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.I02465.1

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: 176aa MW: 18392.2 Da PI: 8.5494

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Pahal.I02465.1	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	38	2.7e-12	7	31	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 C+ Crt+L YPrGApsV+Ca+C+ V Pahal.I02465.1 7 CHACRTVLLYPRGAPSVCCAVCQSV 31 ***********************98 PP
2	zf-LSD1	39.9	6.7e-13	46	70	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 CggCrtlL+Y+r A VRC++C+tV Pahal.I02465.1 46 CGGCRTLLMYTRSADTVRCSCCNTV 70 ************************9 PP
3	zf-LSD1	45.8	1e-14	84	108	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg C+t+L+YP+GA sV+Ca+C+++ Pahal.I02465.1 84 CGRCQTTLMYPYGAHSVKCAICNHI 108 ***********************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	8.1E-12	4	34	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	4.4E-10	7	31	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	2.3E-15	43	73	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	7.9E-11	46	70	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	5.8E-11	81	109	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.0E-13	84	108	IPR005735	Zinc finger, LSD1-type

Sequence ? help Back to Top
Protein Sequence Length: 176 aa Download sequence Send to blast
MQSQIVCHAC RTVLLYPRGA PSVCCAVCQS VTTVPPPGLE MAQLICGGCR TLLMYTRSAD 60 TVRCSCCNTV NLVRPVNNIA HVNCGRCQTT LMYPYGAHSV KCAICNHITT TGVNTVAPTP 120 SARPASNGSS YSTSSTSVPK SQPQNVTVVV ENPMTVDDKG 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	EU976486	1e-175	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	1e-123	protein LOL3-like
Swissprot	Q6ASS2	6e-95	LOL3_ORYSJ; Protein LOL3
TrEMBL	A0A2S3IJW6	1e-121	A0A2S3IJW6_9POAL; Uncharacterized protein
TrEMBL	A0A2T7C3C9	1e-121	A0A2T7C3C9_9POAL; Uncharacterized protein
TrEMBL	A0A2T7C3M5	1e-121	A0A2T7C3M5_9POAL; Uncharacterized protein
TrEMBL	A0A2T8I1F7	1e-121	A0A2T8I1F7_9POAL; Uncharacterized protein
STRING	Pavir.Ib04023.1.p	1e-120	(Panicum virgatum)

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
AT4G20380.7	6e-55	LSD family protein

Link Out ? help Back to Top
Phytozome	Pahal.I02465.1

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]