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

Csa08g001290.1

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: 192aa MW: 20047.8 Da PI: 7.8593

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa08g001290.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	121	6.5e-38	16	103	1	87
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqql 87 +C aCk+lrrkC+++C++apyf +eq +++fa+vhk+FGasnv+kll ++pe++r+da+ s+++eA+ar+rdP+yG+v++i +lqqq Csa08g001290.1 16 PCGACKFLRRKCVAGCIFAPYFDSEQgAAHFAAVHKVFGASNVSKLLLHIPEHKRPDAVVSICFEAQARLRDPIYGCVSHIVSLQQQA 103 7*********************9989********************************************************97 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	21.658	15	116	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.3E-36	16	103	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 192 aa Download sequence Send to blast
MSSSGNPSSS GGGGGPCGAC KFLRRKCVAG CIFAPYFDSE QGAAHFAAVH KVFGASNVSK 60 LLLHIPEHKR PDAVVSICFE AQARLRDPIY GCVSHIVSLQ QQALSITDLP TISPSLYDLS 120 SFFEPVMSST WAMQQQPRPS DHVFGVPSSS SIIGGGGELQ ALAREFIHGG QMPAQPSLGT 180 GGSASTVIKR E*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	6e-36	9	102	4	96	LOB family transfactor Ramosa2.1
5ly0_B	6e-36	9	102	4	96	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	Csa08g001290.1

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	1e-129	AB473852.1 Arabidopsis thaliana ASL19 mRNA for ASYMMETRIC LEAVES2-like 19 protein, complete cds.
GenBank	AF432232	1e-129	AF432232.1 Arabidopsis thaliana LOB DOMAIN 30 (LBD30) mRNA, complete cds.
GenBank	AL161471	1e-129	AL161471.2 Arabidopsis thaliana DNA chromosome 4, contig fragment No. 1.
GenBank	BT026407	1e-129	BT026407.1 Arabidopsis thaliana At4g00220 mRNA, complete cds.
GenBank	CP002687	1e-129	CP002687.1 Arabidopsis thaliana chromosome 4 sequence.
GenBank	DQ446787	1e-129	DQ446787.1 Arabidopsis thaliana clone pENTR221-At4g00220 LOB domain protein 30/lateral organ boundaries domain protein 30 (At4g00220) mRNA, complete cds.
GenBank	DQ653168	1e-129	DQ653168.1 Arabidopsis thaliana clone 0000017076_0000011970 unknown mRNA.
GenBank	F6N15	1e-129	AF069299.1 Arabidopsis thaliana BAC F6N15.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_010424034.1	1e-138	PREDICTED: LOB domain-containing protein 30-like
Swissprot	O81323	1e-108	LBD30_ARATH; LOB domain-containing protein 30
TrEMBL	D7M5R6	1e-106	D7M5R6_ARALL; LOB domain protein 30
STRING	XP_010424034.1	1e-137	(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	1e-104	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]