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

ORGLA03G0100400.1

Organism

Oryza glaberrima

Taxonomic ID

4538

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; Liliopsida; Petrosaviidae; commelinids; Poales; Poaceae; BOP clade; Oryzoideae; Oryzeae; Oryzinae; Oryza

Family

LBD

Protein Properties

Length: 273aa MW: 28147.7 Da PI: 8.1928

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
ORGLA03G0100400.1	genome	AGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	130.2	8.7e-41	35	135	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlk 91 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll ++p ++r+da+ +++yeA+ar+rdPvyG+v++i++lqqq+ +l+ ORGLA03G0100400.1 35 PCGACKFLRRKCVSGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLLQIPAHKRPDAVVTICYEAQARLRDPVYGCVAHIFALQQQVVNLQ 126 7*********************9989************************************************************ PP DUF260 92 aelallkee 100 ael +l+++ ORGLA03G0100400.1 127 AELTYLQAH 135 **99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PIRSF	PIRSF038127	1.5E-131	1	273	IPR017394	LOB domain-containing protein 18/20
PROSITE profile	PS50891	23.348	34	136	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	5.1E-40	35	133	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: 273 aa Download sequence Send to blast
MSSGGGASSA LGGGGGGSGG GGGGPSGGGG GGGGPCGACK FLRRKCVSGC IFAPYFDSEQ 60 GAAHFAAVHK VFGASNVSKL LLQIPAHKRP DAVVTICYEA QARLRDPVYG CVAHIFALQQ 120 QVVNLQAELT YLQAHLATLE LPSPPPLMPA PPQMPMPAPF SISDLPSSTS VPTTVDLSAL 180 FDPPPQPQWA SPLQQQHHHH HQHHHHQQQQ HQLRQPSYAT LARAPSGMTA AAESSGGGGG 240 GGGGDLQALA RELLDRHRSA VKLEQPPPPH SRS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-37	31	129	7	104	LOB family transfactor Ramosa2.1
5ly0_B	1e-37	31	129	7	104	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}.

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

Cis-element ? help Back to Top
Source	Link
PlantRegMap	ORGLA03G0100400.1

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	AC118672	0.0	AC118672.3 Genomic sequence for Oryza sativa, Nipponbare strain, clone OSJNBb0078P24, from chromosome 3, complete sequence.
GenBank	AP014959	0.0	AP014959.1 Oryza sativa Japonica Group DNA, chromosome 3, cultivar: Nipponbare, complete sequence.
GenBank	CP012611	0.0	CP012611.1 Oryza sativa Indica Group cultivar RP Bio-226 chromosome 3 sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_015629413.1	1e-123	LOB domain-containing protein 30
Swissprot	O81323	5e-70	LBD30_ARATH; LOB domain-containing protein 30
TrEMBL	A0A0D3FG68	0.0	A0A0D3FG68_9ORYZ; Uncharacterized protein
TrEMBL	I1P9F8	0.0	I1P9F8_ORYGL; Uncharacterized protein
STRING	ORGLA03G0100400.1	0.0	(Oryza glaberrima)
STRING	OBART03G10450.1	0.0	(Oryza barthii)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Monocots	OGMP3346	37	82

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT4G00220.1	3e-70	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]