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_009117760.1

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: 164aa MW: 18506.3 Da PI: 9.2038

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009117760.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	135.3	2.3e-42	14	113	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +Ca+Ck+lrrkC+kdCv+apyfpa++p kfa+vhk+FGa+nv k+l+ l+e++r+da++slvyeA+ar++dPvyG vg+i++l++qle+l+++la XP_009117760.1 14 PCAGCKLLRRKCVKDCVFAPYFPAKEPYKFAIVHKIFGARNVNKMLQVLSENHRSDAVNSLVYEANARVQDPVYGYVGTISSLHRQLETLQTQLA 108 7********************************************************************************************** PP DUF260 96 llkee 100 +++e XP_009117760.1 109 FAQAE 113 99987 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.425	13	114	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.6E-40	14	111	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 164 aa Download sequence Send to blast
MRQKGHRHGG AVSPCAGCKL LRRKCVKDCV FAPYFPAKEP YKFAIVHKIF GARNVNKMLQ 60 VLSENHRSDA VNSLVYEANA RVQDPVYGYV GTISSLHRQL ETLQTQLAFA QAELVHLKTL 120 HHVDTRWPPY MASSITFPTI KDFSSDVNMT FMYDNGAGES LWSC

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	1e-41	10	115	7	112	LOB family transfactor Ramosa2.1
5ly0_B	1e-41	10	115	7	112	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. At the bases of lateral organs formed from vegetative, inflorescence, and floral meristems. {ECO:0000269\|PubMed:12068116, ECO:0000269\|PubMed:17485849}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009117760.1

Regulation -- Description ? help Back to Top
Source	Description
UniProt	INDUCTION: By cytokinin. {ECO:0000269\|PubMed:17485849}.

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_009117760.1	1e-123	PREDICTED: LOB domain-containing protein 3-like
Swissprot	Q9SA51	4e-98	LBD3_ARATH; LOB domain-containing protein 3
TrEMBL	M4ED56	1e-122	M4ED56_BRARP; Uncharacterized protein
STRING	Bra026716.1-P	1e-123	(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
AT1G16530.1	1e-100	ASYMMETRIC LEAVES 2-like 9

Publications ? help Back to Top
Heyndrickx KS,Vandepoele K Systematic identification of functional plant modules through the integration of complementary data sources. Plant Physiol., 2012. 159(3): p. 884-901 [PMID:22589469]