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

Carubv10024002m

Common Name

CARUB_v10024002mg

Organism

Capsella rubella

Taxonomic ID

81985

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: 227aa MW: 24838.2 Da PI: 8.7997

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10024002m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	133.7	7.4e-42	45	144	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +CaaCk+lrr+Ca++C+++pyf ++p+kfa vhk+FGasnv+k+l ++pe++r da++slvyeA++r+rdPvyG++g i++lqqq++ l+ael Carubv10024002m 45 PCAACKLLRRRCAQECPFSPYFSPHEPHKFASVHKVFGASNVSKMLMEVPESQRADAANSLVYEANVRLRDPVYGCMGAISALQQQVQALQAEL 138 7********************************************************************************************* PP DUF260 95 allkee 100 ++++e Carubv10024002m 139 TAVRSE 144 *99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.907	44	145	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.9E-42	45	142	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: 227 aa Download sequence Send to blast
MSRERERFEE IGKKIKRETD AWPHHMSGIR RPMSGPPGTL NTITPCAACK LLRRRCAQEC 60 PFSPYFSPHE PHKFASVHKV FGASNVSKML MEVPESQRAD AANSLVYEAN VRLRDPVYGC 120 MGAISALQQQ VQALQAELTA VRSEILKYKQ REAVATLIVP SNSQVAGYHN SGGVSVIAPP 180 PQRPSTPPQP TAAHPPPPPS SCVFSQPTTR ALEYGDIESE NNSYFG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	6e-44	37	148	3	114	LOB family transfactor Ramosa2.1
5ly0_B	6e-44	37	148	3	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10024002m

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-168	LOB domain-containing protein 15 isoform X1
Swissprot	Q8L5T5	1e-132	LBD15_ARATH; LOB domain-containing protein 15
TrEMBL	R0FYJ1	1e-167	R0FYJ1_9BRAS; Uncharacterized protein
STRING	XP_006294938.1	1e-167	(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-125	LOB domain-containing protein 15

Link Out ? help Back to Top
Phytozome	Carubv10024002m
Entrez Gene	17889017

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]