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

ORGLA01G0040900.1

Organism

Oryza glaberrima

Taxonomic ID

4538

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

LBD

Protein Properties

Length: 252aa MW: 25842.2 Da PI: 7.7814

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORGLA01G0040900.1	genome	AGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	141.8	2.2e-44	30	129	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 +CaaCk+lrrkC ++Cv+apyfp e+p+kfanvhk+FGasnv+kll++l +++reda+ssl+yeAear++dPvyG+vg i+ lq+q+++l++ ORGLA01G0040900.1 30 PCAACKFLRRKCLPGCVFAPYFPPEEPQKFANVHKVFGASNVTKLLNELLPHQREDAVSSLAYEAEARVKDPVYGCVGAISVLQRQVHRLQK 121 7***************************************************************************************** PP DUF260 93 elallkee 100 el+++++e ORGLA01G0040900.1 122 ELDTAHAE 129 *99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	27.427	29	130	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	9.8E-44	30	127	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010199	Biological Process	organ boundary specification between lateral organs and the meristem

Sequence ? help Back to Top
Protein Sequence Length: 252 aa Download sequence Send to blast
MASSSSTSNS AISSVVASAV ATTTPGAGSP CAACKFLRRK CLPGCVFAPY FPPEEPQKFA 60 NVHKVFGASN VTKLLNELLP HQREDAVSSL AYEAEARVKD PVYGCVGAIS VLQRQVHRLQ 120 KELDTAHAEL LRYACGEVGI PTALPVTAAP RLAAAMPAPG QLAAAVSAGM YGGGRRLGVI 180 DGGGIAPPSP HTAGCYYARN NNNAGSIGAD VAPVLPYASV ANWTVNAIST TTTNSGSESI 240 GMDHKEGGDS SM

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-84	21	149	2	131	LOB family transfactor Ramosa2.1
5ly0_B	2e-84	21	149	2	131	LOB family transfactor Ramosa2.1
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Functional Description ? help Back to Top
Source	Description
UniProt	Not known; ectopic expression of LOB leads to alterations in the size and shape of leaves and floral organs and causes male and female sterility.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00581	DAP	Transfer from AT5G63090	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	ORGLA01G0040900.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: Positively regulated within the shoot apex by both ASYMMETRIC LEAVES 1 (AS1) and ASYMMETRIC LEAVES 2 (AS2/LBD6) and by KNAT1. {ECO:0000269\|PubMed:11934861}.

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB200238	0.0	AB200238.1 Oryza sativa Japonica Group CRLL4 mRNA for LOB domain protein, complete cds.
GenBank	AK105527	0.0	AK105527.1 Oryza sativa Japonica Group cDNA clone:001-127-G05, full insert sequence.
GenBank	AP002912	0.0	AP002912.2 Oryza sativa Japonica Group genomic DNA, chromosome 1, PAC clone:P0028E10.
GenBank	AP003339	0.0	AP003339.4 Oryza sativa Japonica Group genomic DNA, chromosome 1, BAC clone:OJ1276_B06.
GenBank	AP014957	0.0	AP014957.1 Oryza sativa Japonica Group DNA, chromosome 1, cultivar: Nipponbare, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015648006.1	1e-173	protein LATERAL ORGAN BOUNDARIES
Refseq	XP_025878847.1	1e-173	protein LATERAL ORGAN BOUNDARIES
Swissprot	Q9FML4	4e-67	LOB_ARATH; Protein LATERAL ORGAN BOUNDARIES
TrEMBL	I1NKL9	0.0	I1NKL9_ORYGL; Uncharacterized protein
STRING	ORGLA01G0040900.1	0.0	(Oryza glaberrima)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP8813	35	45

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63090.4	1e-67	LBD family protein

Publications ? help Back to Top
Xu C, et al. Control of auxin-induced callus formation by bZIP59-LBD complex in Arabidopsis regeneration. Nat Plants, 2018. 4(2): p. 108-115 [PMID:29358751] Liu J, et al. The WOX11-LBD16 Pathway Promotes Pluripotency Acquisition in Callus Cells During De Novo Shoot Regeneration in Tissue Culture. Plant Cell Physiol., 2018. 59(4): p. 734-743 [PMID:29361138]