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_00053073-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: 258aa MW: 27606.8 Da PI: 8.4318

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00053073-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	31.6	2.8e-10	74	98	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCrtlL YP GAp+V+ a C+t+ PSME_00053073-RA 74 CSGCRTLLVYPQGAPNVCGAACNTI 98 ***********************97 PP
2	zf-LSD1	26.6	1e-08	112	136	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg C+tlL+Y+ G +sV+C++C tV PSME_00053073-RA 112 CGRCHTLLMYTCGETSVQCSCCSTV 136 ***********************99 PP
3	zf-LSD1	46.8	4.9e-15	150	174	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+C t+L+YP+GApsV+CalC++V PSME_00053073-RA 150 CGNCFTTLMYPYGAPSVKCALCHFV 174 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	6.8E-11	71	101	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.7E-9	74	98	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	9.3E-9	109	138	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.5E-7	112	136	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	4.2E-11	147	177	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	6.7E-14	150	174	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 258 aa Download sequence Send to blast
MLSRGYSNRY DTTPINNGSA NGPIGSTPVR INSIQNNNIG AVRPGWGTMP LHMNPYPPQP 60 MPLPPPNVQG QLVCSGCRTL LVYPQGAPNV CGAACNTITA VPPGAEMAQL ICGRCHTLLM 120 YTCGETSVQC SCCSTVNLAI EANQVAHVNC GNCFTTLMYP YGAPSVKCAL CHFVTNVGQI 180 SNMRMPLPAQ RPPAVATMAP ASSSARPTQS QTQTVVVENP MTVDERGKMV SNVGTTGKYW 240 FLNLSQRLKQ IDSFKEIN

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT071760	0.0	BT071760.1 Picea sitchensis clone WS0452_N14 unknown mRNA.
GenBank	EF084706	0.0	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-73	PREDICTED: protein LSD1
Swissprot	Q6ASS2	1e-57	LOL3_ORYSJ; Protein LOL3
TrEMBL	A9NTQ6	1e-119	A9NTQ6_PICSI; Uncharacterized protein
STRING	XP_008225697.1	1e-72	(Prunus mume)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	3e-54	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]