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_00023816-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: 166aa MW: 18031.9 Da PI: 8.1504

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00023816-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	40.3	5.2e-13	19	43	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+C+tlL+Y+rGA+sV+C++C V PSME_00023816-RA 19 CGHCHTLLMYTRGATSVQCSCCSIV 43 **********************877 PP
2	zf-LSD1	45.1	1.6e-14	57	81	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+C +L+YP+GApsV+CalC++V PSME_00023816-RA 57 CGNCFMTLMYPYGAPSVKCALCHFV 81 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	3.6E-11	16	45	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.2E-11	19	43	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.7E-10	54	84	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.3E-13	57	81	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 166 aa Download sequence Send to blast
MFAVQYAVPP GAEMAQLICG HCHTLLMYTR GATSVQCSCC SIVNLAIEAN QVAHVNCGNC 60 FMTLMYPYGA PSVKCALCHF VTNVGQISNM RMPLLAQRPP AAATTAPTSS SAHPTRSQTQ 120 TVVVENPMTV DERGKMVSNL GTVGKYWFLN LSQQLKQIDS FKEINQ

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-150	BT071760.1 Picea sitchensis clone WS0452_N14 unknown mRNA.
GenBank	EF084706	1e-150	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	7e-58	PREDICTED: protein LSD1
Swissprot	Q6ASS2	7e-46	LOL3_ORYSJ; Protein LOL3
TrEMBL	A9NTQ6	2e-68	A9NTQ6_PICSI; Uncharacterized protein
STRING	XP_008225697.1	3e-57	(Prunus mume)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.3	5e-42	lsd one like 1

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]