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

Vradi05g04520.1

Organism

Vigna radiata

Taxonomic ID

157791

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; fabids; Fabales; Fabaceae; Papilionoideae; Phaseoleae; Vigna

Family

LBD

Protein Properties

Length: 160aa MW: 17667.1 Da PI: 7.3378

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Vradi05g04520.1	genome	SNU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	143	9.4e-45	10	108	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +CaaCk+lrrkC ++C++apyfp e+p+kfanvhk+FGasnv+kll++l +++reda++sl+yeAear+rdPvyG+vg i+ lq+q+++l++el Vradi05g04520.1 10 PCAACKFLRRKCLSGCIFAPYFPPEEPQKFANVHKIFGASNVTKLLNELLPHQREDAVNSLAYEAEARVRDPVYGCVGAISFLQRQVQRLQKEL 103 7********************************************************************************************* PP DUF260 95 allke 99 +++++ Vradi05g04520.1 104 DSANA 108 99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	27.616	9	110	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.0E-43	10	107	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: 160 aa Download sequence Send to blast
MASSSSYNSP CAACKFLRRK CLSGCIFAPY FPPEEPQKFA NVHKIFGASN VTKLLNELLP 60 HQREDAVNSL AYEAEARVRD PVYGCVGAIS FLQRQVQRLQ KELDSANADL LRYAYNDMPS 120 PSLSVPPAMT AATTIQQMPQ RSFNASEHAE LTFSVIVYD*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-68	3	126	4	127	LOB family transfactor Ramosa2.1
5ly0_B	4e-68	3	126	4	127	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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Vradi05g04520.1

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	AP015035	0.0	AP015035.1 Vigna angularis var. angularis DNA, chromosome 2, almost complete sequence, cultivar: Shumari.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_014501082.2	1e-104	LOB domain-containing protein 25-like isoform X2
Refseq	XP_022636285.1	1e-104	LOB domain-containing protein 25-like isoform X1
Refseq	XP_022636286.1	1e-104	LOB domain-containing protein 25-like isoform X1
Swissprot	Q9FML4	5e-73	LOB_ARATH; Protein LATERAL ORGAN BOUNDARIES
TrEMBL	A0A1S3U4Y8	1e-102	A0A1S3U4Y8_VIGRR; LOB domain-containing protein 25-like isoform X2
TrEMBL	A0A3Q0EYQ0	1e-102	A0A3Q0EYQ0_VIGRR; LOB domain-containing protein 25-like isoform X1
STRING	XP_007138029.1	1e-97	(Phaseolus vulgaris)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Fabids	OGEF1091	34	112

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G63090.4	2e-75	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]