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

RrC20782_p1

Organism

Raphanus raphanistrum

Taxonomic ID

109996

Taxonomic Lineage

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

Family

LBD

Protein Properties

Length: 309aa MW: 34614.9 Da PI: 4.5231

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC20782_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	136.9	7.2e-43	5	104	1	100
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallk 98 +CaaCk+lrrkC+++Cv+apyfp +qp+kf +vhk+FGasnv+k+l++lp+ +reda++sl+yeAear+rdP+yG+vg+i+ lqq l++ +++l+++k RrC20782_p1 5 PCAACKLLRRKCTQECVFAPYFPPTQPQKFIYVHKVFGASNVTKILNDLPPPNREDAVNSLYYEAEARIRDPIYGCVGLISFLQQCLKKIQQDLVTAK 102 7**********************************************************************************************999 PP DUF260 99 ee 100 ee RrC20782_p1 103 EE 104 87 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PIRSF	PIRSF038155	3.3E-104	2	307	IPR017414	LOB domain-containing protein 10/36/41
PROSITE profile	PS50891	26.719	4	105	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	2.4E-41	5	102	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 309 aa Download sequence Send to blast
MASTPCAACK LLRRKCTQEC VFAPYFPPTQ PQKFIYVHKV FGASNVTKIL NDLPPPNRED 60 AVNSLYYEAE ARIRDPIYGC VGLISFLQQC LKKIQQDLVT AKEELAGYIG PDAVNPQQPY 120 LPPLANNPPP NFMMAMEGMP HGVVPQGEPL IIREPNMPQH QHQPQDEQMQ LMGTDAQRMA 180 AMILERGDHQ QEMFNGYGID NNGSVTATGY NQMDVNDHTA GGSLSGPSLA LGSFGDAYQM 240 GHETEHHISH DQLQTQLMLQ PPLQEGQEQN EGQFLMQPMG QENLHEEEDE EELEPPVKWR 300 KSDNKEASY

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	9e-46	2	108	8	114	LOB family transfactor Ramosa2.1
5ly0_B	9e-46	2	108	8	114	LOB family transfactor Ramosa2.1
Search in ModeBase

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	AB473835	0.0	AB473835.1 Arabidopsis thaliana ASL2 mRNA for ASYMMETRIC LEAVES2-like 2 protein, complete cds.
GenBank	AC003040	0.0	AC003040.3 Arabidopsis thaliana chromosome 2 clone F26B6 map CIC06C07, complete sequence.
GenBank	AC004482	0.0	AC004482.3 Arabidopsis thaliana chromosome 2 clone F27L4 map CIC06C07, complete sequence.
GenBank	CP002685	0.0	CP002685.1 Arabidopsis thaliana chromosome 2, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018480301.1	0.0	PREDICTED: LOB domain-containing protein 10
Refseq	XP_018480302.1	0.0	PREDICTED: LOB domain-containing protein 10
Swissprot	O64836	1e-174	LBD10_ARATH; LOB domain-containing protein 10
TrEMBL	A0A0D3C1I7	0.0	A0A0D3C1I7_BRAOL; Uncharacterized protein
TrEMBL	A0A291LQY8	0.0	A0A291LQY8_BRARR; Transcription factor LBD10
TrEMBL	A0A397ZS71	0.0	A0A397ZS71_BRACM; Uncharacterized protein
TrEMBL	A0A3N6T4S2	0.0	A0A3N6T4S2_BRACR; Uncharacterized protein
TrEMBL	A0A3P6CBS8	0.0	A0A3P6CBS8_BRAOL; Uncharacterized protein
TrEMBL	M4ETM1	0.0	M4ETM1_BRARP; Uncharacterized protein
STRING	Bra032153.1-P	0.0	(Brassica rapa)
STRING	Bo4g151770.1	0.0	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM14908	17	20

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G23660.2	1e-140	LOB domain-containing protein 10

Publications ? help Back to Top
Kim MJ,Kim M,Kim J Combinatorial interactions between LBD10 and LBD27 are essential for male gametophyte development in Arabidopsis. Plant Signal Behav, 2015. 10(8): p. e1044193 [PMID:26252070] 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]