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

Solyc06g082430.1.1

Common Name

LOC101247628

Organism

Solanum lycopersicum

Taxonomic ID

4081

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; asterids; lamiids; Solanales; Solanaceae; Solanoideae; Solaneae; Solanum; Lycopersicon

Family

LBD

Protein Properties

Length: 233aa MW: 25269.7 Da PI: 8.7169

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Solyc06g082430.1.1	genome	ITAG	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	131.1	4.7e-41	50	149	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 +CaaCk+lrr+Ca++C+++pyf ++p+kfa+vhk+FGasnv+kll ++p +r da++slvyeA++r+rdPvyG++g i++lqqq+++l+ Solyc06g082430.1.1 50 PCAACKLLRRRCAEECPFSPYFSPHEPHKFAAVHKVFGASNVSKLLMEVPVGQRADAANSLVYEANVRLRDPVYGCMGAISTLQQQIQNLQ 140 7**************************************************************************************** PP DUF260 92 aelallkee 100 +el+++++e Solyc06g082430.1.1 141 VELNTIRAE 149 **99887 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.189	49	150	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.8E-41	50	147	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0016020	Cellular Component	membrane

Sequence ? help Back to Top
Protein Sequence Length: 233 aa Download sequence Send to blast
MSRERERLDE MGKKLKTEID ISQLQMQQQM GRRHVLGPVG GGTTLNNVTP CAACKLLRRR 60 CAEECPFSPY FSPHEPHKFA AVHKVFGASN VSKLLMEVPV GQRADAANSL VYEANVRLRD 120 PVYGCMGAIS TLQQQIQNLQ VELNTIRAEI LRYKYREAAN SLIASISTSV PPELPQAPPT 180 PPPPPPPPSV VVVSSSSSSA SSTSSNLYTP ASSSVANFSA ITNNNISYFD QQ*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	6e-45	43	171	4	127	LOB family transfactor Ramosa2.1
5ly0_B	6e-45	43	171	4	127	LOB family transfactor Ramosa2.1
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in shoots and roots and at low levels in flowers, but not in leaves or inflorescence stems. {ECO:0000269\|PubMed:12068116}.
Uniprot	TISSUE SPECIFICITY: Expressed in young shoots, roots, stems, leaves and flowers. {ECO:0000269\|PubMed:12068116}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00283	DAP	Transfer from AT2G30340	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Solyc06g082430.1.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_004242489.1	1e-171	LOB domain-containing protein 15
Swissprot	Q8L5T5	7e-75	LBD15_ARATH; LOB domain-containing protein 15
Swissprot	Q9AT61	2e-74	LBD13_ARATH; LOB domain-containing protein 13
TrEMBL	A0A3Q7H202	1e-170	A0A3Q7H202_SOLLC; Uncharacterized protein
STRING	Solyc06g082430.1.1	1e-170	(Solanum lycopersicum)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Asterids	OGEA43	24	669
Representative plant	OGRP60	16	318

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G40470.1	1e-77	LOB domain-containing protein 15

Link Out ? help Back to Top
Phytozome	Solyc06g082430.1.1
Entrez Gene	101247628

Publications ? help Back to Top
Wang Y,van der Hoeven RS,Nielsen R,Mueller LA,Tanksley SD Characteristics of the tomato nuclear genome as determined by sequencing undermethylated EcoRI digested fragments. Theor. Appl. Genet., 2005. 112(1): p. 72-84 [PMID:16208505] Ohashi-Ito K,Iwamoto K,Fukuda H LOB DOMAIN-CONTAINING PROTEIN 15 Positively Regulates Expression of VND7, a Master Regulator of Tracheary Elements. Plant Cell Physiol., 2018. 59(5): p. 989-996 [PMID:29444288] 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]