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

XP_009142693.1

Organism

Brassica rapa

Taxonomic ID

3711

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: 223aa MW: 24453.8 Da PI: 8.5695

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009142693.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	129.8	1.2e-40	45	144	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+lrr+Ca++C+++pyf +p kfa vhk+FGasnv+k+l ++pe +r da++slvyeA++r+rdPvyG++g i++lqqq++ l+ael XP_009142693.1 45 PCAACKLLRRRCAQECPFSPYFSPYEPLKFASVHKVFGASNVSKMLMEVPEGQRADAANSLVYEANVRLRDPVYGCMGAISALQQQVQALQAELT 139 7********************************************************************************************** PP DUF260 96 llkee 100 ++++e XP_009142693.1 140 AVRSE 144 99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.218	44	145	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	6.0E-41	45	142	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 223 aa Download sequence Send to blast
MSRERERLEE IGKKIKREAD AWPNQMAGIR RHISGPPGAL NTITPCAACK LLRRRCAQEC 60 PFSPYFSPYE PLKFASVHKV FGASNVSKML MEVPEGQRAD AANSLVYEAN VRLRDPVYGC 120 MGAISALQQQ VQALQAELTA VRSEILKYKQ REAVATLIVP SNSQYHNSGG VSVIALPPQT 180 PSTPPQPTAA HPPPPPSSCV YSQPTTRALE YGEIESENNS YFG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-43	45	148	11	114	LOB family transfactor Ramosa2.1
5ly0_B	4e-43	45	148	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	XP_009142693.1

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_009142693.1	1e-165	PREDICTED: LOB domain-containing protein 15-like isoform X2
Refseq	XP_013752104.1	1e-165	LOB domain-containing protein 15-like
Swissprot	Q8L5T5	1e-121	LBD15_ARATH; LOB domain-containing protein 15
TrEMBL	A0A291LQZ6	1e-163	A0A291LQZ6_BRARR; Transcription factor LBD15a
TrEMBL	M4CK38	1e-163	M4CK38_BRARP; Uncharacterized protein
STRING	Bra004572.1-P	1e-164	(Brassica rapa)

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-114	LOB domain-containing protein 15

Publications ? help Back to Top
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]