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

29957.m001411

Common Name

LOC8282744, RCOM_1134940

Organism

Ricinus communis

Taxonomic ID

3988

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Malpighiales; Euphorbiaceae; Acalyphoideae; Acalypheae; Ricinus

Family

LBD

Protein Properties

Length: 233aa MW: 25336.7 Da PI: 8.1239

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
29957.m001411	genome	JCVI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	133.1	1.1e-41	46	145	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelal 96 +CaaCk+lrr+Ca++C+++pyf ++p+kfa+vhk+FGasnv+k+l ++p+++r d+++slvyeA+ r+rdPvyG++g i++lqqq+++l+ael + 29957.m001411 46 PCAACKLLRRRCAEECPFSPYFSPHEPRKFAAVHKVFGASNVSKMLMEVPDSQRADTANSLVYEANLRIRDPVYGCMGAISALQQQIQSLQAELTA 141 7**********************************************************************************************9 PP DUF260 97 lkee 100 +++e 29957.m001411 142 VRSE 145 9987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.652	45	146	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	8.0E-42	46	143	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 233 aa Download sequence Send to blast
MSTDRDRFDE IGKNFNREIS DPDASPPMGR RHALTPPPGF LNTVTPCAAC KLLRRRCAEE 60 CPFSPYFSPH EPRKFAAVHK VFGASNVSKM LMEVPDSQRA DTANSLVYEA NLRIRDPVYG 120 CMGAISALQQ QIQSLQAELT AVRSEIIKYK YREATSNFFP STAHDALVSS GSLLSITAEP 180 SKPTLTHPPP PPPPPPTSPP APPPSTLVSS SSISTLYTPS PSSMGYSSIN FQC

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-43	46	153	11	118	LOB family transfactor Ramosa2.1
5ly0_B	4e-43	46	153	11	118	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	29957.m001411

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	AB970780	1e-108	AB970780.1 Populus tremula x Populus tremuloides PtxtLBD15a mRNA for LOB domain-containing protein 15, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002517720.1	1e-170	LOB domain-containing protein 15
Swissprot	Q9AT61	2e-75	LBD13_ARATH; LOB domain-containing protein 13
TrEMBL	B9RVF1	1e-168	B9RVF1_RICCO; LOB domain-containing protein, putative
STRING	XP_002517720.1	1e-169	(Ricinus communis)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF2298	34	86

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G40470.1	3e-74	LOB domain-containing protein 15

Link Out ? help Back to Top
Phytozome	29957.m001411
Entrez Gene	8282744

Publications ? help Back to Top
Cho C,Jeon E,Pandey SK,Ha SH,Kim J LBD13 positively regulates lateral root formation in Arabidopsis. Planta, 2019. 249(4): p. 1251-1258 [PMID:30627888]