PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; Saxifragales; Crassulaceae; Kalanchoe

Family

LBD

Protein Properties

Length: 288aa MW: 29389.8 Da PI: 7.5885

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Kaladp0016s0160.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	127.5	6.4e-40	34	134	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleq 89 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+k+l+++p +r da+ +++yeA+ar+r+PvyG+v++i++lqqq+ + Kaladp0016s0160.1.p 34 PCGACKFLRRKCVEGCIFAPYFDSEQgSAHFAAVHKVFGASNVSKMLQHVPLPKRLDAVVTICYEAQARLRNPVYGCVAHIFALQQQVVN 123 7*********************9989********************************************************** PP DUF260 90 lkaelallkee 100 l+ e+++l+++ Kaladp0016s0160.1.p 124 LQGEISYLQAH 134 ****99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.093	33	135	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.3E-39	34	132	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0010089	Biological Process	xylem development
GO:0010199	Biological Process	organ boundary specification between lateral organs and the meristem
GO:0010311	Biological Process	lateral root formation
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 288 aa Download sequence Send to blast
MSSNPTIGCA PGGSSSGGGG GGGAGGGGGG GGGPCGACKF LRRKCVEGCI FAPYFDSEQG 60 SAHFAAVHKV FGASNVSKML QHVPLPKRLD AVVTICYEAQ ARLRNPVYGC VAHIFALQQQ 120 VVNLQGEISY LQAHLANLEL QTPPVQPPAP PPHNPLPHFS ISDLPTASAM PPTFDVSSLL 180 FDPVTQWPQL QPMHPQHHQQ ASDLNNPNTR DQYVTLAIPH PSSDGAQNLA PGGAAGTSGS 240 GGGDAQGLAR ELLLRHGSSY RASGASSSGA VHGSCSEAQR PSGGQPK*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-34	30	135	7	111	LOB family transfactor Ramosa2.1
5ly0_B	2e-34	30	135	7	111	LOB family transfactor Ramosa2.1
Search in ModeBase

Functional Description ? help Back to Top
Source	Description
UniProt	Involved in the positive regulation of tracheary element (TE) differentiation. Involved in a positive feedback loop that maintains or promotes NAC030/VND7 expression that regulates TE differentiation-related genes. {ECO:0000269\|PubMed:19088331}.
UniProt	Involved in the positive regulation of tracheary element (TE) differentiation. Involved in a positive feedback loop that maintains or promotes NAC030/VND7 expression that regulates TE differentiation-related genes (PubMed:19088331). Functions in the initiation and emergence of lateral roots, in conjunction with LBD16, downstream of ARF7 and ARF19 (PubMed:19717544, PubMed:23749813). Transcriptional activator that directly regulates EXPA14, a gene encoding a cell wall-loosening factor that promotes lateral root emergence. Activates EXPA14 by directly binding to a specific region of its promoter (PubMed:22974309). Transcriptional activator that directly regulates EXPA17, a gene encoding a cell wall-loosening factor that promotes lateral root emergence (PubMed:23872272). Acts downstream of the auxin influx carriers AUX1 and LAX1 in the regulation of lateral root initiation and development (PubMed:26059335). {ECO:0000269\|PubMed:19088331, ECO:0000269\|PubMed:19717544, ECO:0000269\|PubMed:22974309, ECO:0000269\|PubMed:23749813, ECO:0000269\|PubMed:23872272, ECO:0000269\|PubMed:26059335}.

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00314	DAP	Transfer from AT2G45420	Download

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By auxin. {ECO:0000269\|PubMed:15659631, ECO:0000269\|PubMed:19717544, ECO:0000269\|PubMed:23749813}.

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_012083561.1	8e-81	LOB domain-containing protein 18
Swissprot	O22131	1e-64	LBD18_ARATH; LOB domain-containing protein 18
Swissprot	O81323	8e-65	LBD30_ARATH; LOB domain-containing protein 30
TrEMBL	A0A067KAC7	2e-79	A0A067KAC7_JATCU; Uncharacterized protein
STRING	VIT_15s0048g00830.t01	7e-79	(Vitis vinifera)

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00220.1	4e-63	LBD family protein

Link Out ? help Back to Top
Phytozome	Kaladp0016s0160.1.p

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469] Lee HW, et al. Dimerization in LBD16 and LBD18 Transcription Factors Is Critical for Lateral Root Formation. Plant Physiol., 2017. 174(1): p. 301-311 [PMID:28336771] Rast-Somssich MI, et al. The Arabidopsis JAGGED LATERAL ORGANS (JLO) gene sensitizes plants to auxin. J. Exp. Bot., 2017. 68(11): p. 2741-2755 [PMID:28472464] Pandey SK,Kim J Coiled-coil motif in LBD16 and LBD18 transcription factors are critical for dimerization and biological function in arabidopsis. Plant Signal Behav, 2018. 13(1): p. e1411450 [PMID:29227192] Pandey SK, et al. LBD18 uses a dual mode of a positive feedback loop to regulate ARF expression and transcriptional activity in Arabidopsis. Plant J., 2018. 95(2): p. 233-251 [PMID:29681137] Liu C,Yu H,Li L SUMO modification of LBD30 by SIZ1 regulates secondary cell wall formation in Arabidopsis thaliana. PLoS Genet., 2019. 15(1): p. e1007928 [PMID:30657769] Lee HW, et al. LBD16 and LBD18 acting downstream of ARF7 and ARF19 are involved in adventitious root formation in Arabidopsis. BMC Plant Biol., 2019. 19(1): p. 46 [PMID:30704405]