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

Thhalv10005120m

Common Name

EUTSA_v10005120mg

Organism

Eutrema salsugineum

Taxonomic ID

72664

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 133aa MW: 14743.6 Da PI: 8.1128

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
Thhalv10005120m	genome	JGI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	141	3.8e-44	12	110	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkael 94 +CaaCk+lrrkC+++Cv+apyfp e+p kfanvh++FGasnv+k+l+++ +++reda++sl+yeAear++dPvyG+vg i+ lq+q+ +l+ el Thhalv10005120m 12 PCAACKFLRRKCTSECVFAPYFPPEEPTKFANVHRIFGASNVSKILHEVAPHQREDAVNSLAYEAEARLKDPVYGCVGAISVLQRQVLRLQREL 105 7********************************************************************************************* PP DUF260 95 allke 99 +++++ Thhalv10005120m 106 EETNA 110 99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	27.22	11	112	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.2E-43	12	109	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 133 aa Download sequence Send to blast
MSSSYSNYTN SPCAACKFLR RKCTSECVFA PYFPPEEPTK FANVHRIFGA SNVSKILHEV 60 APHQREDAVN SLAYEAEARL KDPVYGCVGA ISVLQRQVLR LQRELEETNA DLMRYASCLG 120 NETTSAYGGR RS*

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	5e-60	10	116	9	115	LOB family transfactor Ramosa2.1
5ly0_B	5e-60	10	116	9	115	LOB family transfactor Ramosa2.1
Search in ModeBase

Cis-element ? help Back to Top
Source	Link
PlantRegMap	Thhalv10005120m

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	AB018114	1e-138	AB018114.1 Arabidopsis thaliana genomic DNA, chromosome 3, P1 clone: MGF10.
GenBank	AB164304	1e-138	AB164304.1 Arabidopsis thaliana ASL3 mRNA for ASYMMETRIC LEAVES2-like gene 3 protein, partial cds.
GenBank	AB473836	1e-138	AB473836.1 Arabidopsis thaliana ASL3 mRNA for ASYMMETRIC LEAVES2-like 3 protein, complete cds.
GenBank	AF447892	1e-138	AF447892.1 Arabidopsis thaliana LOB DOMAIN 25 (LBD25) mRNA, complete cds.
GenBank	CP002686	1e-138	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_024007368.1	6e-95	LOB domain-containing protein 25
Swissprot	Q8L8Q3	1e-89	LBD25_ARATH; LOB domain-containing protein 25
TrEMBL	V4KRQ8	1e-93	V4KRQ8_EUTSA; Uncharacterized protein
STRING	XP_006395411.1	2e-94	(Eutrema salsugineum)

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-78	LOB domain-containing protein 25

Link Out ? help Back to Top
Phytozome	Thhalv10005120m
Entrez Gene	18011841

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]