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

462892842

Organism

Eragrostis tef

Taxonomic ID

110835

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Chloridoideae; Eragrostideae; Eragrostidinae; Eragrostis

Family

LSD

Protein Properties

Length: 153aa MW: 15837.7 Da PI: 7.8533

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
462892842	genome	Tef	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	42.5	1.1e-13	27	51	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C gCr+lL+YP+GA+sV+Ca+C tV 462892842 27 CTGCRNLLMYPAGATSVCCAVCSTV 51 9**********************99 PP
2	zf-LSD1	46.7	5.2e-15	66	90	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+tV 462892842 66 CGGCHTLLMYIRGATSVQCSCCHTV 90 ************************9 PP
3	zf-LSD1	41.8	1.8e-13	114	138	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C++V 462892842 114 CGNCRMLLMYQYGARSVKCAVCNFV 138 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	6.9E-13	24	54	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.6E-11	27	51	IPR005735	Zinc finger, LSD1-type
SuperFamily	SSF48695	7.25E-5	27	135	IPR011031	Multihaem cytochrome
TIGRFAMs	TIGR01053	9.5E-15	63	92	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.4E-12	66	90	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	4.3E-12	111	141	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.1E-12	114	138	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0034051	Biological Process	negative regulation of plant-type hypersensitive response
GO:0045595	Biological Process	regulation of cell differentiation

Sequence ? help Back to Top
Protein Sequence Length: 153 aa Download sequence Send to blast
MPVPLAPYPT PPVPFTPPNG AQSQLVCTGC RNLLMYPAGA TSVCCAVCST VTAVPAPGTE 60 MAQLVCGGCH TLLMYIRGAT SVQCSCCHTV NLAMEVGMIC VFCVPANQVA HVNCGNCRML 120 LMYQYGARSV KCAVCNFVTS VGASPGAEQK PSA

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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	462892842

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 -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	FP091666	1e-104	FP091666.1 Phyllostachys edulis cDNA clone: bphyst007l18, full insert sequence.
GenBank	FP094210	1e-104	FP094210.1 Phyllostachys edulis cDNA clone: bphylf003c20, full insert sequence.
GenBank	FP097106	1e-104	FP097106.1 Phyllostachys edulis cDNA clone: bphyst016n22, full insert sequence.
GenBank	FP097837	1e-104	FP097837.1 Phyllostachys edulis cDNA clone: bphylf033i22, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006847710.1	2e-84	protein LSD1 isoform X1
Refseq	XP_011624573.1	2e-84	protein LSD1 isoform X1
Swissprot	Q0J7V9	2e-83	LSD1_ORYSJ; Protein LSD1
TrEMBL	B5KLZ6	7e-86	B5KLZ6_BAMOL; LOL1
STRING	ERN09291	7e-84	(Amborella trichopoda)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP1347	38	124

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.3	8e-56	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]