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_009132714.1

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: 249aa MW: 28019.8 Da PI: 7.4736

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009132714.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	139.2	1.4e-43	69	168	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +Ca+Ck+lrr+Cak+C++apyfp ++p+kfa+vhk+FGasnv+k+l++lp ++r da++slv+eA+ar+rdPvyG+vg i+ lq+q+ ql+ +la XP_009132714.1 69 PCASCKLLRRRCAKECIFAPYFPPDDPHKFAIVHKVFGASNVSKMLQELPVHQRADAVNSLVFEANARVRDPVYGCVGAISYLQNQVTQLQMQLA 163 7********************************************************************************************** PP DUF260 96 llkee 100 ++++e XP_009132714.1 164 VAQTE 168 99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.681	68	169	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.8E-43	69	166	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0009965	Biological Process	leaf morphogenesis

Sequence ? help Back to Top
Protein Sequence Length: 249 aa Download sequence Send to blast
MNTCEHQPSS FSTKPSKTYY KYTPLKLSPF NSKLCFLPSI FSNFQKTSNF ETYGEIVIKV 60 DMGGPGSSPC ASCKLLRRRC AKECIFAPYF PPDDPHKFAI VHKVFGASNV SKMLQELPVH 120 QRADAVNSLV FEANARVRDP VYGCVGAISY LQNQVTQLQM QLAVAQTEIL CIQMQHEPTL 180 QSHHEVFELD QDDKAHLLHS NNNSINNCNN NYNLAYAMSS GQLNSNFASP SSIIQMQMQD 240 PLKQESLWT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-48	65	179	6	124	LOB family transfactor Ramosa2.1
5ly0_B	3e-48	65	179	6	124	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed predominantly in roots, and at low levels in shoots, floral stems and open flowers. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009132714.1

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	AC232559	0.0	AC232559.1 Brassica rapa subsp. pekinensis cultivar Inbred line 'Chiifu' clone KBrH038M21, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009132714.1	0.0	PREDICTED: LOB domain-containing protein 12-like
Refseq	XP_013642854.1	0.0	LOB domain-containing protein 12-like
Refseq	XP_013733963.1	0.0	LOB domain-containing protein 12-like
Refseq	XP_022571595.1	0.0	LOB domain-containing protein 12-like
Swissprot	Q8LBW3	1e-107	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	A0A291LQZ8	0.0	A0A291LQZ8_BRARR; Transcription factor LBD12b
STRING	Bra022780.1-P	1e-139	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM131	28	340

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G30130.1	1e-109	LBD family protein

Publications ? help Back to Top
Penfield S, et al. Reserve mobilization in the Arabidopsis endosperm fuels hypocotyl elongation in the dark, is independent of abscisic acid, and requires PHOSPHOENOLPYRUVATE CARBOXYKINASE1. Plant Cell, 2004. 16(10): p. 2705-18 [PMID:15367715]