
TrEMBL	C5WR97	1e-46	C5WR97_SORBI; Uncharacterized protein
STRING	Sb01g013820.1	2e-47	(Sorghum bicolor)

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
AT4G20380.6	6e-17	LSD family protein

Link Out ? help Back to Top
Phytozome	Oropetium_20150105_08384A

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]