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_009592952.1

Organism

Nicotiana tomentosiformis

Taxonomic ID

4098

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: 62aa MW: 6982.45 Da PI: 8.2237

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009592952.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	45.3	1.4e-14	20	43	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt+L+YP GApsV+Ca+C+ XP_009592952.1 20 CGNCRTMLMYPCGAPSVKCAICHY 43 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
SuperFamily	SSF57889	4.19E-5	17	54	No hit	No description
TIGRFAMs	TIGR01053	4.7E-15	17	47	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.8E-14	20	44	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 62 aa Download sequence Send to blast
MVISVELIAS GPNQFAHVNC GNCRTMLMYP CGAPSVKCAI CHYITHVNVR MLVPFLILWW 60 MT

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	HG975441	2e-46	HG975441.1 Solanum pennellii chromosome ch02, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009783614.1	5e-22	PREDICTED: protein LSD1-like isoform X2
Refseq	XP_009783615.1	5e-22	PREDICTED: protein LSD1-like isoform X2
Swissprot	Q6ASS2	2e-13	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A0V0HPW9	7e-21	A0A0V0HPW9_SOLCH; Uncharacterized protein
TrEMBL	A0A2G3A6T2	4e-21	A0A2G3A6T2_CAPAN; Protein LSD1
STRING	XP_009592952.1	4e-39	(Nicotiana tomentosiformis)

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
AT4G20380.8	1e-12	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]