(Q33978841)

30 July 2017

Genome-wide protein localization prediction strategies for gram negative bacteria (English)

1 reference

30 July 2017

Gram-negative bacteria

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author

Margaret F Romine

series ordinal

1

1 reference

PubMed ID

21810203

30 July 2017

language of work or name

English

0 references

publication date

15 June 2011

1 reference

30 July 2017

1 reference

30 July 2017

12 Suppl 1

1 reference

30 July 2017

S1

1 reference

https://scigraph.springernature.com/pub.10.1186/1471-2164-12-s1-s1

30 July 2017

0 references

cites work

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Mapping the subcellular proteome of Shewanella oneidensis MR-1 using sarkosyl-based fractionation and LC-MS/MS protein identification

5 July 2018

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Leptospira: a spirochaete with a hybrid outer membrane

5 July 2018

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Functional amyloid in Pseudomonas

5 July 2018

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BmpA is a surface-exposed outer-membrane protein of Borrelia burgdorferi

5 July 2018

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PSORTb 3.0: improved protein subcellular localization prediction with refined localization subcategories and predictive capabilities for all prokaryotes.

5 July 2018

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NalP-mediated proteolytic release of lactoferrin-binding protein B from the meningococcal cell surface.

5 July 2018

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The Pseudomonas aeruginosa patatin-like protein PlpD is the archetype of a novel Type V secretion system

5 July 2018

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Bacterial microcompartment organelles: protein shell structure and evolution

5 July 2018

1 reference

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A large and accurate collection of peptidase cleavages in the MEROPS database

5 July 2018

1 reference

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Domain organization of long autotransporter signal sequences.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Proteomic detection of non-annotated protein-coding genes in Pseudomonas fluorescens Pf0-1.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

A comprehensive assessment of N-terminal signal peptides prediction methods

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

ACLAME: a CLAssification of Mobile genetic Elements, update 2010

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Comparative systems biology across an evolutionary gradient within the Shewanella genus.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Conserved synteny at the protein family level reveals genes underlying Shewanella species' cold tolerance and predicts their novel phenotypes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Recode-2: new design, new search tools, and many more genes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Accurate prediction of secreted substrates and identification of a conserved putative secretion signal for type III secretion systems

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Secretion and subcellular localizations of bacterial proteins: a semantic awareness issue.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Membrane protein architects: the role of the BAM complex in outer membrane protein assembly.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Direct involvement of type II secretion system in extracellular translocation of Shewanella oneidensis outer membrane cytochromes MtrC and OmcA.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Identification of mobile elements and pseudogenes in the Shewanella oneidensis MR-1 genome

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Protein translocation across the bacterial cytoplasmic membrane.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

The twin-arginine transport system: moving folded proteins across membranes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Whole proteome analysis of post-translational modifications: applications of mass-spectrometry for proteogenomic annotation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Protein secretion in gram-negative bacteria via the autotransporter pathway

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Assembly factor Omp85 recognizes its outer membrane protein substrates by a species-specific C-terminal motif

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

The unusual extended signal peptide region of the type V secretion system is phylogenetically restricted

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Methods for predicting bacterial protein subcellular localization

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

AMT tag approach to proteomic characterization of Deinococcus radiodurans and Shewanella oneidensis.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

A database of bacterial lipoproteins (DOLOP) with functional assignments to predicted lipoproteins

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Extracellular respiration of dimethyl sulfoxide by Shewanella oneidensis strain MR-1.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Borrelia burgdorferi lipoproteins are secreted to the outer surface by default.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

ISfinder: the reference centre for bacterial insertion sequences

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Analysing the outer membrane subproteome of Methylococcus capsulatus (Bath) using proteomics and novel biocomputing tools

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

An ABC transporter mediating the membrane detachment of bacterial lipoproteins depending on their sorting signals

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Type I signal peptidase: an overview

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Prediction of twin-arginine signal peptides

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Comparative analysis of differentially expressed genes in Shewanella oneidensis MR-1 following exposure to UVC, UVB, and UVA radiation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Export of complex cofactor-containing proteins by the bacterial Tat pathway

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Type I secretion in gram-negative bacteria.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Peptide signal molecules and bacteriocins in Gram-negative bacteria: a genome-wide in silico screening for peptides containing a double-glycine leader sequence and their cognate transporters.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Improved prediction of signal peptides: SignalP 3.0

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Genetic identification of a respiratory arsenate reductase

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Prediction of lipoprotein signal peptides in Gram-negative bacteria

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Dissimilatory Fe(III) and Mn(IV) reduction by Shewanella putrefaciens requires ferE, a homolog of the pulE (gspE) type II protein secretion gene

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Solubilization of the Cytoplasmic Membrane of Escherichia coli by the Ionic Detergent Sodium-Lauryl Sarcosinate

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

5 July 2018

Lipoproteins in bacteria

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

The protein sequence responsible for lipoprotein membrane localization in Escherichia coli exhibits remarkable specificity

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Localization of cytochromes to the outer membrane of anaerobically grown Shewanella putrefaciens MR-1

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

A novel filamentous phage from the deep-sea bacterium Shewanella piezotolerans WP3 is induced at low temperature

5 July 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-S1-S1

21 January 2018

Bacteriophage genomics

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-S1-S1

Discrimination of intracellular and extracellular proteins using amino acid composition and residue-pair frequencies.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-S1-S1

Adaptation of protein secretion to extremely high-salt conditions by extensive use of the twin-arginine translocation pathway

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-S1-S1

TAT-pathway-dependent lipoproteins as a niche-based adaptation in prokaryotes

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-S1-S1

Trypsin cleaves exclusively C-terminal to arginine and lysine residues

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-S1-S1

The proteomics of N-terminal methionine cleavage.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-S1-S1

Substrate specificity of aminopeptidase P from Escherichia coli: comparison with membrane-bound forms from rat and bovine lung.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-S1-S1

Amino acids at positions 3 and 4 determine the membrane specificity of Pseudomonas aeruginosa lipoproteins.

21 January 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-S1-S1

Extracytoplasmic proteins of Mycobacterium tuberculosis - mature secreted proteins often start with aspartic acid and proline.

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Prediction of signal peptides and signal anchors by a hidden Markov model.

29 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3223724

Co-translocation of a Periplasmic Enzyme Complex by a Hitchhiker Mechanism through the Bacterial Tat Pathway

29 October 2018

1 reference

https://api.crossref.org/works/10.1186%2F1471-2164-12-S1-S1

Carboxy-terminal phenylalanine is essential for the correct assembly of a bacterial outer membrane protein

21 January 2018

1 reference

12 December 2020

Phages will out: strategies of host cell lysis

1 reference

12 December 2020

The pros and cons of peptide-centric proteomics

1 reference

12 December 2020

Identification of two regions of Klebsiella oxytoca pullulanase that together are capable of promoting beta-lactamase secretion by the general secretory pathway

1 reference

12 December 2020

10.1186/1471-2164-12-S1-S1

Identifiers

DOI

1 reference

PubMed ID

21810203

Dimensions Publication ID

30 July 2017

0 references

1 reference

30 July 2017

1 reference

PubMed ID

21810203