PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Rosales; Cannabaceae; Humulus

Family

LSD

Protein Properties

Length: 163aa MW: 17061.8 Da PI: 8.4364

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
HL.SW.v1.0.G000543.1	genome	HOPBASE	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	36.6	7.3e-12	7	31	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr++L YPrG+ +V+Ca+C t+ HL.SW.v1.0.G000543.1 7 CSGCRNVLLYPRGSANVCCAICSTI 31 **********************997 PP
2	zf-LSD1	49.8	5.4e-16	46	70	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+rGA+sVRC++C+tV HL.SW.v1.0.G000543.1 46 CGGCRTLLMYTRGATSVRCSCCHTV 70 ************************9 PP
3	zf-LSD1	29	1.8e-09	84	99	1	16
zf-LSD1 1 CggCrtlLsYPrGAps 16 Cg+Crt+L+YP+GAps HL.SW.v1.0.G000543.1 84 CGNCRTTLMYPFGAPS 99 ***************8 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	6.6E-12	4	34	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	9.0E-10	7	31	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.6E-17	43	72	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.3E-13	46	70	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	4.2E-6	81	99	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.9E-7	84	100	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0000303	Biological Process	response to superoxide
GO:0001666	Biological Process	response to hypoxia
GO:0002240	Biological Process	response to molecule of oomycetes origin
GO:0009626	Biological Process	plant-type hypersensitive response
GO:0009862	Biological Process	systemic acquired resistance, salicylic acid mediated signaling pathway
GO:0010104	Biological Process	regulation of ethylene-activated signaling pathway
GO:0010310	Biological Process	regulation of hydrogen peroxide metabolic process
GO:0010602	Biological Process	regulation of 1-aminocyclopropane-1-carboxylate metabolic process
GO:0010618	Biological Process	aerenchyma formation
GO:0043069	Biological Process	negative regulation of programmed cell death

Sequence ? help Back to Top
Protein Sequence Length: 163 aa Download sequence Send to blast
MQSQLVCSGC RNVLLYPRGS ANVCCAICST ITSVPPPGME MAQLICGGCR TLLMYTRGAT 60 SVRCSCCHTV NLAPGSNQMA HVNCGNCRTT LMYPFGAPSM GNMRVPIPVH RPNGINSGTM 120 PSTSSPLPHS QSQTVVVENP MSVDESGKLV SNVVVGVTTE KK*

Functional Description ? help Back to Top
Source	Description
UniProt	Putative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024022803.1	1e-100	protein LSD1
Refseq	XP_024022804.1	1e-100	protein LSD1
Refseq	XP_024022805.1	1e-100	protein LSD1
Swissprot	Q2QMB3	4e-64	LOL2_ORYSJ; Protein LOL2
TrEMBL	A0A2P5FZT0	1e-100	A0A2P5FZT0_TREOI; Zinc finger, LSD1-type
STRING	XP_008225697.1	3e-92	(Prunus mume)

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
AT4G20380.7	7e-63	LSD family protein

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] Wu J, et al. OsLOL1, a C2C2-type zinc finger protein, interacts with OsbZIP58 to promote seed germination through the modulation of gibberellin biosynthesis in Oryza sativa. Plant J., 2014. 80(6): p. 1118-30 [PMID:25353370]