lepB:On One Page

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Quickview   Gene   Gene Product(s)   Expression   Evolution   On One Page    
Quickview | Gene | Product(s) | Expression| Evolution | References |

Quickview

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Standard Name

lepB

Gene Synonym(s)

ECK2566, b2568, JW2552, lep[1], lep

Product Desc.

leader peptidase (signal peptidase I)[2][3]

Signal peptidase I; SPI; responsible for type I signal cleavages of periplasmic, OM, some IM, and extracellular proteins[4]

Product Synonyms(s)

leader peptidase (signal peptidase I)[1], B2568[2][1], Lep[2][1], LepB[2][1], LP1[2][1] , ECK2566, JW2552, lep, b2568

Function from GO

<GO_nr />

Knock-Out Phenotype
Regulation/Expression

transcription unit(s): lepAB[2]

Regulation/Activity
Quick Links

porteco.png EcoCyc.gif regulondb.jpg

dnadisplay.png proteindisplay.png   pubmed.jpg   textpresso.jpg  

</protect> See Help:Quickview for help with entering information in the Quickview table. <protect></protect>

Notes

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LepB has a blocked N-terminus. False positive lipoprotein prediction, shown to have no signal peptide. Targetted by SRP/FtsY to Sec/YidC for membrane insertion.[4]



Gene

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Nomenclature

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See Help:Gene_nomenclature for help with entering information in the Gene Nomenclature table.

Standard name

lepB

Mnemonic

Leader peptidase

Synonyms

ECK2566, b2568, JW2552, lep[1], lep

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Notes

Location(s) and DNA Sequence

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<protect> See Help:Gene_location for help entering information in the Gene Location and DNA sequence table.

Strain Map location Genome coordinates Genome browsers Sequence links

MG1655

58.24 minutes 

MG1655: 2703331..2702357
<gbrowseImage> name=NC_000913:2702357..2703331 source=MG1655 preset=GeneLocation </gbrowseImage>

REL606

NC_012967: 2626802..2625828
<gbrowseImage> name=NC_012967:2625828..2626802 source=REL606 preset=GeneLocation </gbrowseImage>

BW2952

NC_012759: 2588162..2589136
<gbrowseImage> name=NC_012759:2588162..2589136 source=BW2952 preset=GeneLocation </gbrowseImage>

W3110

 

W3110: 2703965..2702991
<gbrowseImage> name=NC_007779:2702991..2703965 source=W3110 preset=GeneLocation </gbrowseImage>

DH10B

DH10B: 2795096..2794122
<gbrowseImage> name=NC_010473:2794122..2795096 source=DH10B preset=GeneLocation </gbrowseImage>

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Notes

Sequence Features

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See Help:Gene_sequence_features for help in entering sequence features in EcoliWiki.

Feature Type Strain Genomic Location Evidence Reference Notes

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Notes

Alleles and Phenotypes

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See Help:Gene_alleles for how to enter or edit alleles and phenotypes in EcoliWiki.

Allele Nt change(s) AA change(s) Phenotype: Type Phenotype: Description Reference Availability Comments

