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

Sp_089690_nwmr.t1

Common Name

SOVF_089690

Organism

Spinacia oleracea

Taxonomic ID

3562

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Caryophyllales; Chenopodiaceae; Chenopodioideae; Anserineae; Spinacia

Family

LBD

Protein Properties

Length: 196aa MW: 21615.4 Da PI: 7.4194

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Sp_089690_nwmr.t1	genome	TBVR	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	143.6	5.9e-45	14	112	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlka 92 +CaaCk+lrrkC ++C++apyfp e+p+kfanvhk+FGasnv+kll++l +++reda++sl+yeAear+rdPvyG+vg i+ lq+q+++l++ Sp_089690_nwmr.t1 14 PCAACKFLRRKCMPGCIFAPYFPPEEPQKFANVHKIFGASNVTKLLNELLPHQREDAVNSLAYEAEARVRDPVYGCVGAISYLQRQVQKLQK 105 7***************************************************************************************** PP DUF260 93 elallke 99 el+++++ Sp_089690_nwmr.t1 106 ELDAANA 112 99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	27.975	13	114	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.4E-44	14	111	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: 196 aa Download sequence Send to blast
MASSSSSSSS YNSPCAACKF LRRKCMPGCI FAPYFPPEEP QKFANVHKIF GASNVTKLLN 60 ELLPHQREDA VNSLAYEAEA RVRDPVYGCV GAISYLQRQV QKLQKELDAA NADLLRYACH 120 EINSTTVAMQ GIGVVPPPPP PPPPRPPHEQ FGNYYHQPSS SDIMLQPSYP IIPWNVDMNV 180 VNQRGGGDNN NNQGNM

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-69	4	129	1	126	LOB family transfactor Ramosa2.1
5ly0_B	4e-69	4	129	1	126	LOB family transfactor Ramosa2.1
Search in ModeBase

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

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	AC140849	1e-53	AC140849.8 Medicago truncatula clone mth2-17f20, complete sequence.
GenBank	AC147877	1e-53	AC147877.10 Medicago truncatula clone mth2-9b13, complete sequence.
GenBank	CU234113	1e-53	CU234113.3 M.truncatula DNA sequence from clone MTH2-16M17 on chromosome 3, complete sequence.
GenBank	JN412594	1e-53	JN412594.2 Medicago truncatula LOB domain protein mRNA, complete cds.
GenBank	JQ653161	1e-53	JQ653161.1 Medicago truncatula elongated petiolule 1 (ELP1) gene, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_021860610.1	1e-145	protein LATERAL ORGAN BOUNDARIES isoform X1
Swissprot	Q9FML4	9e-74	LOB_ARATH; Protein LATERAL ORGAN BOUNDARIES
TrEMBL	A0A0K9RA28	1e-143	A0A0K9RA28_SPIOL; Uncharacterized protein
STRING	XP_010678837.1	2e-95	(Beta vulgaris)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63090.4	1e-73	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]