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

Pahal.I02465.2

Organism

Panicum hallii

Taxonomic ID

206008

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; PACMAD clade; Panicoideae; Panicodae; Paniceae; Panicinae; Panicum

Family

LSD

Protein Properties

Length: 136aa MW: 14194.3 Da PI: 8.8289

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.I02465.2	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	40.5	4.5e-13	6	30	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+r A VRC++C+tV Pahal.I02465.2 6 CGGCRTLLMYTRSADTVRCSCCNTV 30 ************************9 PP
2	zf-LSD1	46.3	6.7e-15	44	68	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg C+t+L+YP+GA sV+Ca+C+++ Pahal.I02465.2 44 CGRCQTTLMYPYGAHSVKCAICNHI 68 ***********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	1.5E-15	3	33	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.3E-11	6	30	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	3.8E-11	41	69	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	2.0E-13	44	68	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 136 aa Download sequence Send to blast
MAQLICGGCR TLLMYTRSAD TVRCSCCNTV NLVRPVNNIA HVNCGRCQTT LMYPYGAHSV 60 KCAICNHITT TGVNTVAPTP SARPASNGSS YSTSSTSVPK SQPQNVTVVV ENPMTVDDKG 120 KLVSNVVVGV TTGKN*

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}.

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	EU975049	1e-139	EU975049.1 Zea mays clone 466017 zinc finger protein LSD2 mRNA, complete cds.
GenBank	EU976486	1e-139	EU976486.1 Zea mays clone 895962 zinc finger protein LSD2 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_025796943.1	5e-92	protein LOL3-like
Swissprot	Q6ASS2	7e-72	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A2S3IJX5	1e-91	A0A2S3IJX5_9POAL; Uncharacterized protein
STRING	Pavir.Ia01218.1.p	3e-90	(Panicum virgatum)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G20380.7	2e-41	LSD family protein

Link Out ? help Back to Top
Phytozome	Pahal.I02465.2

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]