lepBC171A

C171A

Indifferent

seeded from UniProt:P00803

lepBK146M,D,G,S

K146M,D,G,S

Loss of activity

seeded from UniProt:P00803

lepBR147Q

R147Q

Small effect

seeded from UniProt:P00803

lepBD154A

D154A

Loss of activity

seeded from UniProt:P00803

lepBD154N

D154N

Indifferent

seeded from UniProt:P00803

lepBE62V

E62V

Indifferent

seeded from UniProt:P00803

lepBR78E,N,L

R78E,N,L

Indifferent

seeded from UniProt:P00803

lepBS91A

S91A

Loss of activity

seeded from UniProt:P00803

lepBH125N

H125N

Indifferent

seeded from UniProt:P00803

lepBR128Q

R128Q

Small effect

seeded from UniProt:P00803

lepBD130A

D130A

Indifferent

seeded from UniProt:P00803

lepBY144F

Y144F

Indifferent

seeded from UniProt:P00803

lepBD159N

D159N

Small effect

seeded from UniProt:P00803

lepBC177A

C177A

Indifferent

seeded from UniProt:P00803

lepBH236N

H236N

Indifferent

seeded from UniProt:P00803

lepBY269F

Y269F

Indifferent

seeded from UniProt:P00803

lepBD274A

D274A

Indifferent

seeded from UniProt:P00803

lepBR276Q

R276Q

Small effect

seeded from UniProt:P00803

lepBD281A

D281A

Indifferent

seeded from UniProt:P00803

lepBR283Q

R283Q

Small effect

seeded from UniProt:P00803

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Notes

Genetic Interactions

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Interactor Interaction Allele Score(s) Reference(s) Accessions Notes

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Notes

Genetic Resources

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See Help:Gene_resources for help entering information into the Genetic Resources table.

Resource Resource Type Source Notes/Reference

JW2552

Plasmid clone

Shigen

PMID:16769691

Status:Clone OK

Primer 1:GCCGCGAATATGTTTGCCCTGAT

Primer 2:CCATGGATGCCGCCAATGCGACT

7G4

Kohara Phage

Genobase

PMID:3038334

4A12

Kohara Phage

Genobase

PMID:3038334

zfh-208::Tn10

Linked marker

CAG18481 = CGSC7417[5]

est. P1 cotransduction: 19% [6]
Synonyms:zff-208::Tn10

nadB51::Tn10

Linked marker

CAG18480 = CGSC7419[5]

est. P1 cotransduction: 78% [6]

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG10530

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10530

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000523

Escherichia coli str. K-12 substr. MG1655

NCBI (EcoliWiki Page)

GeneID:947040

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0525

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008450

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Product(s)

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Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

LepB

Synonyms

leader peptidase (signal peptidase I)[1], B2568[2][1], Lep[2][1], LepB[2][1], LP1[2][1] , ECK2566, JW2552, lep, b2568

Product description

leader peptidase (signal peptidase I)[2][3]

Signal peptidase I; SPI; responsible for type I signal cleavages of periplasmic, OM, some IM, and extracellular proteins[4]

EC number (for enzymes)

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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0997

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-1003

C

Seeded from EcoCyc (v14.0)

complete

GO:0006508

proteolysis

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000223

P

Seeded from EcoCyc (v14.0)

complete

GO:0008233

peptidase activity

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0645

F

Seeded from EcoCyc (v14.0)

complete

GO:0008236

serine-type peptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000223

F

Seeded from EcoCyc (v14.0)

complete

GO:0008236

serine-type peptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR019756

F

Seeded from EcoCyc (v14.0)

complete

GO:0008236

serine-type peptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR019757

F

Seeded from EcoCyc (v14.0)

complete

GO:0016485

protein processing

PMID:11511369

IMP: Inferred from Mutant Phenotype

UniProtKB:P17998

P

LepB is required for cleavage and subsequent activation of Colicin D.

complete

GO:0008236

serine-type peptidase activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR019758

F

Seeded from EcoCyc (v14.0)

complete

GO:0015643

toxin binding

PMID:11511369

IMP: Inferred from Mutant Phenotype

UniProtKB:P17998

F

LepB binds and cleaves Colicin D, which activates the colicin.

complete

GO:0015643

toxin binding

PMID:11511369

IMP: Inferred from Mutant Phenotype

F

Seeded from EcoCyc (v14.0)

complete

GO:0008233

peptidase activity

PMID:15195997

IDA: Inferred from Direct Assay

F

complete

GO:0015643

toxin binding

PMID:11511369

IMP: Inferred from Mutant Phenotype

UniProtKB:P17998

F

Seeded from EcoCyc (v14.0)

complete

GO:0006508

proteolysis

PMID:15195997

IMP: Inferred from Mutant Phenotype

P

complete

GO:0016021

integral to membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR019756

C

Seeded from EcoCyc (v14.0)

complete

GO:0006508

proteolysis

PMID:10891078

IDA: Inferred from Direct Assay

P

complete

GO:0016021

integral to membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR019757

C

Seeded from EcoCyc (v14.0)

