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

Bradi3g16400.4.p

Common Name

BRADI_3g16400

Organism

Brachypodium distachyon

Taxonomic ID

15368

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: 115aa MW: 12495.4 Da PI: 8.3514

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Bradi3g16400.4.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	47.3	3.3e-15	37	61	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+tV Bradi3g16400.4.p 37 CGGCHTLLMYIRGATSVQCSCCHTV 61 ************************9 PP
2	zf-LSD1	38.9	1.4e-12	75	99	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C +V Bradi3g16400.4.p 75 CGNCRMLLMYQYGARSVKCAVCSFV 99 **********************988 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	5.7E-15	34	63	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	8.9E-13	37	61	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	1.4E-11	72	102	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.8E-12	75	99	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: 115 aa Download sequence Send to blast
MLRSLQYRDR CAGSRYAYES NSFCPSRIWT EMAQLVCGGC HTLLMYIRGA TSVQCSCCHT 60 VNLAMEANQV AHVNCGNCRM LLMYQYGARS VKCAVCSFVT SVGATPGADQ KSSN*

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	Bradi3g16400.4.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	FP091666	1e-92	FP091666.1 Phyllostachys edulis cDNA clone: bphyst007l18, full insert sequence.
GenBank	FP094210	1e-92	FP094210.1 Phyllostachys edulis cDNA clone: bphylf003c20, full insert sequence.
GenBank	FP095799	1e-92	FP095799.1 Phyllostachys edulis cDNA clone: bphyst008n09, full insert sequence.
GenBank	FP097106	1e-92	FP097106.1 Phyllostachys edulis cDNA clone: bphyst016n22, full insert sequence.
GenBank	FP097837	1e-92	FP097837.1 Phyllostachys edulis cDNA clone: bphylf033i22, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024318071.1	2e-57	protein LSD1 isoform X2
Swissprot	Q0J7V9	2e-53	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A0Q3LS35	5e-79	A0A0Q3LS35_BRADI; Uncharacterized protein
STRING	BRADI3G16400.1	9e-56	(Brachypodium distachyon)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT1G32540.3	5e-49	lsd one like 1

Link Out ? help Back to Top
Phytozome	Bradi3g16400.4.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]