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

PDK_30s996781g003

Organism

Phoenix dactylifera

Taxonomic ID

42345

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Arecales; Arecaceae; Coryphoideae; Phoeniceae; Phoenix

Family

LSD

Protein Properties

Length: 143aa MW: 14863.3 Da PI: 7.7401

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PDK_30s996781g003	genome	PDK	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	42.7	9.2e-14	27	51	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr+lL YP+GA+s++Ca+C++V PDK_30s996781g003 27 CSGCRNLLLYPLGATSICCAICNAV 51 ************************9 PP
2	zf-LSD1	46.6	5.7e-15	66	90	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+t+ PDK_30s996781g003 66 CGGCHTLLMYIRGATSVQCSCCHTI 90 ***********************97 PP
3	zf-LSD1	40.1	5.9e-13	104	128	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+C+ lL+Y +GA sV+Ca+C++V PDK_30s996781g003 104 CGNCQMLLMYQYGAGSVKCAVCNFV 128 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.3E-12	24	52	IPR005735	Zinc finger, LSD1-type
SuperFamily	SSF48695	9.07E-5	27	125	IPR011031	Multihaem cytochrome
Pfam	PF06943	4.6E-11	27	51	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	4.5E-14	64	92	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	9.5E-13	66	90	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	6.1E-10	101	131	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	6.9E-12	104	128	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: 143 aa Download sequence Send to blast
MPVPLAPYPN SSVPFTPPNG GQNQLVCSGC RNLLLYPLGA TSICCAICNA VTAAPPPGTE 60 MARLVCGGCH TLLMYIRGAT SVQCSCCHTI NLALEANQVA HVNCGNCQML LMYQYGAGSV 120 KCAVCNFVTS VGASPSTEHK PNN

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}.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_008799374.1	5e-99	protein LSD1 isoform X1
Refseq	XP_008799375.1	5e-99	protein LSD1 isoform X1
Refseq	XP_008799376.1	5e-99	protein LSD1 isoform X1
Refseq	XP_026663066.1	5e-99	protein LSD1 isoform X1
Swissprot	Q0J7V9	1e-77	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A2H3YIT7	1e-97	A0A2H3YIT7_PHODC; protein LSD1 isoform X1
STRING	ERN09291	5e-86	(Amborella trichopoda)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1347	38	124

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	7e-77	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]