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

481945

Common Name

ARALYDRAFT_481945

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: 271aa MW: 29342 Da PI: 8.1568

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
481945	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	125.2	3.2e-39	52	150	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallke 99 +CaaCk+lrr+Ca++C+++pyf ++p+kfa+vhk+FGasnv+k+l ++ e++r da++slvyeA+ r+rdP+yG++g i++lq+++++l++el ++++ 481945 52 PCAACKLLRRRCAEECPFSPYFSPHEPHKFAAVHKVFGASNVSKMLLEVGESQRGDAANSLVYEANLRLRDPIYGCMGAISALQHHIQSLQSELTAVRT 150 7*********************************************************************************************99886 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.142	51	152	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.4E-40	52	149	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0016020	Cellular Component	membrane

Sequence ? help Back to Top
Protein Sequence Length: 271 aa Download sequence Send to blast
MSREREGFGE YYEIVKKIKK DPTFESTTDH AVMGIRRHVA VPPGTTLNTV TPCAACKLLR 60 RRCAEECPFS PYFSPHEPHK FAAVHKVFGA SNVSKMLLEV GESQRGDAAN SLVYEANLRL 120 RDPIYGCMGA ISALQHHIQS LQSELTAVRT DILRHKYREA TTITSLQNNN NFHNTTTTSS 180 VSCDHHDLGA AILLPPPPPP PPPPRPPRLL SSQPAPPPTP PASLPSPSMV VSSSSSSNSS 240 ATNSMYNPPP SSAAGYSNSL SSDNNVHYFD *

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	9e-41	45	163	4	122	LOB family transfactor Ramosa2.1
5ly0_B	9e-41	45	163	4	122	LOB family transfactor Ramosa2.1
Search in ModeBase

Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00283	DAP	Transfer from AT2G30340	Download

Cis-element ? help Back to Top
Source	Link
PlantRegMap	481945

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB473843	0.0	AB473843.1 Arabidopsis thaliana ASL10 mRNA for ASYMMETRIC LEAVES2-like 10 protein, complete cds.
GenBank	AF447888	0.0	AF447888.1 Arabidopsis thaliana LOB DOMAIN 13 (LBD13) mRNA, complete cds.
GenBank	BT026052	0.0	BT026052.1 Arabidopsis thaliana At2g30340 mRNA, complete cds.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_002881102.1	0.0	LOB domain-containing protein 13 isoform X2
Swissprot	Q9AT61	1e-139	LBD13_ARATH; LOB domain-containing protein 13
TrEMBL	D7LBM7	0.0	D7LBM7_ARALL; Uncharacterized protein
STRING	fgenesh2_kg.4__1005__AT2G30340.1	0.0	(Arabidopsis lyrata)

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
AT2G30340.1	1e-121	LOB domain-containing protein 13

Link Out ? help Back to Top
Phytozome	481945
Entrez Gene	9317169

Publications ? help Back to Top
Cho C,Jeon E,Pandey SK,Ha SH,Kim J LBD13 positively regulates lateral root formation in Arabidopsis. Planta, 2019. 249(4): p. 1251-1258 [PMID:30627888]