PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Cenchrinae; Setaria

Family

LSD

Protein Properties

Length: 180aa MW: 18835.1 Da PI: 8.5976

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sevir.3G402500.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	38.4	2e-12	7	31	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr lL YPrGApsV+Ca+C V Sevir.3G402500.1.p 7 CHGCRRLLLYPRGAPSVCCAVCRVV 31 **********************987 PP
2	zf-LSD1	38.2	2.3e-12	46	70	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y+ +A+ VRC++CdtV Sevir.3G402500.1.p 46 CGGCQTLLMYTCNATTVRCSCCDTV 70 ************************9 PP
3	zf-LSD1	47.9	2.1e-15	84	108	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg C+t+L+YP+GApsV+Ca+C+++ Sevir.3G402500.1.p 84 CGRCQTVLMYPYGAPSVKCAICNFI 108 ***********************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	8.4E-11	4	32	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.2E-10	7	31	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	5.3E-11	44	73	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.1E-9	46	70	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.3E-11	81	111	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.0E-14	84	108	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 180 aa Download sequence Send to blast
MQSQIVCHGC RRLLLYPRGA PSVCCAVCRV VSTVPPPGME MARLICGGCQ TLLMYTCNAT 60 TVRCSCCDTV NLVRPVSSIA HVNCGRCQTV LMYPYGAPSV KCAICNFITS VGGHQVPTVR 120 PLPPTLPASS GNSYNIPSTS APMSQSQNVT VVVENPMTVD DKGKLVSNVV VGVTTGGKK*

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Sevir.3G402500.1.p

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	KF314699	0.0	KF314699.1 Setaria italica clone Si18S 18S ribosomal RNA gene, partial sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004963154.1	1e-125	protein LOL2 isoform X1
Swissprot	Q2QMB3	1e-94	LOL2_ORYSJ; Protein LOL2
TrEMBL	K3ZA36	1e-123	K3ZA36_SETIT; Uncharacterized protein
STRING	Si023407m	1e-124	(Setaria italica)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1347	38	124

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	3e-53	lsd one like 1

Link Out ? help Back to Top
Phytozome	Sevir.3G402500.1.p

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]