complete

GO:0016485

protein processing

PMID:15598653

IMP: Inferred from Mutant Phenotype

P

complete

GO:0016021

integral to membrane

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR019758

C

Seeded from EcoCyc (v14.0)

complete

GO:0016021

integral to membrane

PMID:10891078

IDA: Inferred from Direct Assay

C

complete

GO:0016021

integral to membrane

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0812

C

Seeded from EcoCyc (v14.0)

complete

GO:0005886

plasma membrane

PMID:10891078

IDA: Inferred from Direct Assay

C

complete

GO:0016021

integral to membrane

GO_REF:0000023

IEA: Inferred from Electronic Annotation

SP_SL:SL-9909

C

Seeded from EcoCyc (v14.0)

complete

GO:0008233

peptidase activity

PMID:15598653

IMP: Inferred from Mutant Phenotype

F

complete

GO:0016485

protein processing

PMID:11511369

IMP: Inferred from Mutant Phenotype

P

Seeded from EcoCyc (v14.0)

complete

GO:0016485

protein processing

PMID:11511369

IMP: Inferred from Mutant Phenotype

UniProtKB:P17998

P

Seeded from EcoCyc (v14.0)

complete

Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence

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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes

plasma membrane

C-terminus localized to the periplasm with 2 predicted transmembrane domains

Daley et al. (2005) [7]

plasma membrane


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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc

MANMFALILV IATLVTGILW CVDKFFFAPK RRERQAAAQA AAGDSLDKAT LKKVAPKPGW
LETGASVFPV LAIVLIVRSF IYEPFQIPSG SMMPTLLIGD FILVEKFAYG IKDPIYQKTL
IETGHPKRGD IVVFKYPEDP KLDYIKRAVG LPGDKVTYDP VSKELTIQPG CSSGQACENA
LPVTYSNVEP SDFVQTFSRR NGGEATSGFF EVPKNETKEN GIRLSERKET LGDVTHRILT
VPIAQDQVGM YYQQPGQQLA TWIVPPGQYF MMGDNRDNSA DSRYWGFVPE ANLVGRATAI
WMSFDKQEGE WPTGLRLSRI GGIH
Length

324

Mol. Wt

35.96 kDa

pI

7.4 (calculated)

Extinction coefficient

49,390 - 49,765 (calc based on 11 Y, 6 W, and 3 C residues)


Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

86..170

PF00717 Peptidase S24-like

PMID:19920124

Domain

233..302

PF10502 Peptidase S26

PMID:19920124

<motif_map/>

tmhmm.php?gene=lepB&show=pic&.jpg
Click the image to view raw output from TMHMM.

Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=lepB taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference

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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16130493

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:947040

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008450

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P00803

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10530

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10530

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:947040

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000523

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0525

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Expression

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Overview

This is a placeholder for a summary statement on how expression of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.


Cellular Levels

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See Help:Cellular levels

Molecule Organism or Strain Value Units Experimental Conditions Assay used Notes Reference(s)

Protein

E. coli K-12 MG1655

1315

molecules/cell/generation

  • Medium: MOPS Complete
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

338

molecules/cell/generation

  • Medium: MOPS Minimal
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Protein

E. coli K-12 MG1655

670

molecules/cell/generation

  • Medium: MOPS Complete without Methionine
  • Temperature (°C): 37
  • Doubling time (min):
  • *Growth phase:
  • OD:
  • other:

Ribosome Profiling

PMID: 24766808

Notes

Transcription and Transcriptional Regulation

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<protect>

See Help:Expression_transcription for help entering or editing information in this section of EcoliWiki.

Transcription unit(s)

lepAB

Figure courtesy of RegulonDB

</protect>

Notes

This is a placeholder for a summary statement about how transcription of this gene is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Translation and Regulation of Translation

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<protect><gbrowseImage> name=NC_000913:2703311..2703351 source=MG1655 flip=1 type=Gene+DNA_+Protein preset=Nterminus </gbrowseImage> This picture shows the sequence around the N-terminus.

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Notes

This is a placeholder for a summary statement about how translation of this gene product is regulated. You can help EcoliWiki by becoming a user and writing/editing this statement.

