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_009785779.1

Organism

Nicotiana sylvestris

Taxonomic ID

4096

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: 87aa MW: 9283.98 Da PI: 8.1475

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009785779.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	48	2e-15	10	34	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+tV XP_009785779.1 10 CGGCHTLLMYIRGATSVQCSCCHTV 34 ************************9 PP
2	zf-LSD1	42	1.6e-13	48	72	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C+++ XP_009785779.1 48 CGNCRMLLMYQYGARSVKCAVCNFM 72 ***********************86 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	3.4E-15	7	36	IPR005735	Zinc finger, LSD1-type
Gene3D	G3DSA:3.90.10.10	6.3E-4	7	70	No hit	No description
Pfam	PF06943	5.5E-13	10	34	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.2E-12	45	74	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.1E-13	48	71	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 87 aa Download sequence Send to blast
TGTEMAQLVC GGCHTLLMYI RGATSVQCSC CHTVNLAMEA NQVAHVNCGN CRMLLMYQYG 60 ARSVKCAVCN FMTAVGVSIK FSLALSP

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}.

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By light. Down-regulated by dark. {ECO:0000269\|PubMed:15915636}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HG975447	9e-56	HG975447.1 Solanum pennellii chromosome ch08, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009785779.1	9e-58	PREDICTED: protein LSD1-like, partial
Swissprot	Q0J7V9	9e-49	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A1U7XFQ3	2e-56	A0A1U7XFQ3_NICSY; protein LSD1-like
STRING	XP_009785779.1	3e-57	(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
AT1G32540.3	5e-49	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]