RegulonDB

RegulonDB RegulonDB 10.7: Gene Form

lolB gene in Escherichia coli K-12 genome

Gene local context to scale (view description)

Gene
Name:	lolB
Synonym(s):	ECK1197, EG11293, b1209, hemM, ychC
Genome position(nucleotides):	1262877 <-- 1263500 Genome Browser
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	51.44
External database links:

ASAP:	ABE-0004059
CGSC:	31940
ECHOBASE:	EB1270
OU-MICROARRAY:	b1209
PORTECO:	lolB
REGULONDB:	b1209
STRING:	511145.b1209
M3D:	lolB
COLOMBOS:	lolB
PortEco:	b1209

Product

Name:

outer membrane lipoprotein LolB

Synonym(s):

HemM, LolB, YchC

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

outer membrane,periplasmic space

Molecular weight:

23.551

Isoelectric point:

9.18

Motif(s):

Type	Positions	Sequence
	41 -> 42	QH
	138 -> 138	W
	1 -> 21	MPLPDFRLIRLLPLAALVLTA
	176 -> 207	YDTKTQPAMPANMELTDGGQRIKLKMDNWIVK
	12 -> 12	L

Classification:

Multifun Terms (GenProtEC)
Gene Ontology Terms (GO)
	cellular_component	GO:0009279 - cell outer membrane GO:0016020 - membrane GO:0030288 - outer membrane-bounded periplasmic space GO:0036406 - anchored component of periplasmic side of cell outer membrane
	molecular_function	GO:0005515 - protein binding
	biological_process	GO:0042157 - lipoprotein metabolic process GO:0015031 - protein transport GO:0044874 - lipoprotein localization to outer membrane

Note(s):

Note(s): ...[more].

Evidence:

[APPH] Assay of protein purified to homogeneity
[APPHINH] Assay of protein purified to homogeneity from its native host
[IMP] Inferred from mutant phenotype

Reference(s):

[1] Hayashi Y., et al., 2014
[2] Matsuyama S., et al., 1997
[3] Nakada S., et al., 2007
[4] Tsukahara J., et al., 2009
[5] Wada R., et al., 2004
[6] Yokota N., et al., 1999

External database links:

DIP:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

MINT:

MODBASE:

PDB:

PDB:

PFAM:

PRIDE:

PRODB:

PROSITE:

PROTEINMODELPORTAL:

REFSEQ:

SMR:

UNIPROT:

Operon

Name:

lolB-ispE-prs

Operon arrangement:

Transcription unit	Promoter
prs	prsp
lolB-ispE-prs	lolBp

Elements in the selected gene context region unrelated to any object in RegulonDB

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	TSS_1538	1260982	reverse	nd	[RS-EPT-CBR]	[7]
promoter	TSS_1539	1261162	reverse	nd	[RS-EPT-CBR]	[7]
promoter	TSS_1540	1261821	reverse	nd	[RS-EPT-CBR]	[7]
promoter	TSS_1541 (cluster)	1263536	reverse	For this promoter, there is a cluster of 2 transcription start sites,in the interval 1263535 to 1263536, where the highest frequency is at position 1262758. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[7]
promoter	TSS_1542	1263675	forward	nd	[RS-EPT-CBR]	[7]
promoter	TSS_1543 (cluster)	1264894	forward	For this promoter, there is a cluster of 2 transcription start sites,in the interval 1264894 to 1264895, where the highest frequency is at position 1264118. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[7]
promoter	TSS_1544 (cluster)	1264899	forward	For this promoter, there is a cluster of 2 transcription start sites,in the interval 1264899 to 1264900, where the highest frequency is at position 1264123. The most upstream position of this cluster is assigned as TSS position in the promoter. Read more >	[RS-EPT-CBR]	[7]

Evidence
[RS-EPT-CBR] RNA-seq using two enrichment strategies for primary transcripts and consistent biological replicates

Reference(s)
[1] Hayashi Y., Tsurumizu R., Tsukahara J., Takeda K., Narita S., Mori M., Miki K., Tokuda H., 2014, Roles of the protruding loop of factor B essential for the localization of lipoproteins (LolB) in the anchoring of bacterial triacylated proteins to the outer membrane., J Biol Chem 289(15):10530-9
[2] Matsuyama S., Yokota N., Tokuda H., 1997, A novel outer membrane lipoprotein, LolB (HemM), involved in the LolA (p20)-dependent localization of lipoproteins to the outer membrane of Escherichia coli., EMBO J 16(23):6947-55
[3] Nakada S., Sakakura M., Takahashi H., Tokuda H., Shimada I., 2007, Backbone resonance assignment for the outer membrane lipoprotein receptor LolB from Escherichia coli., Biomol NMR Assign 1(1):121-3
[4] Tsukahara J., Narita S., Tokuda H., 2009, Real time analysis of lipoprotein transfer from LolA to LolB by means of surface plasmon resonance., FEBS Lett 583(18):2987-90
[5] Wada R., Matsuyama S., Tokuda H., 2004, Targeted mutagenesis of five conserved tryptophan residues of LolB involved in membrane localization of Escherichia coli lipoproteins., Biochem Biophys Res Commun 323(3):1069-74
[6] Yokota N., Kuroda T., Matsuyama S., Tokuda H., 1999, Characterization of the LolA-LolB system as the general lipoprotein localization mechanism of Escherichia coli., J Biol Chem 274(43):30995-9
[7] Salgado H, Peralta-Gil M, Gama-Castro S, Santos-Zavaleta A, Muñiz-Rascado L, García-Sotelo JS, Weiss V, Solano-Lira H, Martínez-Flores I, Medina-Rivera A, Salgado-Osorio G, Alquicira-Hernández S, Alquicira-Hernández K, López-Fuentes A, Porrón-Sotelo L, Huerta AM, Bonavides-Martínez C, Balderas-Martínez YI, Pannier L, Olvera M, Labastida A, Jiménez-Jacinto V, Vega-Alvarado L, Del Moral-Chávez V, Hernández-Alvarez A, Morett E, Collado-Vides J., 2012, RegulonDB v8.0: omics data sets, evolutionary conservation, regulatory phrases, cross-validated gold standards and more., Nucleic Acids Res.

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