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

Csa13g057190.1

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: 226aa MW: 23656.9 Da PI: 6.9311

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Csa13g057190.1	genome	CSGP	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	128.5	3e-40	16	116	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeq.pkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +C aCk+lrrkC+++C++apyf eq +++fa+vhk+FGasnv+kll ++pe++r+da+ s+++eA+ar+rdP+yG+v++i +lqqq+ +l++el Csa13g057190.1 16 PCGACKFLRRKCVAGCIFAPYFDFEQgAAHFAAVHKVFGASNVSKLLLHIPEHKRPDAVVSICFEAQARLRDPIYGCVSHIVSLQQQVVSLQTEL 110 7*******************999989***************************************************************** PP DUF260 95 allkee 100 ++l+++ Csa13g057190.1 111 SYLQAH 116 *99986 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.263	15	117	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.4E-38	16	114	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 226 aa Download sequence Send to blast
MSSSGNPSSS GGGGGPCGAC KFLRRKCVAG CIFAPYFDFE QGAAHFAAVH KVFGASNVSK 60 LLLHIPEHKR PDAVVSICFE AQARLRDPIY GCVSHIVSLQ QQVVSLQTEL SYLQAHLATL 120 ELPQPMAPVS SSGSLQALSI TDLPTISPSL YDLSSFFEPV MSSTWAMQQQ PRPSDHVFGV 180 PSSSSIIGGG GEIQALAPEF IHGGQMPAQP SLGTSGSAST VIKRE*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-38	9	117	4	111	LOB family transfactor Ramosa2.1
5ly0_B	3e-38	9	117	4	111	LOB family transfactor Ramosa2.1
Search in ModeBase

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	Csa13g057190.1

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-163	PREDICTED: LOB domain-containing protein 30-like
Swissprot	O81323	1e-127	LBD30_ARATH; LOB domain-containing protein 30
TrEMBL	D7M5R6	1e-125	D7M5R6_ARALL; LOB domain protein 30
STRING	XP_010456310.1	1e-162	(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-107	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]