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_00003339-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: 221aa MW: 23226.8 Da PI: 8.2375

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00003339-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	40.7	3.8e-13	75	99	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCrtlL YP GAp+V+Ca+C+tV PSME_00003339-RA 75 CSGCRTLLVYPQGAPNVCCAVCNTV 99 ************************9 PP
2	zf-LSD1	37.4	4.2e-12	113	137	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg CrtlL+Y rGA+sV+C++C tV PSME_00003339-RA 113 CGRCRTLLMYARGATSVQCSCCSTV 137 ***********************99 PP
3	zf-LSD1	47.1	4e-15	151	175	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+C t+L+YP+GApsV+CalC++V PSME_00003339-RA 151 CGNCFTTLMYPYGAPSVKCALCHFV 175 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	4.7E-13	72	102	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.4E-12	75	99	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.5E-13	110	139	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.4E-11	113	137	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.4E-11	148	178	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.4E-14	151	175	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009814	Biological Process	defense response, incompatible interaction
GO:0034051	Biological Process	negative regulation of plant-type hypersensitive response
GO:0034052	Biological Process	positive regulation of plant-type hypersensitive response
GO:0045595	Biological Process	regulation of cell differentiation
GO:2000121	Biological Process	regulation of removal of superoxide radicals

Sequence ? help Back to Top
Protein Sequence Length: 221 aa Download sequence Send to blast
MLSGGYSNRS DTTPVNNGSA NGPIGSAPAR INSIQNSNPG AVRPGWGTMP LHMNPYPPQP 60 MPLPPPNAVQ GQLVCSGCRT LLVYPQGAPN VCCAVCNTVT AVPPGAEMAQ LICGRCRTLL 120 MYARGATSVQ CSCCSTVNLA MEANQVAHVN CGNCFTTLMY PYGAPSVKCA LCHFVTNVGQ 180 ISNMRMPLPA QRPPAAATTA PASSSAVSFC FRFCFLYFED I

Functional Description ? help Back to Top
Source	Description
UniProt	Negative regulator of programmed cell death and hypersensitive response (HR). Positive regulator of callus differentiation. {ECO:0000269\|PubMed:15915636}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. Down-regulated by dark. {ECO:0000269\|PubMed:15915636}.

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	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_008804686.1	4e-63	protein LSD1-like
Refseq	XP_008804687.1	4e-63	protein LSD1-like
Refseq	XP_011658526.1	2e-62	PREDICTED: vacuolar protein sorting-associated protein 2 homolog 2
Swissprot	Q0J7V9	5e-57	LSD1_ORYSJ; Protein LSD1
TrEMBL	A9NTQ6	1e-110	A9NTQ6_PICSI; Uncharacterized protein
STRING	XP_008804686.1	2e-62	(Phoenix dactylifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	3e-45	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]