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

GSBRNA2T00028687001

Common Name

GSBRNA2T00028687001

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: 232aa MW: 25634.5 Da PI: 9.8507

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
GSBRNA2T00028687001	genome	Genoscope	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	133.9	6.3e-42	53	152	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 GSBRNA2T00028687001 53 PCAACKLLRRRCAQECPFSPYFSPHEPHKFASVHKVFGASNVSKMLREVPESQRADAANSLVYEANVRLRDPVYGCMGAISALQQQVQAL 142 7*************************************************************************************** PP DUF260 91 kaelallkee 100 ++el ++++e GSBRNA2T00028687001 143 QSELTAVRSE 152 ***99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.181	52	153	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.8E-42	53	150	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 232 aa Download sequence Send to blast
MKTKVLLRFL VLRERFELLR KKFKREADAW PHQMAGIRRP MSSPPGTLNT ITPCAACKLL 60 RRRCAQECPF SPYFSPHEPH KFASVHKVFG ASNVSKMLRE VPESQRADAA NSLVYEANVR 120 LRDPVYGCMG AISALQQQVQ ALQSELTAVR SEILKYKQRE AVATLILPSN SQVAGFHSSS 180 ISVIAPPPQT PSTPPQPTVA PPPPSSCVFS QPTTRALEYG DIENENNSYF G*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-44	45	160	3	118	LOB family transfactor Ramosa2.1
5ly0_B	1e-44	45	160	3	118	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	GSBRNA2T00028687001

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	AB473844	0.0	AB473844.1 Arabidopsis thaliana ASL11 mRNA for ASYMMETRIC LEAVES2-like 11 protein, complete cds.
GenBank	BT025288	0.0	BT025288.1 Arabidopsis thaliana At2g40470 mRNA, complete cds.
GenBank	DQ446613	0.0	DQ446613.1 Arabidopsis thaliana clone pENTR221-At2g40470 LOB domain protein 15/lateral organ boundaries domain protein 15 (At2g40470) mRNA, complete cds.
GenBank	DQ653051	0.0	DQ653051.1 Arabidopsis thaliana clone 0000012791_0000009246 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013681220.1	1e-160	LOB domain-containing protein 15-like
Swissprot	Q8L5T5	1e-121	LBD15_ARATH; LOB domain-containing protein 15
TrEMBL	A0A078GJW3	1e-169	A0A078GJW3_BRANA; BnaC03g22690D protein
STRING	Bo3g034980.1	1e-159	(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	1e-111	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]