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

Carubv10014142m

Common Name

CARUB_v10014142mg

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: 335aa MW: 37867.4 Da PI: 6.6059

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Carubv10014142m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	128.3	3.4e-40	102	201	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 aCaaCk++rrkCa+dC lapyfp++++++f n+hklFG+sn++k++k+l + e+++am++++++++ara+dPv G++g+i+klq q+e +++el Carubv10014142m 102 ACAACKYQRRKCAPDCLLAPYFPHDRHRQFLNAHKLFGVSNITKIIKSLTPPEKDAAMHTIMFQSDARANDPVDGCYGIIRKLQYQIEYTRNEL 195 7********************************************************************************************* PP DUF260 95 allkee 100 + + ++ Carubv10014142m 196 EIVLQQ 201 998776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.454	101	202	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	5.5E-37	102	198	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 335 aa Download sequence Send to blast
MKIVSHHKSK KPEEENNGNF LMMSDEEEKA GLKTACLSSL ISLHSPAFPS HQEKTKEPNS 60 PNLSNKKMPS GKPSSAFPLH PKPTPLKPSS STSNTNNNTN QACAACKYQR RKCAPDCLLA 120 PYFPHDRHRQ FLNAHKLFGV SNITKIIKSL TPPEKDAAMH TIMFQSDARA NDPVDGCYGI 180 IRKLQYQIEY TRNELEIVLQ QLAMFRDRAH HHHQEPQIQI QEPEDLSSFS GSCDLNNNSS 240 IPYNYPLNHV QEPSQQQQYC SSGNNFSGLQ EDMWCLQLQD SSTTLNMKAG FIDECEDIKP 300 VEEVSSERHE FEPHEAFLEQ RKLDLPSSQF IISS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-26	95	205	4	114	LOB family transfactor Ramosa2.1
5ly0_B	1e-26	95	205	4	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Carubv10014142m

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	AC237328	0.0	AC237328.1 Arabidopsis lyrata clone JGIFAFI-41L7, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006298101.1	0.0	LOB domain-containing protein 22
Refseq	XP_023642605.1	0.0	LOB domain-containing protein 22
Swissprot	Q9LRW1	1e-178	LBD22_ARATH; LOB domain-containing protein 22
TrEMBL	R0HMS1	0.0	R0HMS1_9BRAS; Uncharacterized protein
STRING	XP_006298101.1	0.0	(Capsella rubella)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM6498	26	45

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G13850.1	1e-159	LOB domain-containing protein 22

Link Out ? help Back to Top
Phytozome	Carubv10014142m
Entrez Gene	17892540

Publications ? help Back to Top
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]