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

PH01001063G0080

Organism

Phyllostachys heterocycla

Taxonomic ID

38705

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Bambusoideae; Arundinarodae; Arundinarieae; Arundinariinae; Phyllostachys

Family

LSD

Protein Properties

Length: 143aa MW: 14819.3 Da PI: 7.9177

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PH01001063G0080	genome	ICBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	44.2	3.2e-14	27	51	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gCr+lL+YP+GA+sV+Ca+C tV PH01001063G0080 27 CSGCRNLLMYPAGATSVCCAVCSTV 51 ***********************99 PP
2	zf-LSD1	46.8	4.7e-15	66	90	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggC+tlL+Y rGA+sV+C++C+tV PH01001063G0080 66 CGGCHTLLMYIRGATSVQCSCCHTV 90 ************************9 PP
3	zf-LSD1	41.9	1.6e-13	104	128	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lL+Y +GA+sV+Ca+C++V PH01001063G0080 104 CGNCRMLLMYQYGARSVKCAVCNFV 128 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.4E-13	24	54	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.7E-11	27	51	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	8.5E-15	63	92	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.3E-12	66	90	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.9E-12	101	131	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	1.0E-12	104	128	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: 143 aa Download sequence Send to blast
MPVPLAPYPT PPVPFTPPNG AQSQLVCSGC RNLLMYPAGA TSVCCAVCST VTSVPAPGTE 60 MAQLVCGGCH TLLMYIRGAT SVQCSCCHTV NLAMEANQVA HVNCGNCRML LMYQYGARSV 120 KCAVCNFVTS VGASPGADQK PSN

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	PH01001063G0080

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	0.0	FP091666.1 Phyllostachys edulis cDNA clone: bphyst007l18, full insert sequence.
GenBank	FP094210	0.0	FP094210.1 Phyllostachys edulis cDNA clone: bphylf003c20, full insert sequence.
GenBank	FP097106	0.0	FP097106.1 Phyllostachys edulis cDNA clone: bphyst016n22, full insert sequence.
GenBank	FP097837	0.0	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	3e-88	protein LSD1 isoform X1
Refseq	XP_011624573.1	3e-88	protein LSD1 isoform X1
Swissprot	Q0J7V9	1e-87	LSD1_ORYSJ; Protein LSD1
TrEMBL	B5KLZ6	6e-91	B5KLZ6_BAMOL; LOL1
STRING	ERN09291	1e-87	(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
AT1G32540.1	2e-63	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]