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

Brast03G019200.1.p

Organism

Brachypodium stacei

Taxonomic ID

1071399

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Brachypodieae; Brachypodium

Family

LSD

Protein Properties

Length: 147aa MW: 15021.5 Da PI: 7.9177

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Brast03G019200.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	44.1	3.4e-14	30	54	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr+lL+YP+GA+sV+Ca+C tV Brast03G019200.1.p 30 CSGCRNLLMYPAGATSVCCAVCSTV 54 ***********************99 PP
2	zf-LSD1	46.8	4.9e-15	69	93	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+tV Brast03G019200.1.p 69 CGGCHTLLMYIRGATSVQCSCCHTV 93 ************************9 PP
3	zf-LSD1	38.4	2.1e-12	107	131	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C +V Brast03G019200.1.p 107 CGNCRMLLMYQYGARSVKCAVCSFV 131 **********************988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
Gene3D	G3DSA:3.90.10.10	8.4E-4	25	128	No hit	No description
TIGRFAMs	TIGR01053	1.0E-13	27	57	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.8E-11	30	54	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	8.8E-15	66	95	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.3E-12	69	93	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.2E-11	104	133	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.1E-12	107	131	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009814	Biological Process	defense response, incompatible interaction
GO:0034051	Biological Process	negative regulation of plant-type hypersensitive response
GO:0034052	Biological Process	positive regulation of plant-type hypersensitive response
GO:0045595	Biological Process	regulation of cell differentiation
GO:2000121	Biological Process	regulation of removal of superoxide radicals

Sequence ? help Back to Top
Protein Sequence Length: 147 aa Download sequence Send to blast
MPVPLAPYPT PPAPFTPPTP NAGAQSQLVC SGCRNLLMYP AGATSVCCAV CSTVTAVPAP 60 GTEMAQLVCG GCHTLLMYIR GATSVQCSCC HTVNLAMEAN QVAHVNCGNC RMLLMYQYGA 120 RSVKCAVCSF VTSVGATPGA DQKSSN*

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	Brast03G019200.1.p

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	AK249258	1e-165	AK249258.1 Hordeum vulgare subsp. vulgare cDNA clone: FLbaf27e22, mRNA sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_003573460.1	1e-101	protein LSD1 isoform X1
Refseq	XP_010234376.1	1e-101	protein LSD1 isoform X1
Swissprot	Q0J7V9	1e-82	LSD1_ORYSJ; Protein LSD1
TrEMBL	I1I1E2	1e-100	I1I1E2_BRADI; Uncharacterized protein
STRING	BRADI3G16400.1	1e-100	(Brachypodium distachyon)

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
AT1G32540.1	4e-60	lsd one like 1

Link Out ? help Back to Top
Phytozome	Brast03G019200.1.p

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]