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

478788

Common Name

ARALYDRAFT_478788

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: 270aa MW: 30626.2 Da PI: 6.2231

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
478788	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	128.4	3.2e-40	36	135	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallkee 100 aCaaCk++rrkCa+dC lapyfp++++++f n+hklFG+sn++k++k+l + e+++am++++++++ara+dPv G++g+i+klq q+e +++el+ + ++ 478788 36 ACAACKYQRRKCAPDCLLAPYFPHDRHRQFLNAHKLFGVSNITKIIKSLTPPEKDAAMHTIMFQSDARASDPVDGCYGIIRKLQYQIEYTRNELEIVLQQ 135 7*********************************************************************************************998776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.397	35	136	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.8E-37	36	132	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 270 aa Download sequence Send to blast
MPSGKPSSVF PLHPKPTPLK PSSSSTSNTN SSTNQACAAC KYQRRKCAPD CLLAPYFPHD 60 RHRQFLNAHK LFGVSNITKI IKSLTPPEKD AAMHTIMFQS DARASDPVDG CYGIIRKLQY 120 QIEYTRNELE IVLQQLAMFR DRAHHHHQEP QIQMQEPEDL SSFSSSCDIN NNNSIPYNYA 180 LNHIQEPNQQ QQQYCSSGNN FNGLQEDMWC LQLQDSSTTV NMKAGFIDEC EDVKPVEEVS 240 SERHEFEPHE AFVEQRKLDL PPAQFIISS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-27	29	139	4	114	LOB family transfactor Ramosa2.1
5ly0_B	2e-27	29	139	4	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	478788

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_002882855.1	0.0	LOB domain-containing protein 22
Refseq	XP_020885980.1	0.0	LOB domain-containing protein 22
Refseq	XP_020885981.1	0.0	LOB domain-containing protein 22
Swissprot	Q9LRW1	0.0	LBD22_ARATH; LOB domain-containing protein 22
TrEMBL	D7L292	0.0	D7L292_ARALL; LOB domain family protein
STRING	fgenesh2_kg.3__1489__AT3G13850.1	0.0	(Arabidopsis lyrata)

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-167	LOB domain-containing protein 22

Link Out ? help Back to Top
Phytozome	478788
Entrez Gene	9321059

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]