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

PH01007618G0020

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: 128aa MW: 13373.2 Da PI: 9.2513

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
PH01007618G0020	genome	ICBR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	27.3	5.9e-09	6	30	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+gC tlL Y GA+++RC+ C+ V PH01007618G0020 6 CSGCPTLLVYNSGATNIRCSRCNRV 30 **********************966 PP
2	zf-LSD1	22.1	2.6e-07	43	67	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Crt+L+ P+ A+ V C+ C V PH01007618G0020 43 CGQCRTTLMHPPAASTVECPTCSYV 67 **********************765 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.5E-10	4	31	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	6.2E-9	6	28	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	8.9E-7	40	68	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	6.0E-8	43	67	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 128 aa Download sequence Send to blast
MSELICSGCP TLLVYNSGAT NIRCSRCNRV NSTRVNQIGH LTCGQCRTTL MHPPAASTVE 60 CPTCSYVNPV RNNSARGTAA GQGASGSARS APPDARPQTV LVENPKTLDE KGKLVSNVVV 120 GVTSWKK*

Functional Description ? help Back to Top
Source	Description
UniProt	Putative zinc finger that may be involved in programmed cell death and defense response. {ECO:0000250}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	PH01007618G0020

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	AK120454	1e-31	AK120454.1 Oryza sativa Japonica Group cDNA clone:J013104B05, full insert sequence.
GenBank	CT830765	1e-31	CT830765.1 Oryza sativa (indica cultivar-group) cDNA clone:OSIGCFA016M05, full insert sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025819949.1	4e-57	protein LOL4-like isoform X1
Refseq	XP_025819950.1	4e-57	protein LOL4-like isoform X1
Refseq	XP_025819951.1	4e-57	protein LOL4-like isoform X2
Swissprot	Q84UR0	3e-55	LOL4_ORYSJ; Protein LOL4
TrEMBL	A0A2T7D318	8e-56	A0A2T7D318_9POAL; Uncharacterized protein
TrEMBL	A0A2T7D360	1e-55	A0A2T7D360_9POAL; Uncharacterized protein
TrEMBL	A0A2T8IEV3	1e-55	A0A2T8IEV3_9POAL; Uncharacterized protein
TrEMBL	A0A2T8IEW4	8e-56	A0A2T8IEW4_9POAL; Uncharacterized protein
TrEMBL	A0A3L6PMF8	8e-56	A0A3L6PMF8_PANMI; Protein LOL4-like isoform X2
STRING	Pavir.Fb00070.1.p	4e-56	(Panicum virgatum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP12333	29	38

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	1e-24	LSD family protein

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]