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

72709

Common Name

SELMODRAFT_72709, SELMODRAFT_72711

Organism

Selaginella moellendorffii

Taxonomic ID

88036

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Lycopodiidae; Selaginellales; Selaginellaceae; Selaginella

Family

LSD

Protein Properties

Length: 112aa MW: 11674.7 Da PI: 7.9189

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
72709	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	38.6	1.7e-12	8	30	1	23
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCd 23 C+gCrtlL YP GA++VRCalC 72709 8 CSGCRTLLIYPHGATNVRCALCS 30 **********************6 PP
2	zf-LSD1	44.7	2.2e-14	47	71	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL Y rGA+sV+C++C+tV 72709 47 CGGCRTLLLYIRGATSVQCSCCHTV 71 ************************9 PP
3	zf-LSD1	36.5	7.8e-12	85	108	1	24
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdt 24 CggC t+L Y +GA sV+CalC+ 72709 85 CGGCSTTLVYAFGAQSVKCALCQY 108 **********************96 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	8.6E-14	5	33	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.8E-11	8	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	5.0E-15	44	72	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.1E-12	47	71	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.8E-11	82	110	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.6E-11	85	109	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 112 aa Download sequence Send to blast
GAQSQLICSG CRTLLIYPHG ATNVRCALCS CITPVSPQGP EMAQLVCGGC RTLLLYIRGA 60 TSVQCSCCHT VNVAMDANQI AHVNCGGCST TLVYAFGAQS VKCALCQYIT PI

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}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002968020.2	3e-75	protein LSD1 isoform X2
Refseq	XP_002992422.2	3e-75	protein LSD1 isoform X2
Swissprot	Q0J7V9	3e-52	LSD1_ORYSJ; Protein LSD1
TrEMBL	D8R978	9e-74	D8R978_SELML; Uncharacterized protein (Fragment)
STRING	EFJ06572	1e-74	(Selaginella moellendorffii)
STRING	EFJ31367	1e-74	(Selaginella moellendorffii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Representative plant	OGRP1146	17	53

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.1	1e-53	lsd one like 1

Link Out ? help Back to Top
Phytozome	72709
Entrez Gene	9633344 \| 9661567

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] Banks JA, et al. The Selaginella genome identifies genetic changes associated with the evolution of vascular plants. Science, 2011. 332(6032): p. 960-3 [PMID:21551031]