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

XP_009151937.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 132aa MW: 14563.4 Da PI: 7.7689

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009151937.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	141	3.9e-44	12	110	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+lrrkC++dCv+apyfp e+p kfanvh++FGasnv+k+l+++ +++reda++sl+yeAear+rdPvyG+vg i+ lq+q+ l+ el+ XP_009151937.1 12 PCAACKFLRRKCTSDCVFAPYFPPEEPTKFANVHRIFGASNVSKILQEVAPHQREDAVNSLAYEAEARLRDPVYGCVGAISVLQRQVLGLQRELE 106 7*********************************************************************************************9 PP DUF260 96 llke 99 ++++ XP_009151937.1 107 ETNA 110 9876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	27.229	11	112	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	6.8E-44	12	109	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 132 aa Download sequence Send to blast
MSSSYSSYTN SPCAACKFLR RKCTSDCVFA PYFPPEEPTK FANVHRIFGA SNVSKILQEV 60 APHQREDAVN SLAYEAEARL RDPVYGCVGA ISVLQRQVLG LQRELEETNA DIMRYASCLG 120 GETSSVYGAR RG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-58	10	126	9	126	LOB family transfactor Ramosa2.1
5ly0_B	3e-58	10	126	9	126	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in young shoots, roots, stems, leaves and flowers. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009151937.1

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

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_013644626.1	1e-94	LOB domain-containing protein 25
Swissprot	Q8L8Q3	4e-86	LBD25_ARATH; LOB domain-containing protein 25
TrEMBL	A0A078FH29	3e-93	A0A078FH29_BRANA; BnaA06g31930D protein
TrEMBL	A0A291LQZ5	3e-93	A0A291LQZ5_BRARR; Transcription factor LBD25a
TrEMBL	A0A397Z3H9	3e-93	A0A397Z3H9_BRACM; Uncharacterized protein
TrEMBL	M4E938	3e-93	M4E938_BRARP; Uncharacterized protein
STRING	Bra025294.1-P	5e-94	(Brassica rapa)

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-86	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]