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

MLOC_53966.1

Organism

Hordeum vulgare

Taxonomic ID

4513

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Pooideae; Triticodae; Triticeae; Hordeinae; Hordeum

Family

LSD

Protein Properties

Length: 146aa MW: 14964.5 Da PI: 7.9177

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
MLOC_53966.1	genome	IBSC	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	44.1	3.3e-14	30	54	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr+lL+YP+GA+sV+Ca+C tV MLOC_53966.1 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 MLOC_53966.1 69 CGGCHTLLMYIRGATSVQCSCCHTV 93 ************************9 PP
3	zf-LSD1	38.3	2.2e-12	107	131	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C +V MLOC_53966.1 107 CGSCRMLLMYQYGARSVKCAVCSFV 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	8.2E-4	26	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	2.0E-12	104	133	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.6E-11	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: 146 aa Download sequence Send to blast
MPVPLAPYPT PPAPFTPPAP NAGAQSQLVC SGCRNLLMYP AGATSVCCAV CSTVTAVPAP 60 GTEMAQLVCG GCHTLLMYIR GATSVQCSCC HTVNLAMEAN QVAHVNCGSC RMLLMYQYGA 120 RSVKCAVCSF VTSVGASSGA EQKPSN

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	MLOC_53966.1

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	0.0	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_020187808.1	1e-100	protein LSD1
Swissprot	Q0J7V9	2e-81	LSD1_ORYSJ; Protein LSD1
TrEMBL	A0A287G7I9	1e-99	A0A287G7I9_HORVV; Uncharacterized protein
STRING	MLOC_53966.4	1e-100	(Hordeum vulgare)

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	2e-59	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]