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

GSBRNA2T00024342001

Common Name

GSBRNA2T00024342001

Organism

Brassica napus

Taxonomic ID

3708

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

LBD

Protein Properties

Length: 199aa MW: 21381.4 Da PI: 8.2776

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00024342001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	128.9	2.2e-40	20	119	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +CaaCk+lrr+Ca++C+++pyf +p kfa vhk+FGasnv+k+l ++pe +r da++slvyeA++r+rdPvyG++g i++lqqq++ l GSBRNA2T00024342001 20 PCAACKLLRRRCAQECPFSPYFSPCEPLKFASVHKVFGASNVSKMLMEVPEGQRADAANSLVYEANVRLRDPVYGCMGAISALQQQVQAL 109 7*************************************************************************************** PP DUF260 91 kaelallkee 100 +ael ++++e GSBRNA2T00024342001 110 QAELTAVRSE 119 ***99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.133	19	120	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.3E-40	20	117	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 199 aa Download sequence Send to blast
MAGIRRHISG PPGALNTITP CAACKLLRRR CAQECPFSPY FSPCEPLKFA SVHKVFGASN 60 VSKMLMEVPE GQRADAANSL VYEANVRLRD PVYGCMGAIS ALQQQVQALQ AELTAVRSEI 120 LKYKQREAVA TLIVPSNSQY HNSGGVSVIA LPPQTPSTPP QPTAAHHPPP PSSCVYSQPT 180 TRALEYGEIE SENNSYFG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	5e-43	20	123	11	114	LOB family transfactor Ramosa2.1
5ly0_B	5e-43	20	123	11	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in young shoots, roots, stems, leaves and flowers. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	GSBRNA2T00024342001

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	DQ446613	1e-161	DQ446613.1 Arabidopsis thaliana clone pENTR221-At2g40470 LOB domain protein 15/lateral organ boundaries domain protein 15 (At2g40470) mRNA, complete cds.
GenBank	DQ653051	1e-161	DQ653051.1 Arabidopsis thaliana clone 0000012791_0000009246 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013691246.1	1e-145	LOB domain-containing protein 15-like
Swissprot	Q8L5T5	1e-101	LBD15_ARATH; LOB domain-containing protein 15
TrEMBL	A0A3P6C8E7	1e-143	A0A3P6C8E7_BRAOL; Uncharacterized protein (Fragment)
STRING	Bo4g012620.1	1e-142	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1927	27	81

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G40470.1	7e-95	LOB domain-containing protein 15

Publications ? help Back to Top
Chalhoub B, et al. Plant genetics. Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome. Science, 2014. 345(6199): p. 950-3 [PMID:25146293] 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]