Turnover and Regulation of Turnover

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Notes

This is a placeholder for a summary statement about turnover of this gene product. You can help EcoliWiki by becoming a user and writing/editing this statement.

Experimental

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<protect> Mutations Affecting Expression See Help:Expression_mutations for help entering or editing information in this section of EcoliWiki.

Allele Name Mutation Phenotype Reference


Expression Studies See Help:Expression_studies for help entering or editing information in this section of EcoliWiki.

Type Reference Notes

microarray

GEO Profiles:b2568 (EcoliWiki Page)

NCBI GEO profiles for lepB

microarray

GenExpDB:b2568 (EcoliWiki Page)

Summary of data for lepB from multiple microarray studies


Expression Resources See Help:Expression_resources for help entering or editing information in this section of EcoliWiki.

Resource Name Resource Type Description Source Notes

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Notes

Accessions Related to lepB Expression

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

EcoCyc

EcoCyc:EG10530

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0525

Escherichia coli str. K-12 substr. MG1655

EcoliGenExpDB (EcoliWiki Page)

EcoliGenExpDB:b2568

EcoGene

EcoGene:EG10530

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000523

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008450

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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Evolution

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Homologs in Other Organisms

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See Help:Evolution_homologs for help entering or editing information in this section of EcoliWiki.

Organism Homologs (Statistics) Comments

Anopheles gambiae

  • ENSANGP00000027831 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Arabidopsis thaliana

  • AT1G23465 (score: 1.000; bootstrap: 56%)
  • AT1G29960 (score: 0.901)
  • AT1G53530 (score: 0.302)

From Inparanoid:20070104

Bos taurus

  • ENSBTAP00000000600 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis briggsae

  • WBGene00034014 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Caenorhabditis elegans

  • WBGene00007021 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Canis familiaris

  • ENSCAFP00000011156 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Ciona intestinalis

  • ENSCINP00000016174 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Gallus gallus

  • ENSGALP00000031178 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Homo sapiens

  • ENSP00000278200 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Mus musculus

  • MGI:1913791 (score: 1.000; bootstrap: 100%)
  • MGI:3645325 (score: 0.981)

From Inparanoid:20070104

Pan troglodytes

  • ENSPTRP00000006031 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Rattus norvegicus

  • ENSRNOP00000006406 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Saccharomyces cerevisiae

  • YMR035W (score: 1.000; bootstrap: 51%)

From Inparanoid:20070104

Tetraodon nigroviridis

  • GSTENP00003907001 (score: 1.000; bootstrap: 100%)
  • GSTENP00001785001 (score: 0.724)

From Inparanoid:20070104

Xenopus tropicalis

  • ENSXETP00000022866 (score: 1.000; bootstrap: 100%)

From Inparanoid:20070104

Shigella flexneri

LEPB

From SHIGELLACYC

E. coli O157

LEPB

From ECOO157CYC


Do-It-Yourself Web Tools

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Notes

Families

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

Superfamily (EcoliWiki Page)

SUPERFAMILY:51306

Panther (EcoliWiki Page)

PTHR12383:SF1

Pfam (EcoliWiki Page)

PF00717 Peptidase S24-like

Pfam (EcoliWiki Page)

PF10502 Peptidase S26

EcoCyc

EcoCyc:EG10530

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10530

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000523

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0525

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0008450

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. 1.00 1.01 1.02 1.03 1.04 1.05 1.06 1.07 1.08 1.09 1.10 1.11 1.12 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. 2.00 2.01 2.02 2.03 2.04 2.05 2.06 2.07 2.08 2.09 2.10 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. 3.0 3.1 EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. 4.0 4.1 4.2 EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. 5.0 5.1 CGSC: The Coli Genetics Stock Center
  6. 6.0 6.1 The Tn10 insertion sites determined by Nichols et al. 1998 (PMID:9829956) were reannotated by alignment with E. coli K-12 genome sequence (GenBank accession NC_000913). P1 contransduction frequencies were calculated using the formula of Wu (PMID:5338813).
  7. Daley, DO et al. (2005) Global topology analysis of the Escherichia coli inner membrane proteome. Science 308 1321-3 PubMed

Categories

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