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_00053072-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: 152aa MW: 16858.7 Da PI: 9.2291

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00053072-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	38.8	1.5e-12	6	30	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg Crt L+Y+rGA+sV+C++C tV PSME_00053072-RA 6 CGRCRTFLMYTRGATSVQCSCCSTV 30 ***********************99 PP
2	zf-LSD1	43.3	6.1e-14	44	68	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C +C t+L+YP+GAps++CalC++V PSME_00053072-RA 44 CRNCFTTLMYPYGAPSIKCALCHFV 68 99*********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	9.1E-14	3	32	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.9E-11	6	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.1E-10	41	71	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.5E-13	44	68	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 152 aa Download sequence Send to blast
MAQLICGRCR TFLMYTRGAT SVQCSCCSTV NLAIEANQVA HVNCRNCFTT LMYPYGAPSI 60 KCALCHFVTN VGQISNMRMI LPAQRPPAAA TMAPASSLAH PTRSQMQTMV VENPMTVDER 120 GKMVSNVGTA RKYWFLNLSQ RLKQIDSFKE IN

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-139	BT071760.1 Picea sitchensis clone WS0452_N14 unknown mRNA.
GenBank	EF084706	1e-139	EF084706.1 Picea sitchensis clone WS02727_J11 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008225697.1	3e-55	PREDICTED: protein LSD1
Swissprot	Q6ASS2	4e-44	LOL3_ORYSJ; Protein LOL3
TrEMBL	A9NTQ6	3e-63	A9NTQ6_PICSI; Uncharacterized protein
STRING	XP_008225697.1	1e-54	(Prunus mume)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.6	2e-36	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]