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

Tp2g16780

Organism

Thellungiella parvula

Taxonomic ID

98039

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 132aa MW: 14661.5 Da PI: 7.7689

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Tp2g16780	genome	thellungiella	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	141.7	2.3e-44	12	110	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallke 99 +CaaCk+lrr+C++dCv+apyfp e+p kfanvh++FGasnv+k+l+++ +++reda++sl+yeAear++dPvyG+vg i+ lq+q+ +l+ el+++++ Tp2g16780 12 PCAACKFLRRRCTSDCVFAPYFPPEEPTKFANVHRIFGASNVSKILQEVAPHQREDAVNSLAYEAEARLKDPVYGCVGAISVLQRQVLRLQRELEETNA 110 7*********************************************************************************************99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	27.409	11	112	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.0E-44	12	109	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 132 aa Download sequence Send to blast
MASSYTNYTN SPCAACKFLR RRCTSDCVFA PYFPPEEPTK FANVHRIFGA SNVSKILQEV 60 APHQREDAVN SLAYEAEARL KDPVYGCVGA ISVLQRQVLR LQRELEETNA DLMRYASCLG 120 GETTSTYGGQ RG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-60	2	125	1	125	LOB family transfactor Ramosa2.1
5ly0_B	1e-60	2	125	1	125	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Tp2g16780

Annotation -- Nucleotide ? help Back to Top
Source	Hit ID	E-value	Description
GenBank	AB018114	1e-121	AB018114.1 Arabidopsis thaliana genomic DNA, chromosome 3, P1 clone: MGF10.
GenBank	AB164304	1e-121	AB164304.1 Arabidopsis thaliana ASL3 mRNA for ASYMMETRIC LEAVES2-like gene 3 protein, partial cds.
GenBank	AB473836	1e-121	AB473836.1 Arabidopsis thaliana ASL3 mRNA for ASYMMETRIC LEAVES2-like 3 protein, complete cds.
GenBank	AF447892	1e-121	AF447892.1 Arabidopsis thaliana LOB DOMAIN 25 (LBD25) mRNA, complete cds.
GenBank	CP002686	1e-121	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_006292048.2	4e-89	LOW QUALITY PROTEIN: LOB domain-containing protein 25, partial
Refseq	XP_010425543.1	3e-89	PREDICTED: LOB domain-containing protein 25
Refseq	XP_010502770.1	3e-89	PREDICTED: LOB domain-containing protein 25
Swissprot	Q8L8Q3	7e-89	LBD25_ARATH; LOB domain-containing protein 25
TrEMBL	R0FRU7	8e-88	R0FRU7_9BRAS; Uncharacterized protein
STRING	Cagra.5575s0004.1.p	1e-88	(Capsella grandiflora)
STRING	XP_006292048.1	1e-88	(Capsella rubella)
STRING	XP_010425543.1	1e-88	(Camelina sativa)
STRING	XP_010502770.1	1e-88	(Camelina sativa)

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	1e-77	LOB domain-containing protein 25

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]