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

676743464

Organism

Sisymbrium irio

Taxonomic ID

3730

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 251aa MW: 26847.8 Da PI: 8.6917

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
676743464	genome	VEGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	132.4	1.8e-41	45	145	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallke 99 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll+++pe++r+da+ s+++eA+ar+rdP+yG+v++i +lqqq+ +l++el+++++ 676743464 45 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLHHVPEHKRPDAVVSICFEAQARLRDPIYGCVSHIVSLQQQVVSLQTELSYVQA 144 7*********************9989*******************************************************************998 PP DUF260 100 e 100 + 676743464 145 H 145 6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.754	44	146	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.0E-39	45	143	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: 251 aa Download sequence Send to blast
MKKLRDMECF ASRKELNTRQ KKVTVWKMSS SGSPSSSGGG GGGGPCGACK FLRRKCVAGC 60 IFAPYFDSEQ GAAHFAAVHK VFGASNVSKL LHHVPEHKRP DAVVSICFEA QARLRDPIYG 120 CVSHIVSLQQ QVVSLQTELS YVQAHLATLE LPQPPPAPVT SSGSPPPLSI SDLPTITPSM 180 YDLSPIFEPM SSTWVMQQQP RPSDHLFGVP SSSSMGGGGE LQALAREFLQ MPPHQPPAGT 240 GASAPTVIKR E

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	5e-38	41	146	7	111	LOB family transfactor Ramosa2.1
5ly0_B	5e-38	41	146	7	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	676743464

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.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018454999.1	1e-131	PREDICTED: LOB domain-containing protein 30
Swissprot	O81323	1e-116	LBD30_ARATH; LOB domain-containing protein 30
TrEMBL	A0A397XZA8	1e-130	A0A397XZA8_BRACM; Uncharacterized protein
TrEMBL	M4F8B1	1e-130	M4F8B1_BRARP; Uncharacterized protein
STRING	Bra037323.1-P	1e-130	(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	2e-96	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]