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

PSME_00038757-RA

Organism

Pseudotsuga menziesii

Taxonomic ID

3357

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Acrogymnospermae; Pinidae; Pinales; Pinaceae; Pseudotsuga

Family

LSD

Protein Properties

Length: 207aa MW: 22690.6 Da PI: 8.6659

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00038757-RA	genome	PRS	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	32.5	1.4e-10	6	30	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg CrtlL+Y rGA+sV+C++C tV PSME_00038757-RA 6 CGCCRTLLMYSRGATSVQCSCCSTV 30 9**********************99 PP
2	zf-LSD1	35.6	1.6e-11	44	68	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+C t+L+Y +GAps+ CalC++V PSME_00038757-RA 44 CGNCFTTLMYSYGAPSINCALCHFV 68 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	5.5E-13	3	32	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.5E-10	6	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.1E-8	41	69	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.6E-11	44	68	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 207 aa Download sequence Send to blast
MVQLICGCCR TLLMYSRGAT SVQCSCCSTV NLAIEANQVA HVNCGNCFTT LMYSYGAPSI 60 NCALCHFVTN FGQISNMRMP LPAQRPLVAA TTAPASSSAR PTQSQMQTVV VENPMTVDER 120 GKMLPSTTHE QKFFCKKTPC VTCNLPPNPH VVEWQQVTVI CSYVADVRVM VHSTSHHEHL 180 GKPIALPVAS PRKIPSPKFH SLLMRLK

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	BT071760	1e-125	BT071760.1 Picea sitchensis clone WS0452_N14 unknown mRNA.
GenBank	EF084706	1e-125	EF084706.1 Picea sitchensis clone WS02727_J11 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002988289.1	3e-50	protein LOL1
Swissprot	Q6ASS2	1e-39	LOL3_ORYSJ; Protein LOL3
TrEMBL	A9NTQ6	3e-58	A9NTQ6_PICSI; Uncharacterized protein
STRING	EFJ10708	1e-49	(Selaginella moellendorffii)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	3e-35	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]