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_013635070.1

Organism

Brassica oleracea

Taxonomic ID

3712

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: 192aa MW: 21387.3 Da PI: 6.3319

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_013635070.1	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	9.8e-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_013635070.1 9 PCASCKLLRRRCAKDCIFAPYFPPDDPHKFAIVHKVFGASNVSKMLQELPVNQRADAVNSLVFEANARVRDPVYGCVGAISYLQNQVSQLQMQLA 103 7********************************************************************************************** PP DUF260 96 llkee 100 ++++e XP_013635070.1 104 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	1.6E-43	9	106	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 192 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 MQDPLKQESL WT

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_013635070.1

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_013635070.1	1e-141	PREDICTED: LOB domain-containing protein 12
Refseq	XP_013731173.1	1e-141	LOB domain-containing protein 12
Swissprot	Q8LBW3	1e-110	LBD12_ARATH; LOB domain-containing protein 12
TrEMBL	A0A0D3C301	1e-139	A0A0D3C301_BRAOL; Uncharacterized protein
TrEMBL	A0A3P6CHN3	1e-139	A0A3P6CHN3_BRAOL; Uncharacterized protein
STRING	Bo4g170770.1	1e-140	(Brassica oleracea)

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-104	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]