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

Tp6g00280

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 229aa MW: 23956.1 Da PI: 7.8945

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp6g00280	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	129.7	1.3e-40	18	118	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallke 99 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+k+l+++pe++r da+ s+++eA+ar+rdP+yG+v++i +lqqq+ +l++el+++++ Tp6g00280 18 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKVLHHVPEHKRADAVVSMCFEAQARLRDPIYGCVSHIVSLQQQVVSLQTELSYVQA 117 7*********************9989*******************************************************************998 PP DUF260 100 e 100 + Tp6g00280 118 H 118 6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.348	17	119	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.5E-39	18	116	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

Sequence ? help Back to Top
Protein Sequence Length: 229 aa Download sequence Send to blast
MSSSGSPSSS GGGGGGGPCG ACKFLRRKCV AGCIFAPYFD SEQGAAHFAA VHKVFGASNV 60 SKVLHHVPEH KRADAVVSMC FEAQARLRDP IYGCVSHIVS LQQQVVSLQT ELSYVQAHLA 120 TLELPQPPPA APVTSSGSPP PLSISDLPTL TPSMYDLSPI FEPMSSTWAM QQQPRPSSDH 180 LFGVPSSSSI GGGGELQALA REFLHGGQMP AHQPPRGTGG SARTVIKRE

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	7e-39	14	136	7	131	LOB family transfactor Ramosa2.1
5ly0_B	7e-39	14	136	7	131	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}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp6g00280

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

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB473852	0.0	AB473852.1 Arabidopsis thaliana ASL19 mRNA for ASYMMETRIC LEAVES2-like 19 protein, complete cds.
GenBank	AF432232	0.0	AF432232.1 Arabidopsis thaliana LOB DOMAIN 30 (LBD30) mRNA, complete cds.
GenBank	BT026407	0.0	BT026407.1 Arabidopsis thaliana At4g00220 mRNA, complete cds.
GenBank	DQ446787	0.0	DQ446787.1 Arabidopsis thaliana clone pENTR221-At4g00220 LOB domain protein 30/lateral organ boundaries domain protein 30 (At4g00220) mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018454999.1	1e-134	PREDICTED: LOB domain-containing protein 30
Swissprot	O81323	1e-118	LBD30_ARATH; LOB domain-containing protein 30
TrEMBL	A0A397XZA8	1e-132	A0A397XZA8_BRACM; Uncharacterized protein
TrEMBL	M4F8B1	1e-132	M4F8B1_BRARP; Uncharacterized protein
STRING	Bra037323.1-P	1e-132	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM108	28	359

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00220.1	1e-98	LBD family protein

Publications ? help Back to Top
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] 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]