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

Lj6g3v1105040.1

Organism

Lotus japonicus

Taxonomic ID

34305

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Loteae; Lotus

Family

LSD

Protein Properties

Length: 112aa MW: 12107.2 Da PI: 8.2826

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Lj6g3v1105040.1	genome	Kazusa	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	39.1	1.2e-12	7	31	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr++L YPrGA +V+Ca C+ + Lj6g3v1105040.1 7 CNGCRNILVYPRGAGNVCCAWCNVI 31 **********************986 PP
2	zf-LSD1	45.9	9.3e-15	46	70	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y GA+sVRC++C+t+ Lj6g3v1105040.1 46 CGGCRTLLMYANGATSVRCSCCNTI 70 ***********************97 PP
3	zf-LSD1	39.8	7.2e-13	84	107	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt L+YP GA sV+Ca+C+ Lj6g3v1105040.1 84 CGNCRTALMYPHGALSVKCAICHY 107 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.8E-11	4	32	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.0E-10	7	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	5.4E-15	43	73	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	6.6E-13	46	70	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	9.3E-13	81	110	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.8E-12	84	108	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 112 aa Download sequence Send to blast
MRCQLVCNGC RNILVYPRGA GNVCCAWCNV ITPVPPAGME MSQLYCGGCR TLLMYANGAT 60 SVRCSCCNTI TRVPESNQVS HIHCGNCRTA LMYPHGALSV KCAICHYITN VS

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}.
UniProt	Positive regulator of reactive oxygen-induced cell death. May be involved in the repression of the copper/zinc superoxide dismutase CSD1 and CSD2 that detoxify accumulating superoxide before the reactive oxygen species (ROS) can trigger a cell death cascade. LSD1 and LOL1 have antagonistic effects on CSD1 and CSD2 accumulation to regulate oxidative stress-induced cell death. {ECO:0000269\|PubMed:12732715}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Lj6g3v1105040.1

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	BT138586	0.0	BT138586.1 Lotus japonicus clone JCVI-FLLj-5N10 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004488206.1	4e-62	protein LSD1-like
Refseq	XP_027189085.1	4e-62	protein LSD1-like
Swissprot	Q0J7V9	6e-45	LSD1_ORYSJ; Protein LSD1
Swissprot	Q93ZB1	3e-45	LOL1_ARATH; Protein LOL1
TrEMBL	I3SDN9	2e-75	I3SDN9_LOTJA; Uncharacterized protein
STRING	XP_004488206.1	1e-61	(Cicer arietinum)

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	6e-48	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] Ding Y, et al. Four distinct types of dehydration stress memory genes in Arabidopsis thaliana. BMC Plant Biol., 2013. 13: p. 229 [PMID:24377444]