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_009141041.1

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: 190aa MW: 21128 Da PI: 6.3319

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009141041.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	139.7	9.6e-44	9	108	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +Ca+Ck+lrr+CakdC++apyfp ++p+kfa+vhk+FGasnv+k+l++lp ++r da++slv+eA+ar+rdPvyG+vg i+ lq+q++ql+ +la XP_009141041.1 9 PCASCKLLRRRCAKDCIFAPYFPPDDPHKFAIVHKVFGASNVSKMLQELPVNQRADAVNSLVFEANARVRDPVYGCVGAISYLQNQVSQLQMQLA 103 7********************************************************************************************** PP DUF260 96 llkee 100 ++++e XP_009141041.1 104 VAQAE 108 99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.785	8	109	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.5E-43	9	106	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 190 aa Download sequence Send to blast
MGGPGSSSPC ASCKLLRRRC AKDCIFAPYF PPDDPHKFAI VHKVFGASNV SKMLQELPVN 60 QRADAVNSLV FEANARVRDP VYGCVGAISY LQNQVSQLQM QLAVAQAEIL CIQMQHEQPL 120 QSHHQVLELD QDEKALLLNN NNINNCNNDN NNLGYAMSSG QFNSNFASPS SIMQMQMQMQ 180 DPLKQESLWT

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-49	4	110	6	112	LOB family transfactor Ramosa2.1
5ly0_B	2e-49	4	110	6	112	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_009141041.1

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	AB164306	0.0	AB164306.1 Arabidopsis thaliana ASL5 mRNA for ASYMMETRIC LEAVES2-like gene 5 protein, partial cds.
GenBank	AB473838	0.0	AB473838.1 Arabidopsis thaliana ASL5 mRNA for ASYMMETRIC LEAVES2-like 5 protein, complete cds.
GenBank	AY086960	0.0	AY086960.1 Arabidopsis thaliana clone 29970 mRNA, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_009141041.1	1e-139	PREDICTED: LOB domain-containing protein 12-like
Refseq	XP_013670280.1	1e-139	LOB domain-containing protein 12-like
Swissprot	Q8LBW3	1e-108	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	A0A291LQZ4	1e-138	A0A291LQZ4_BRARR; Transcription factor LBD12
TrEMBL	A0A397ZN29	1e-138	A0A397ZN29_BRACM; Uncharacterized protein
TrEMBL	M4DYL6	1e-138	M4DYL6_BRARP; Uncharacterized protein
STRING	Bra021612.1-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-102	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]