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

Sme2.5_00639.1_g00002.1

Organism

Solanum melongena

Taxonomic ID

4111

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum

Family

LSD

Protein Properties

Length: 285aa MW: 30714.9 Da PI: 9.1193

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sme2.5_00639.1_g00002.1	genome	EGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	37.4	4.2e-12	7	30	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 C+gCrt+L YPrGA++V+Ca+C++ Sme2.5_00639.1_g00002.1 7 CSGCRTMLLYPRGASNVCCAVCNA 30 **********************97 PP
2	zf-LSD1	46	8.6e-15	46	70	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+ PrGA+sVRC++C+tV Sme2.5_00639.1_g00002.1 46 CGGCRTLLMHPRGATSVRCSCCHTV 70 ************************9 PP
3	zf-LSD1	38.2	2.4e-12	84	107	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Cr +L+YP GApsV+Ca+C+ Sme2.5_00639.1_g00002.1 84 CGNCRMMLMYPCGAPSVKCAVCHY 107 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	8.5E-13	4	32	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.1E-10	7	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	6.5E-17	43	73	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.7E-13	46	70	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	5.1E-11	81	110	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	6.0E-12	84	108	IPR005735	Zinc finger, LSD1-type
Pfam	PF04535	3.7E-6	230	285	IPR006702	Domain of unknown function DUF588

Sequence ? help Back to Top
Protein Sequence Length: 285 aa Download sequence Send to blast
MQSQLMCSGC RTMLLYPRGA SNVCCAVCNA LTPVPPPGME MAQLICGGCR TLLMHPRGAT 60 SVRCSCCHTV NLVPGPNQFA HVYCGNCRMM LMYPCGAPSV KCAVCHYITN VNAGDGRAHA 120 PLNSPNGTAT TASGSSSTPK ARSQNQTVVV QNPMSVDESG KLCNFEMRVP RKQPLYLGSG 180 KICVHPTLPR PHLWDFTGIN CHRMKTKTYK MAQQENGQKL DVAKPKDYCN LVVSLLRLLA 240 FGATISATLV MALNNQKQTI VVATIGTTPI QATLNAKFQH TPAFV

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	KT036491	0.0	KT036491.1 Solanum tuberosum cultivar Kexin-4 LSD1-like protein mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010316974.1	1e-112	protein LSD1
Refseq	XP_010316975.1	1e-112	protein LSD1
Refseq	XP_025885110.1	1e-112	protein LSD1
Swissprot	Q2QMB3	3e-59	LOL2_ORYSJ; Protein LOL2
TrEMBL	A0A3Q7F227	1e-111	A0A3Q7F227_SOLLC; Uncharacterized protein
STRING	PGSC0003DMT400054616	1e-109	(Solanum tuberosum)

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
AT1G32540.1	6e-55	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] 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]