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

490546

Common Name

ARALYDRAFT_490546

Organism

Arabidopsis lyrata

Taxonomic ID

81972

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 227aa MW: 23782.9 Da PI: 7.2029

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
490546	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	133.1	1.1e-41	15	115	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallkee 100 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll+++pe++r+da+ s+++eA+ar+rdP+yG+v++i +lqqq+ +l++el++l+++ 490546 15 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLQHVPEHKRPDAVVSICFEAQARLRDPIYGCVSHIVSLQQQVVSLQTELSYLQAH 115 7*********************9989******************************************************************99986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.82	14	116	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.1E-40	15	113	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: 227 aa Download sequence Send to blast
MSSSGNPSSS GGGGPCGACK FLRRKCVAGC IFAPYFDSEQ GAAHFAAVHK VFGASNVSKL 60 LQHVPEHKRP DAVVSICFEA QARLRDPIYG CVSHIVSLQQ QVVSLQTELS YLQAHLATLE 120 LPQPQPPQVP VSSSGSLQAL SITDLPSISP SVYDLSSIFE PVMSSTWAMQ QQPRPSDHLF 180 GVPSSSNIGG GGELQALARE FIHGGQMPAQ PSPGTSGSGS TVIKRE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-39	7	116	3	111	LOB family transfactor Ramosa2.1
5ly0_B	1e-39	7	116	3	111	LOB family transfactor Ramosa2.1
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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	490546

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_020879138.1	1e-163	LOB domain-containing protein 30
Swissprot	O81323	1e-137	LBD30_ARATH; LOB domain-containing protein 30
TrEMBL	D7M5R6	1e-162	D7M5R6_ARALL; LOB domain protein 30
STRING	fgenesh2_kg.6__3680__AT4G00220.1	1e-163	(Arabidopsis lyrata)

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-115	LBD family protein

Link Out ? help Back to Top
Phytozome	490546
Entrez Gene	9309031

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]