PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Protein Features |

Function |

Regulation |

Orthologous Group |

Publication

Basic Information? help Back to Top

TF ID

Cla008792

Organism

Citrullus lanatus

Taxonomic ID

3654

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Cucurbitales; Cucurbitaceae; Benincaseae; Citrullus

Family

LSD

Protein Properties

Length: 98aa MW: 10219 Da PI: 8.5768

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cla008792	genome	ICuGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	41.4	2.3e-13	7	31	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gC+ lL+YP+GA+s++CalC+ V Cla008792 7 CSGCKHLLMYPAGATSICCALCHVV 31 ***********************98 PP
2	zf-LSD1	40.3	5.2e-13	46	70	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gC+tlL+Y rGA+sV+C++C tV Cla008792 46 CSGCHTLLMYRRGATSVQCSCCRTV 70 ************************9 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	7.8E-12	4	31	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.5E-10	7	31	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	4.9E-13	43	71	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.8E-12	46	70	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 98 aa Download sequence Send to blast
SQSQIVCSGC KHLLMYPAGA TSICCALCHV VSPVPTSGLT MAQLVCSGCH TLLMYRRGAT 60 SVQCSCCRTV NAASKGIVLI SLHPNGLSWS YSSTPSKP

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_008448702.2	3e-39	PREDICTED: protein LSD1 isoform X2
Refseq	XP_008448703.1	4e-39	PREDICTED: protein LOL1 isoform X1
Refseq	XP_016900659.1	3e-39	PREDICTED: protein LSD1 isoform X2
Refseq	XP_016900660.1	3e-39	PREDICTED: protein LSD1 isoform X2
Swissprot	Q0J7V9	2e-32	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A1S3BJQ2	7e-38	A0A1S3BJQ2_CUCME; protein LSD1 isoform X2
TrEMBL	A0A1S3BKC0	1e-37	A0A1S3BKC0_CUCME; protein LOL1 isoform X1
STRING	XP_008448702.1	1e-38	(Cucumis melo)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF4027	33	61

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	2e-34	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]