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_009112337.1

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: 394aa MW: 44228.2 Da PI: 5.9067

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009112337.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	121.8	3.8e-38	7	106	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +C+aCk+lrr+C+++Cv+ap+f a+qp+kf +vhk FGasnv kll++l ++reda++slvyeAe r++dPvyG+vg+i+ qq+l+q + +++ XP_009112337.1 7 PCSACKFLRRRCTRECVFAPHFSADQPNKFSCVHKAFGASNVAKLLSELTFNQREDAVTSLVYEAETRIQDPVYGCVGLISLQQQRLKQIQRDTD 101 7*******************************************************************************************999 PP DUF260 96 llkee 100 ++++e XP_009112337.1 102 VARRE 106 88876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	23.933	6	107	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	7.3E-38	7	104	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 394 aa Download sequence Send to blast
MASSNSPCSA CKFLRRRCTR ECVFAPHFSA DQPNKFSCVH KAFGASNVAK LLSELTFNQR 60 EDAVTSLVYE AETRIQDPVY GCVGLISLQQ QRLKQIQRDT DVARRELATY IGPQAMLPIL 120 QPQQTHLMPQ TPPLQQFVPE TKQAYFMPET QQQTQQPQPE TQQTQFMPQT QETQFMPQTD 180 QTQSMPQTQQ MQFMPQTQKF MPQTQRPSSS SVSAGLTQQQ HHDLFPSMAI PTAQLYQQQF 240 FEFQQLEAVA REKHSEMLRA YGEEGSSSSH QHHQNQPEAQ VLRFNDGFDS VPTGSVTSTG 300 FNQLTPSGTT VTSVSHSLAL GGTYDIETQL TMPTQSSQQL PLQTHDAQLF MSTQASKPQQ 360 QHCEAQLSMP SQSSQPLPLQ TKETQTSSES DEGS

Sequence ? help Back to Top

Protein Sequence Length: 394 aa Download sequence Send to blast

MASSNSPCSA CKFLRRRCTR ECVFAPHFSA DQPNKFSCVH KAFGASNVAK LLSELTFNQR  60
EDAVTSLVYE AETRIQDPVY GCVGLISLQQ QRLKQIQRDT DVARRELATY IGPQAMLPIL  120
QPQQTHLMPQ TPPLQQFVPE TKQAYFMPET QQQTQQPQPE TQQTQFMPQT QETQFMPQTD  180
QTQSMPQTQQ MQFMPQTQKF MPQTQRPSSS SVSAGLTQQQ HHDLFPSMAI PTAQLYQQQF  240
FEFQQLEAVA REKHSEMLRA YGEEGSSSSH QHHQNQPEAQ VLRFNDGFDS VPTGSVTSTG  300
FNQLTPSGTT VTSVSHSLAL GGTYDIETQL TMPTQSSQQL PLQTHDAQLF MSTQASKPQQ  360
QHCEAQLSMP SQSSQPLPLQ TKETQTSSES DEGS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-36	4	110	8	114	LOB family transfactor Ramosa2.1
5ly0_B	2e-36	4	110	8	114	LOB family transfactor Ramosa2.1
Search in ModeBase

Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in trichomes, at the base of many lateral organs, including branching points of the inflorescence and floral organs and in the distal part of the pistil at stages when style and stigma start to develop. Also detected in pedicels and at the base of petals and sepals. {ECO:0000269\|PubMed:15821980}.

Functional Description ? help Back to Top
Source	Description
UniProt	Controls the proximal-distal patterning in petals and the adaxial-abaxial determination of leaves. Involved in the repression of the homeobox gene BP. {ECO:0000269\|PubMed:12787254, ECO:0000269\|PubMed:15821980}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009112337.1

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_018510216.1	0.0	PREDICTED: LOB domain-containing protein 36-like
Swissprot	Q9FKZ3	8e-63	LBD36_ARATH; LOB domain-containing protein 36
TrEMBL	M4F7T1	0.0	M4F7T1_BRARP; Uncharacterized protein
STRING	Bra037142.1-P	0.0	(Brassica rapa)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM26544	3	3

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT5G66870.1	6e-65	ASYMMETRIC LEAVES 2-like 1

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] Wang Z,Wang Y,Kohalmi SE,Amyot L,Hannoufa A SQUAMOSA PROMOTER BINDING PROTEIN-LIKE 2 controls floral organ development and plant fertility by activating ASYMMETRIC LEAVES 2 in Arabidopsis thaliana. Plant Mol. Biol., 2016. 92(6): p. 661-674 [PMID:27605094]