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_009141907.1

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: 226aa MW: 24791.1 Da PI: 7.8689

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009141907.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	132.8	1.4e-41	45	144	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+lrr+Ca++C+++pyf ++p++fa vhk+FGasnv+k+l ++pe++r da++slvyeA++r+rdPvyG++g i++lq+q++ l+ael XP_009141907.1 45 PCAACKLLRRRCAQECPFSPYFSPHEPHRFASVHKVFGASNVSKMLMEVPESQRADAANSLVYEANVRLRDPVYGCMGAISALQHQIQALQAELT 139 7********************************************************************************************** PP DUF260 96 llkee 100 ++++e XP_009141907.1 140 AVRSE 144 99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.945	44	145	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.2E-42	45	142	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 226 aa Download sequence Send to blast
MSRERERFEE IGKKIKIDAD AWPHQMAGIR RPMSGPHGTL NTITPCAACK LLRRRCAQEC 60 PFSPYFSPHE PHRFASVHKV FGASNVSKML MEVPESQRAD AANSLVYEAN VRLRDPVYGC 120 MGAISALQHQ IQALQAELTA VRSEILKFNQ REAVAALIVP SNSQVAGFHN SSGVSVIAPQ 180 PQTPSTPPQP TAADHPPPPS SCVFSQPTTR PLEYGDIESE NNSYFG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-42	45	148	11	114	LOB family transfactor Ramosa2.1
5ly0_B	1e-42	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_009141907.1

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	AC189596	0.0	AC189596.2 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH014A02, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009141907.1	1e-168	PREDICTED: LOB domain-containing protein 15 isoform X2
Swissprot	Q8L5T5	1e-128	LBD15_ARATH; LOB domain-containing protein 15
TrEMBL	A0A291LQZ7	1e-167	A0A291LQZ7_BRARR; Transcription factor LBD15
STRING	Bra016992.1-P	1e-147	(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-129	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]