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

RrC17912_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: 14633.5 Da PI: 8.4818

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC17912_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	138.8	1.9e-43	12	110	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallk 98 +CaaCk+lrr+C+++Cv+apyfp ++p kfanvh++FGasnv+k+l+++ +++red+++sl+yeAear++dPvyG+vg i+ lq+q+ +l+ el++++ RrC17912_p1 12 PCAACKFLRRRCTSGCVFAPYFPPDEPTKFANVHRIFGASNVSKILHEVAPHQREDTVNSLAYEAEARLNDPVYGCVGAISVLQRQVLKLQRELEETN 109 7*********************************************************************************************9987 PP DUF260 99 e 99 + RrC17912_p1 110 A 110 6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	26.738	11	112	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.8E-43	12	109	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 132 aa Download sequence Send to blast
MASSHSNYIN SPCAACKFLR RRCTSGCVFA PYFPPDEPTK FANVHRIFGA SNVSKILHEV 60 APHQREDTVN SLAYEAEARL NDPVYGCVGA ISVLQRQVLK LQRELEETNA DLRRYARALG 120 GETTSNYGGQ RG

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-58	10	125	9	125	LOB family transfactor Ramosa2.1
5ly0_B	3e-58	10	125	9	125	LOB family transfactor Ramosa2.1
Search in ModeBase

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_018439419.1	2e-95	PREDICTED: LOB domain-containing protein 25-like
Swissprot	Q8L8Q3	1e-82	LBD25_ARATH; LOB domain-containing protein 25
TrEMBL	A0A0D3AW94	2e-89	A0A0D3AW94_BRAOL; Uncharacterized protein
TrEMBL	A0A3N6T541	2e-89	A0A3N6T541_BRACR; Uncharacterized protein
TrEMBL	A0A3P6DS91	2e-89	A0A3P6DS91_BRAOL; Uncharacterized protein
STRING	Bo2g144870.1	3e-90	(Brassica oleracea)

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-85	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]