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

Carubv10028397m

Common Name

CARUB_v10028397mg

Organism

Capsella rubella

Taxonomic ID

81985

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Capsella

Family

LBD

Protein Properties

Length: 191aa MW: 20787.4 Da PI: 8.2137

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10028397m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	142.1	1.7e-44	11	109	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 Carubv10028397m 11 PCAACKFLRRKCMPGCIFAPYFPPEEPHKFANVHKIFGASNVTKLLNELFPHQREDAVNSLAYEAEARVRDPVYGCVGAISYLQRQVHRLQKEL 104 7********************************************************************************************* PP DUF260 95 allke 99 +++++ Carubv10028397m 105 DAANA 109 99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	28.136	10	111	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	8.6E-44	11	108	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: 191 aa Download sequence Send to blast
MASSSNSYNS PCAACKFLRR KCMPGCIFAP YFPPEEPHKF ANVHKIFGAS NVTKLLNELF 60 PHQREDAVNS LAYEAEARVR DPVYGCVGAI SYLQRQVHRL QKELDAANAD LAHYGLSTSA 120 AGTPGNVVDL VFQPQPLQST QQQPPPLNPV YRLSGANPVM TQLPRGTGGS YGTFLPWNNG 180 HDQQQQGGNM *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	5e-65	2	115	2	115	LOB family transfactor Ramosa2.1
5ly0_B	5e-65	2	115	2	115	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	Carubv10028397m

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	AC254606	0.0	AC254606.1 Capsella rubella clone CAP16-M12, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006282142.1	1e-141	protein LATERAL ORGAN BOUNDARIES
Swissprot	Q9FML4	1e-129	LOB_ARATH; Protein LATERAL ORGAN BOUNDARIES
TrEMBL	R0GRT8	1e-140	R0GRT8_9BRAS; Uncharacterized protein
STRING	XP_006282142.1	1e-140	(Capsella rubella)

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
AT5G63090.4	1e-112	LBD family protein

Link Out ? help Back to Top
Phytozome	Carubv10028397m
Entrez Gene	17875417

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]