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

MLOC_2356.1

Organism

Hordeum vulgare

Taxonomic ID

4513

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Hordeinae; Hordeum

Family

LSD

Protein Properties

Length: 118aa MW: 12925.2 Da PI: 8.2057

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MLOC_2356.1	genome	IBSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	37.4	4.1e-12	7	31	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+ Cr +L+YP GApsV+Ca+C ++ MLOC_2356.1 7 CHRCRRVLAYPSGAPSVCCAMCRAI 31 **********************986 PP
2	zf-LSD1	40.6	4.1e-13	48	72	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+r+A VRC++C tV MLOC_2356.1 48 CGGCRTLLMYTRNADTVRCSCCSTV 72 ***********************99 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	2.6E-10	4	34	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.9E-10	7	31	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	8.1E-15	45	75	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.5E-11	48	72	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 118 aa Download sequence Send to blast
MQSQIVCHRC RRVLAYPSGA PSVCCAMCRA ITAVPPPAPA VEMAQLICGG CRTLLMYTRN 60 ADTVRCSCCS TVNLVRPGNA NSASYSGISS YELSIFMLLI HKHFNLSEEF GILLIYCW

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	MLOC_2356.1

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	EU545231	1e-132	EU545231.1 Hordeum vulgare subsp. vulgare clone ABC06454 LSD1-like protein gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_020196161.1	4e-49	protein LOL3-like isoform X1
Swissprot	Q6ASS2	1e-43	LOL3_ORYSJ; Protein LOL3
TrEMBL	M0VDF3	3e-81	M0VDF3_HORVV; Uncharacterized protein
STRING	MLOC_2356.1	5e-82	(Hordeum vulgare)

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
AT4G20380.7	3e-26	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]