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

XP_016507388.1

Organism

Nicotiana tabacum

Taxonomic ID

4097

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Nicotianoideae; Nicotianeae; Nicotiana

Family

LSD

Protein Properties

Length: 175aa MW: 18150.1 Da PI: 8.291

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_016507388.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	40.3	5.1e-13	7	30	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 C+gCrt+L YPrGA++V+Ca+C++ XP_016507388.1 7 CSGCRTILLYPRGATNVCCAVCNA 30 **********************97 PP
2	zf-LSD1	47.4	3.1e-15	46	70	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+ PrGA+sVRCa+C+tV XP_016507388.1 46 CGGCRTLLMHPRGATSVRCACCHTV 70 ************************9 PP
3	zf-LSD1	42.8	8.7e-14	84	107	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt+L+YP GApsV+Ca+C+ XP_016507388.1 84 CGNCRTMLMYPCGAPSVKCAICHY 107 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	6.6E-13	4	32	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.2E-11	7	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.2E-17	43	73	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.5E-13	46	70	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.7E-14	81	111	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.8E-13	84	108	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 175 aa Download sequence Send to blast
MQSQLVCSGC RTILLYPRGA TNVCCAVCNA LTPVPPPGME MAQLICGGCR TLLMHPRGAT 60 SVRCACCHTV NLVPGPNQFA HVNCGNCRTM LMYPCGAPSV KCAICHYITH VNAGDGRVHV 120 PVHTPNGGAT SSAGPISSTA TARSQNQTVV VQNPMSLDES GKLVSNVVVG VTTTT

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	BT013298	3e-81	BT013298.1 Lycopersicon esculentum clone 134929F, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016507388.1	1e-123	PREDICTED: protein LOL2-like
Swissprot	Q2QMB3	2e-67	LOL2_ORYSJ; Protein LOL2
TrEMBL	A0A1S4D229	1e-121	A0A1S4D229_TOBAC; protein LOL2-like
STRING	XP_009783613.1	1e-121	(Nicotiana sylvestris)

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
AT4G20380.7	2e-58	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]