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

Cagra.1642s0010.1.p

Organism

Capsella grandiflora

Taxonomic ID

264402

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 202aa MW: 21689.7 Da PI: 8.5875

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Cagra.1642s0010.1.p	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	134.1	5.5e-42	20	119	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 +CaaCk+lrr+Ca++C+++pyf ++p+kfa vhk+FGasnv+k+l ++pe++r da++slvyeA++r+rdPvyG++g i++lqqq++ l Cagra.1642s0010.1.p 20 PCAACKLLRRRCAQECPFSPYFSPHEPHKFASVHKVFGASNVSKMLMEVPESQRADAANSLVYEANVRLRDPVYGCMGAISALQQQVQAL 109 7*************************************************************************************** PP DUF260 91 kaelallkee 100 +ael ++++e Cagra.1642s0010.1.p 110 QAELTAVRSE 119 ***99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.907	19	120	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.6E-42	20	117	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0005634	Cellular Component	nucleus

Sequence ? help Back to Top
Protein Sequence Length: 202 aa Download sequence Send to blast
MSGIRRPMSG PPGTLNTITP CAACKLLRRR CAQECPFSPY FSPHEPHKFA SVHKVFGASN 60 VSKMLMEVPE SQRADAANSL VYEANVRLRD PVYGCMGAIS ALQQQVQALQ AELTAVRSEI 120 LKYKQREAVA TLIVPSNSQV AGYHNSGGVS VIAPPPQRPS TPPQPTAAHP PPPPSSCVFS 180 QPTTRALEYG DIESENNSYF G*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-44	12	123	3	114	LOB family transfactor Ramosa2.1
5ly0_B	2e-44	12	123	3	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Cagra.1642s0010.1.p

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	AB473844	0.0	AB473844.1 Arabidopsis thaliana ASL11 mRNA for ASYMMETRIC LEAVES2-like 11 protein, complete cds.
GenBank	BT025288	0.0	BT025288.1 Arabidopsis thaliana At2g40470 mRNA, complete cds.
GenBank	DQ446613	0.0	DQ446613.1 Arabidopsis thaliana clone pENTR221-At2g40470 LOB domain protein 15/lateral organ boundaries domain protein 15 (At2g40470) mRNA, complete cds.
GenBank	DQ653051	0.0	DQ653051.1 Arabidopsis thaliana clone 0000012791_0000009246 unknown mRNA.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006294938.1	1e-146	LOB domain-containing protein 15 isoform X1
Refseq	XP_023640895.1	1e-146	LOB domain-containing protein 15 isoform X2
Swissprot	Q8L5T5	1e-113	LBD15_ARATH; LOB domain-containing protein 15
TrEMBL	R0FYJ1	1e-145	R0FYJ1_9BRAS; Uncharacterized protein
STRING	Cagra.1642s0010.1.p	1e-146	(Capsella grandiflora)
STRING	XP_006294938.1	1e-146	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1927	27	81

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G40470.1	1e-106	LOB domain-containing protein 15

Link Out ? help Back to Top
Phytozome	Cagra.1642s0010.1.p

Publications ? help Back to Top
Ohashi-Ito K,Iwamoto K,Fukuda H LOB DOMAIN-CONTAINING PROTEIN 15 Positively Regulates Expression of VND7, a Master Regulator of Tracheary Elements. Plant Cell Physiol., 2018. 59(5): p. 989-996 [PMID:29444288]