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

RrC3862_p3

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: 117aa MW: 13823.3 Da PI: 10.464

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC3862_p3	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	97.8	1.1e-30	6	96	8	98
DUF260 8 lrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallk 98 r kC ++Cvl pyfpa++p+k+a++ k+FG ++++++l+++++++r++ ++sl++eAear+rdPvyG vg+i++lq++l++l+ l+ ++ RrC3862_p3 6 TRAKCRQECVLTPYFPANKPEKYACLMKVFGKKKLVRYLNEIDPSQRQACVDSLIFEAEARIRDPVYGTVGIIHRLQRRLQHLQLSLKIAR 96 5789*******************************************************************************99888766 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	18.957	1	99	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.4E-29	6	95	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 117 aa Download sequence Send to blast
MELCATRAKC RQECVLTPYF PANKPEKYAC LMKVFGKKKL VRYLNEIDPS QRQACVDSLI 60 FEAEARIRDP VYGTVGIIHR LQRRLQHLQL SLKIARWELA KLKHEQNHRH LVIRSRL

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	7e-27	7	99	19	111	LOB family transfactor Ramosa2.1
5ly0_B	7e-27	7	99	19	111	LOB family transfactor Ramosa2.1
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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}.

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_006448514.1	1e-30	LOB domain-containing protein 6
Refseq	XP_006468642.1	1e-30	protein ASYMMETRIC LEAVES 2
Refseq	XP_006468643.1	1e-30	protein ASYMMETRIC LEAVES 2
Refseq	XP_023904594.1	4e-30	protein LATERAL ORGAN BOUNDARIES-like
Refseq	XP_024046965.1	1e-30	LOB domain-containing protein 6
Refseq	XP_024046966.1	1e-30	LOB domain-containing protein 6
Swissprot	Q9FKZ3	3e-28	LBD36_ARATH; LOB domain-containing protein 36
TrEMBL	A0A397YVE5	6e-51	A0A397YVE5_BRACM; Uncharacterized protein
STRING	Bostr.6864s0195.1.p	6e-31	(Boechera stricta)
STRING	XP_010507369.1	3e-30	(Camelina sativa)

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
AT1G65620.4	8e-28	LBD family protein

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]