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

Csa00780s040.1

Organism

Camelina sativa

Taxonomic ID

90675

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 188aa MW: 19807.6 Da PI: 6.5035

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa00780s040.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	84.3	1.8e-26	3	75	28	100
DUF260 28 kkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallkee 100 ++fa+vhk+FGasnv+kll ++pe++r+da+ s+++eA+ar+rdP+yG+v++i +lqqq+ +l++el++l+++ Csa00780s040.1 3 AHFAAVHKVFGASNVSKLLLHIPEHKRPDAVVSICFEAQARLRDPIYGCVAHIVSLQQQVVSLQTELSYLQAH 75 79******************************************************************99986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	14.481	1	76	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.5E-24	2	73	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 188 aa Download sequence Send to blast
GAAHFAAVHK VFGASNVSKL LLHIPEHKRP DAVVSICFEA QARLRDPIYG CVAHIVSLQQ 60 QVVSLQTELS YLQAHLATLE LPQPQPPMAP VSSSGSLQAL SITDLPTISP SLYDLSSFFE 120 PVMSSTWAMQ QQTRPSDHVF GVPSSSSIIG GGGEIQALAP EFIHGGQMPA QPSLGTSGSA 180 STVIKRE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-21	5	70	40	105	LOB family transfactor Ramosa2.1
5ly0_B	2e-21	5	70	40	105	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	Csa00780s040.1

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_010456310.1	1e-117	PREDICTED: LOB domain-containing protein 30-like
Swissprot	O81323	1e-109	LBD30_ARATH; LOB domain-containing protein 30
TrEMBL	D7M5R6	1e-107	D7M5R6_ARALL; LOB domain protein 30
STRING	XP_010496906.1	1e-131	(Camelina sativa)

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-92	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]