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

Cotton_A_07898_BGI-A2_v1.0

Organism

Gossypium arboreum

Taxonomic ID

29729

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Malvoideae; Gossypium

Family

LSD

Protein Properties

Length: 164aa MW: 17118.2 Da PI: 7.8832

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cotton_A_07898_BGI-A2_v1.0	genome	BGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	42	1.5e-13	29	53	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr+lL YP GA+sV+Ca+C++V Cotton_A_07898_BGI-A2_v1.0 29 CSGCRNLLLYPVGATSVCCAVCNAV 53 ************************9 PP
2	zf-LSD1	46.5	5.8e-15	68	92	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+tV Cotton_A_07898_BGI-A2_v1.0 68 CGGCHTLLMYIRGATSVQCSCCHTV 92 ************************9 PP
3	zf-LSD1	41.6	2e-13	127	151	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C++V Cotton_A_07898_BGI-A2_v1.0 127 CGNCRMLLMYQYGARSVKCAVCNFV 151 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.2E-12	26	56	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.7E-10	29	53	IPR005735	Zinc finger, LSD1-type
SuperFamily	SSF48695	2.21E-6	29	148	IPR011031	Multihaem cytochrome
TIGRFAMs	TIGR01053	1.1E-14	65	94	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.6E-12	68	92	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	4.9E-12	124	154	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.2E-12	127	151	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: 164 aa Download sequence Send to blast
MPVPLAPYPT PPAPYTPPAA NGAQSQLVCS GCRNLLLYPV GATSVCCAVC NAVTAVPPPG 60 TEMAQLVCGG CHTLLMYIRG ATSVQCSCCH TVNLALEGLS IELLLFLVKA SNFPSLLTAN 120 QVAHVNCGNC RMLLMYQYGA RSVKCAVCNF VTSVGVSSQF VLTC

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	BT136945	5e-31	BT136945.1 Lotus japonicus clone JCVI-FLLj-13N7 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012075917.1	6e-83	protein LOL1
Refseq	XP_012075918.1	6e-83	protein LOL1
Refseq	XP_012075919.1	6e-83	protein LOL1
Swissprot	Q0J7V9	5e-71	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A2G5CN89	2e-84	A0A2G5CN89_AQUCA; Uncharacterized protein
STRING	Aquca_044_00148.1	3e-85	(Aquilegia coerulea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM7293	26	43

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