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

484553

Common Name

ARALYDRAFT_484553

Organism

Arabidopsis lyrata

Taxonomic ID

81972

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 158aa MW: 17596 Da PI: 8.8082

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
484553	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	140.6	5e-44	37	135	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallke 99 +CaaCk+lrrkC++dCv+apyfp e+p kfanvh++FGasnv+k+l+++ +++reda++sl+yeAear++dPvyG+vg i+ lq+q+ +l+ el+++++ 484553 37 PCAACKFLRRKCTSDCVFAPYFPPEEPTKFANVHRIFGASNVSKILHEVAPHQREDAVNSLAYEAEARLNDPVYGCVGAISVLQRQVLRLQRELEETNA 135 7*********************************************************************************************99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	27.21	36	137	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.8E-43	37	134	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 158 aa Download sequence Send to blast
RETRSNLFKK LSSRGPFLVT PFKGDIQEKM SNYTNSPCAA CKFLRRKCTS DCVFAPYFPP 60 EEPTKFANVH RIFGASNVSK ILHEVAPHQR EDAVNSLAYE AEARLNDPVY GCVGAISVLQ 120 RQVLRLQREL EETNADLMRY ASCLGSETTS AYGGRRG*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	7e-59	34	141	8	115	LOB family transfactor Ramosa2.1
5ly0_B	7e-59	34	141	8	115	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	484553

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	AC237336	0.0	AC237336.1 Arabidopsis lyrata clone JGIFAFI-69G3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006292048.2	7e-95	LOW QUALITY PROTEIN: LOB domain-containing protein 25, partial
Swissprot	Q8L8Q3	1e-92	LBD25_ARATH; LOB domain-containing protein 25
TrEMBL	D7LPI9	1e-113	D7LPI9_ARALL; LOB domain-containing protein 25 (Fragment)
STRING	fgenesh2_kg.5__545__AT3G27650.1	1e-114	(Arabidopsis lyrata)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM131	28	340

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT3G27650.1	2e-81	LOB domain-containing protein 25

Link Out ? help Back to Top
Phytozome	484553
Entrez Gene	9311462

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]