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

Carubv10025704m

Common Name

CARUB_v10025704mg

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: 310aa MW: 34369.7 Da PI: 4.4485

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10025704m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	137.5	4.6e-43	5	104	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +CaaCk+lrrkC+++Cv+apyfp ++p+kf +vhk+FGasnv+k+l++lp+++re++++sl+yeAear+rdP+yG+vg+i+ lqq l++++++l Carubv10025704m 5 PCAACKLLRRKCTQECVFAPYFPPTNPQKFICVHKVFGASNVTKILNDLPPDQREETVNSLFYEAEARIRDPIYGCVGLISFLQQYLKKVQQDL 98 7********************************************************************************************* PP DUF260 95 allkee 100 +++kee Carubv10025704m 99 VTAKEE 104 *99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PIRSF	PIRSF038155	7.6E-111	2	307	IPR017414	LOB domain-containing protein 10/36/41
PROSITE profile	PS50891	27.201	4	105	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.2E-41	5	102	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 310 aa Download sequence Send to blast
MASTPCAACK LLRRKCTQEC VFAPYFPPTN PQKFICVHKV FGASNVTKIL NDLPPDQREE 60 TVNSLFYEAE ARIRDPIYGC VGLISFLQQY LKKVQQDLVT AKEELVGYMG PDAVIPPPYL 120 PPLGNNPPPN FMMSMDGMPP GVIPHGEPLM IREPNLSQQH QPQDDQLQYI ASDAQRMAAM 180 IMDRGDQQGI FNGYGIDNNG SVTATGYNQM DVNHDHGAGG SLSGPSLALG NFADPYQMGQ 240 ETEHGHINHD QLQTQLMLQP PLQEGQEQTE EAQFLMQPMG QENLHEEEGE AELEPPVKWR 300 KSESKEASY*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	9e-46	2	108	8	114	LOB family transfactor Ramosa2.1
5ly0_B	9e-46	2	108	8	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10025704m

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	AB473835	0.0	AB473835.1 Arabidopsis thaliana ASL2 mRNA for ASYMMETRIC LEAVES2-like 2 protein, complete cds.
GenBank	AC003040	0.0	AC003040.3 Arabidopsis thaliana chromosome 2 clone F26B6 map CIC06C07, complete sequence.
GenBank	AC004482	0.0	AC004482.3 Arabidopsis thaliana chromosome 2 clone F27L4 map CIC06C07, complete sequence.
GenBank	CP002685	0.0	CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006296515.1	0.0	LOB domain-containing protein 10
Swissprot	O64836	0.0	LBD10_ARATH; LOB domain-containing protein 10
TrEMBL	R0HZB7	0.0	R0HZB7_9BRAS; Uncharacterized protein
STRING	XP_006296515.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM14908	17	20

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G23660.2	1e-156	LOB domain-containing protein 10

Link Out ? help Back to Top
Phytozome	Carubv10025704m
Entrez Gene	17890056

Publications ? help Back to Top
Kim MJ,Kim M,Kim J Combinatorial interactions between LBD10 and LBD27 are essential for male gametophyte development in Arabidopsis. Plant Signal Behav, 2015. 10(8): p. e1044193 [PMID:26252070] Kim M,Kim MJ,Pandey S,Kim J Expression and Protein Interaction Analyses Reveal Combinatorial Interactions of LBD Transcription Factors During Arabidopsis Pollen Development. Plant Cell Physiol., 2016. 57(11): p. 2291-2299 [PMID:27519310]