PlantTFDB - Plant Transcription Factor Database @ CBI, PKU

PlantRegMap/PlantTFDB v5.0

Plant Transcription Factor Database

Transcription Factor Information

Basic Information | Signature Domain | Sequence |

Protein Features |

3D Structure |

Regulation |

Orthologous Group |

Publication

Basic Information? help Back to Top

TF ID

RrC9472_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: 132aa MW: 14655.6 Da PI: 7.7887

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC9472_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	138.3	2.6e-43	13	111	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallke 99 +CaaCk+lrrkC+++Cv+apyfp e+p kfanvh++FGasnv+k+l+++ +++reda++sl+yeAear++dPvyG+vg i+ lq+++ +l+ el+++++ RrC9472_p1 13 PCAACKFLRRKCTSECVFAPYFPPEEPLKFANVHRIFGASNVSKILHEVAPHQREDAVNSLAYEAEARLKDPVYGCVGAISVLQREVLRLQRELEETNA 111 7*********************************************************************************************99876 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.993	12	113	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	8.9E-43	13	110	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 132 aa Download sequence Send to blast
MSSSSYSNYT NSPCAACKFL RRKCTSECVF APYFPPEEPL KFANVHRIFG ASNVSKILHE 60 VAPHQREDAV NSLAYEAEAR LKDPVYGCVG AISVLQREVL RLQRELEETN ADLMRYASCL 120 GGETSAYGGR RG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-59	11	126	9	125	LOB family transfactor Ramosa2.1
5ly0_B	3e-59	11	126	9	125	LOB family transfactor Ramosa2.1
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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	AB018114	1e-116	AB018114.1 Arabidopsis thaliana genomic DNA, chromosome 3, P1 clone: MGF10.
GenBank	AB164304	1e-116	AB164304.1 Arabidopsis thaliana ASL3 mRNA for ASYMMETRIC LEAVES2-like gene 3 protein, partial cds.
GenBank	AB473836	1e-116	AB473836.1 Arabidopsis thaliana ASL3 mRNA for ASYMMETRIC LEAVES2-like 3 protein, complete cds.
GenBank	AF447892	1e-116	AF447892.1 Arabidopsis thaliana LOB DOMAIN 25 (LBD25) mRNA, complete cds.
GenBank	CP002686	1e-116	CP002686.1 Arabidopsis thaliana chromosome 3, complete sequence.

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018453069.1	7e-94	PREDICTED: LOB domain-containing protein 25
Swissprot	Q8L8Q3	5e-87	LBD25_ARATH; LOB domain-containing protein 25
TrEMBL	A0A291LR18	2e-90	A0A291LR18_BRARR; Transcription factor LBD25
TrEMBL	A0A397Y063	2e-90	A0A397Y063_BRACM; Uncharacterized protein
TrEMBL	M4FDA2	2e-90	M4FDA2_BRARP; Uncharacterized protein
STRING	Bra039072.1-P	4e-91	(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	5e-71	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]