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_00045159-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: 178aa MW: 18775.6 Da PI: 8.0733

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PSME_00045159-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	29.8	9.8e-10	74	98	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCrtlL Y GAp+V+C +C+tV PSME_00045159-RA 74 CSGCRTLLVYQQGAPNVCCVVCNTV 98 ************************9 PP
2	zf-LSD1	40	6.2e-13	150	174	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+C t+L+Y +G+psV+CalC++V PSME_00045159-RA 150 CGNCFTTLMYSYGSPSVKCALCHFV 174 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.7E-10	71	101	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.8E-9	74	98	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.7E-5	113	136	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	9.3E-7	113	138	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.9E-9	147	174	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.4E-12	150	174	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 178 aa Download sequence Send to blast
MLSGGYSNRS DTTPINNGSA NGPIGSTPAR INSIQNNNPS AVRPGWGTMP LHMNPYPPQP 60 MPLPPPNEKG QLVCSGCRTL LVYQQGAPNV CCVVCNTVTT VPPGAEMAQL IFGRCCALLM 120 YAHGATSFQC SCCSTVNLAM EANQVAHVNC GNCFTTLMYS YGSPSVKCAL CHFVKNVG

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	1e-166	BT071760.1 Picea sitchensis clone WS0452_N14 unknown mRNA.
GenBank	EF084706	1e-166	EF084706.1 Picea sitchensis clone WS02727_J11 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010269986.1	1e-51	PREDICTED: protein LSD1
Refseq	XP_010269987.1	1e-51	PREDICTED: protein LSD1
Refseq	XP_010269988.1	1e-51	PREDICTED: protein LSD1
Swissprot	Q0J7V9	5e-47	LSD1_ORYSJ; Protein LSD1
TrEMBL	A9NTQ6	3e-89	A9NTQ6_PICSI; Uncharacterized protein
STRING	XP_010269986.1	4e-51	(Nelumbo nucifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.3	5e-38	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]