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

Araha.4235s0016.1.p

Organism

Arabidopsis halleri

Taxonomic ID

81970

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: 280aa MW: 31693.4 Da PI: 5.9441

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Araha.4235s0016.1.p	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	3.5e-40	45	144	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleql 90 aCaaCk++rrkCa+dC lapyfp++++++f n+hklFG+sn++k++k+l + e+++am++++++++ara+dPv G++g+i+klq q+e + Araha.4235s0016.1.p 45 ACAACKYQRRKCAPDCLLAPYFPHDRHRQFLNAHKLFGVSNITKIIKSLTPPEKDAAMHTIMFQSDARASDPVDGCYGIIRKLQYQIEYT 134 7*************************************************************************************** PP DUF260 91 kaelallkee 100 ++el+ + ++ Araha.4235s0016.1.p 135 RNELEIVLQQ 144 **998776 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.397	44	145	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	5.2E-37	45	141	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 280 aa Download sequence Send to blast
MVADEEQKGG LKTGKPSSVF PLHPKPTPLK PSSSTSNTNS STNQACAACK YQRRKCAPDC 60 LLAPYFPHDR HRQFLNAHKL FGVSNITKII KSLTPPEKDA AMHTIMFQSD ARASDPVDGC 120 YGIIRKLQYQ IEYTRNELEI VLQQLAMFRD RAHHHHQEPQ IQMQEPEDLS SFSSSCDLNN 180 NNSIPYSYAL NHIQEPNQQQ QQQYCSSGNN FNGLQEDMWC LQLQDSSTTV NMKAGFIDEC 240 EDVKPVEEVS SERQEFEPHE AFVEQRKLDL PSAQFIISS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-27	35	148	1	114	LOB family transfactor Ramosa2.1
5ly0_B	2e-27	35	148	1	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Araha.4235s0016.1.p

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_006298101.1	1e-180	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
Refseq	XP_023642605.1	1e-180	LOB domain-containing protein 22
Swissprot	Q9LRW1	1e-178	LBD22_ARATH; LOB domain-containing protein 22
TrEMBL	D7L292	1e-180	D7L292_ARALL; LOB domain family protein
TrEMBL	R0HMS1	1e-179	R0HMS1_9BRAS; Uncharacterized protein
STRING	Bostr.28625s0323.1.p	0.0	(Boechera stricta)

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-176	LOB domain-containing protein 22

Link Out ? help Back to Top
Phytozome	Araha.4235s0016.1.p

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]