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

XP_009141058.1

Organism

Brassica rapa

Taxonomic ID

3711

Taxonomic Lineage

cellular organisms; Eukaryota; Viridiplantae; Streptophyta; Streptophytina; Embryophyta; Tracheophyta; Euphyllophyta; Spermatophyta; Magnoliophyta; Mesangiospermae; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Brassiceae; Brassica

Family

LBD

Protein Properties

Length: 266aa MW: 28859.7 Da PI: 8.9991

Description

LBD family protein

Gene Model

Gene Model ID	Type	Source	Coding Sequence
XP_009141058.1	genome	NCBI	View CDS

Signature Domain? help Back to Top

No.	Domain	Score	E-value	Start	End	HMM Start	HMM End
1	DUF260	125.3	3e-39	53	151	1	99
DUF260 1 aCaaCkvlrrkCakdCvlapyfpaeqpkkfanvhklFGasnvlkllkalpeeeredamsslvyeAearardPvyGavgvilklqqqleqlkaela 95 +CaaCk+lrr+Ca++C+++pyf ++p+kfa+vhk+FGasnv+k+l ++ e++r da++slvyeA+ r+rdP+yG++g i++lq+++++l++el XP_009141058.1 53 PCAACKLLRRRCAEECPFSPYFSPHEPHKFAAVHKVFGASNVSKMLLEVGESQRGDAANSLVYEANLRLRDPIYGCMGAISALQHHIQSLQSELT 147 7*********************************************************************************************9 PP DUF260 96 llke 99 ++++ XP_009141058.1 148 AVRT 151 9886 PP

Protein Features ? help Back to Top

Database	Entry ID	E-value	Start	End	InterPro ID	Description
PROSITE profile	PS50891	25.142	52	153	IPR004883	Lateral organ boundaries, LOB
Pfam	PF03195	4.3E-40	53	150	IPR004883	Lateral organ boundaries, LOB

Sequence ? help Back to Top
Protein Sequence Length: 266 aa Download sequence Send to blast
MSRDSREGFG DYYKIVKKVK KDPTFEKTMD HAVMGIRRHV AVPPGTTLNT VTPCAACKLL 60 RRRCAEECPF SPYFSPHEPH KFAAVHKVFG ASNVSKMLLE VGESQRGDAA NSLVYEANLR 120 LRDPIYGCMG AISALQHHIQ SLQSELTAVR TDILRHKYRE AATITSLQNN NNNFNNTTTT 180 SVSDHAALAA TILLPPPLPP PHPPRPPRLL SSQPAPPVSL PSPSMVVPSS SSSNSSAGNS 240 MYNPPPSSAA GCSNSLSSDN NVHYFD

3D Structure ? help Back to Top

PDB ID	Evalue	Query Start	Query End	Hit Start	Hit End	Description
5ly0_A	4e-41	46	164	4	122	LOB family transfactor Ramosa2.1
5ly0_B	4e-41	46	164	4	122	LOB family transfactor Ramosa2.1
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Expression -- Description ? help Back to Top
Source	Description
Uniprot	TISSUE SPECIFICITY: Expressed in shoots and roots and at low levels in flowers, but not in leaves or inflorescence stems. {ECO:0000269\|PubMed:12068116}.

Cis-element ? help Back to Top
Source	Link
PlantRegMap	XP_009141058.1

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_009141058.1	0.0	PREDICTED: LOB domain-containing protein 13-like isoform X1
Swissprot	Q9AT61	1e-128	LBD13_ARATH; LOB domain-containing protein 13
TrEMBL	A0A291LQX0	0.0	A0A291LQX0_BRARR; Transcription factor LBD13a
STRING	Bra021627.1-P	0.0	(Brassica rapa)

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-105	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]