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

RrC21462_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: 260aa MW: 28222.1 Da PI: 9.4029

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC21462_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	127.8	4.9e-40	52	150	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaelallk 98 +CaaCk+lrr+Ca++C+++pyf ++p+kfa+vhk+FGasnv+k+l ++ e++r da++slvyeA+ r+rdP+yG++g i++lq+q+++l++el +++ RrC21462_p1 52 PCAACKLLRRRCAEECPFSPYFSPHEPQKFAAVHKVFGASNVSKMLLEVGESQRGDAANSLVYEANLRLRDPIYGCMGAISALQHQIQSLQSELTAVR 149 7*********************************************************************************************9988 PP DUF260 99 e 99 + RrC21462_p1 150 T 150 6 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.142	51	152	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	1.5E-40	52	149	IPR004883	Lateral organ boundaries, LOB

Gene Ontology ? help Back to Top
GO Term	GO Category	GO Description
GO:0016020	Cellular Component	membrane

Sequence ? help Back to Top
Protein Sequence Length: 260 aa Download sequence Send to blast
MSRDREGFGD YYKIVKKVKK DPTFEKTMDH AVMGIRRHVA MPPGTTVNTV TPCAACKLLR 60 RRCAEECPFS PYFSPHEPQK FAAVHKVFGA SNVSKMLLEV GESQRGDAAN SLVYEANLRL 120 RDPIYGCMGA ISALQHQIQS LQSELTAVRT DILRHKYREA ATITSLQNNS FTSTTTTSVS 180 DHAALAAAIL SPPPLPPPNP PRPPRLLSSQ PAPPVSLSSP SMVVSSSNSS ATNSMYNLPP 240 SSAAGCSNSM STKNNVHYFD

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	3e-43	45	163	4	122	LOB family transfactor Ramosa2.1
5ly0_B	3e-43	45	163	4	122	LOB family transfactor Ramosa2.1
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Binding Motif ? help Back to Top
Motif ID	Method	Source	Motif file
MP00283	DAP	Transfer from AT2G30340	Download

Regulation -- PlantRegMap ? help Back to Top
Source	Upstream Regulator	Target Gene
PlantRegMap	Retrieve	Retrieve

Annotation -- Protein ? help Back to Top
Source	Hit ID	E-value	Description
Refseq	XP_018485161.1	1e-139	PREDICTED: LOB domain-containing protein 13-like isoform X2
Swissprot	Q9AT61	1e-124	LBD13_ARATH; LOB domain-containing protein 13
TrEMBL	A0A397ZNW5	1e-137	A0A397ZNW5_BRACM; Uncharacterized protein
STRING	Bo4g059520.1	1e-126	(Brassica oleracea)

Orthologous Group ? help Back to Top
Lineage	Orthologous Group ID	Taxa Number	Gene Number
Malvids	OGEM1927	27	81

Best hit in Arabidopsis thaliana ? help Back to Top
Hit ID	E-value	Description
AT2G30340.1	1e-102	LOB domain-containing protein 13

Publications ? help Back to Top
Cho C,Jeon E,Pandey SK,Ha SH,Kim J LBD13 positively regulates lateral root formation in Arabidopsis. Planta, 2019. 249(4): p. 1251-1258 [PMID:30627888]