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

RrC22610_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: 242aa MW: 26363.9 Da PI: 9.5191

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
RrC22610_p1	genome	MSU	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	126.1	1.7e-39	52	151	1	100
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+++++l++el +++ RrC22610_p1 52 PCAACKLLRRRCAEECPFSPYFSPHEPHKFAAVHKVFGASNVSKMLLEVGESQRGDAANSLVYEANLRLRDPIYGCMGAISTLQHHIQSLQSELTTVR 149 7*********************************************************************************************9998 PP DUF260 99 ee 100 +e RrC22610_p1 150 TE 151 87 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.227	51	152	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	3.2E-40	52	149	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 242 aa Download sequence Send to blast
MSRDREGFSE YHEIVKKVKK DPTFEKTADH AVMGIRRHVA MPPGTTLNTV TPCAACKLLR 60 RRCAEECPFS PYFSPHEPHK FAAVHKVFGA SNVSKMLLEV GESQRGDAAN SLVYEANLRL 120 RDPIYGCMGA ISTLQHHIQS LQSELTTVRT EILRHKYREA ATITSLQQNN NNNFNNNTTS 180 VSDHAALAAS ILLPPPPPPP PPPRPPRLLS SRPAAPPTPP ASLPSPSMVV SSSSSNSSAT 240 NS

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	2e-41	45	163	4	122	LOB family transfactor Ramosa2.1
5ly0_B	2e-41	45	163	4	122	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_018433132.1	1e-134	PREDICTED: LOW QUALITY PROTEIN: LOB domain-containing protein 13
Swissprot	Q9AT61	1e-118	LBD13_ARATH; LOB domain-containing protein 13
TrEMBL	A0A0D3BTJ7	1e-126	A0A0D3BTJ7_BRAOL; 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-117	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]