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

Thecc1EG029880t1

Common Name

TCM_029880

Organism

Theobroma cacao

Taxonomic ID

3641

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Malvales; Malvaceae; Byttnerioideae; Theobroma

Family

LSD

Protein Properties

Length: 135aa MW: 14633.5 Da PI: 5.6192

Description

LSD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thecc1EG029880t1	genome	CGD	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	zf-LSD1	37	5.5e-12	46	70	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+Cr lLsYPrGA+ +C++C tV Thecc1EG029880t1 46 CGSCRQLLSYPRGARQAKCSCCETV 70 ************************9 PP
2	zf-LSD1	47.3	3.2e-15	84	108	1	25
zf-LSD1 1 CggCrtlLsYPrGApsVRCalCdtV 25 Cg+C +lL+YP+GA+sVRC++C++V Thecc1EG029880t1 84 CGSCAVLLMYPFGASSVRCSSCQFV 108 ***********************98 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
TIGRFAMs	TIGR01053	4.9E-16	43	73	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	5.6E-9	46	70	IPR005735	Zinc finger, LSD1-type
TIGRFAMs	TIGR01053	9.0E-13	81	109	IPR005735	Zinc finger, LSD1-type
Pfam	PF06943	3.3E-12	84	108	IPR005735	Zinc finger, LSD1-type

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009617	Biological Process	response to bacterium

Sequence ? help Back to Top
Protein Sequence Length: 135 aa Download sequence Send to blast
MANREEGEQQ QQQQVEEEEE GPPPGWQSIP PPPQPPPSSE MAQMVCGSCR QLLSYPRGAR 60 QAKCSCCETV NFVLEAHQVG LVKCGSCAVL LMYPFGASSV RCSSCQFVTE IGAHNRRPPW 120 SVQQGQPTPP NAVH*

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}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	-

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_007025633.2	2e-92	PREDICTED: protein LOL2
Swissprot	O65426	2e-41	LOL2_ARATH; Protein LOL2
TrEMBL	A0A061GEH3	3e-91	A0A061GEH3_THECC; Lsd one like 2
STRING	EOY28255	4e-92	(Theobroma cacao)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM13611	22	26

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G21610.1	1e-39	lsd one like 2

Link Out ? help Back to Top
Phytozome	Thecc1EG029880t1
Entrez Gene	18596856

Publications ? help Back to Top
Motamayor JC, et al. The genome sequence of the most widely cultivated cacao type and its use to identify candidate genes regulating pod color. Genome Biol., 2013. 14(6): p. r53 [PMID:23731509]