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

Itr_sc001439.1_g00003.1

Organism

Ipomoea trifida

Taxonomic ID

35884

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Convolvulaceae; Ipomoeeae; Ipomoea

Family

LSD

Protein Properties

Length: 148aa MW: 15409.2 Da PI: 8.0709

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Itr_sc001439.1_g00003.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	42.6	9.7e-14	31	55	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr+lL+YP GA+sV+Ca+C +V Itr_sc001439.1_g00003.1 31 CSGCRNLLMYPVGATSVCCAVCSAV 55 **********************998 PP
2	zf-LSD1	46.5	6e-15	70	94	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+t+ Itr_sc001439.1_g00003.1 70 CGGCHTLLMYIRGATSVQCSCCHTI 94 ***********************97 PP
3	zf-LSD1	39.8	7.4e-13	108	131	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Cr lL+Y +GA+sV+Ca+C++ Itr_sc001439.1_g00003.1 108 CGNCRMLLMYQYGARSVKCAVCNF 131 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.90.10.10	5.9E-4	23	129	No hit	No description
TIGRFAMs	TIGR01053	3.8E-13	28	58	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	9.2E-11	31	55	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.5E-14	67	96	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.0E-12	70	94	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	9.6E-12	105	134	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.0E-12	108	130	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: 148 aa Download sequence Send to blast
MPVPLAPYPT APAPSPLLSP ATNGAQSQLV CSGCRNLLMY PVGATSVCCA VCSAVTAVPP 60 PGTEMAQLIC GGCHTLLMYI RGATSVQCSC CHTINLALEA NQVAHVNCGN CRMLLMYQYG 120 ARSVKCAVCN FLTAVGVSPN MNEQKLKS

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_019190914.1	1e-100	PREDICTED: protein LSD1-like
Swissprot	Q0J7V9	1e-77	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A2C9UHS8	2e-85	A0A2C9UHS8_MANES; Uncharacterized protein
STRING	cassava4.1_018557m	3e-86	(Manihot esculenta)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA1679	24	67

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.3	8e-61	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]