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

CA02g04620

Organism

Capsicum annuum

Taxonomic ID

4072

Taxonomic Lineage

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

Family

LSD

Protein Properties

Length: 88aa MW: 9511.45 Da PI: 8.3686

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
CA02g04620	genome	PEP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	49	9.8e-16	8	32	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+ PrGA+sVRCa+C+tV CA02g04620 8 CGGCRTLLMHPRGATSVRCACCHTV 32 ************************9 PP
2	zf-LSD1	41.4	2.4e-13	46	69	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 Cg+Crt+L+YP GApsV+Ca+C+ CA02g04620 46 CGNCRTMLMYPCGAPSVKCAICHC 69 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	6.1E-18	5	35	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.7E-14	8	32	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.1E-14	43	73	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.0E-12	46	69	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 88 aa Download sequence Send to blast
MEMAQLICGG CRTLLMHPRG ATSVRCACCH TVNLVPGPNQ FAHVNCGNCR TMLMYPCGAP 60 SVKCAICHCI THISVRISPF FGFLILW*

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	HG975514	4e-39	HG975514.1 Solanum lycopersicum chromosome ch02, complete genome.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_016557999.1	7e-48	PREDICTED: protein LSD1-like
Refseq	XP_016558000.1	7e-48	PREDICTED: protein LSD1-like
Swissprot	Q6ASS2	1e-29	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A2G3A6T2	2e-56	A0A2G3A6T2_CAPAN; Protein LSD1
STRING	XP_009783613.1	6e-45	(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
AT1G32540.1	1e-30	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]