Global landscape of cell envelope protein complexes in Escherichia coli

The phosphocarrier protein HPr of the bacterial phosphotransferase system globally regulates energy metabolism by directly interacting with multiple enzymes inEscherichia coli

(2017) Irina A. Rodionova et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Inclusion of dyad-repeat pattern improves topology prediction of transmembrane β-barrel proteins

(2016) Sikander Hayat et al.   BIOINFORMATICS

A Supercomplex Spanning the Inner and Outer Membranes Mediates the Biogenesis of β-Barrel Outer Membrane Proteins in Bacteria

(2016) Yan Wang et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Antibacterial drug discovery in the resistance era

(2016) Eric D. Brown et al.   NATURE

Conditional Epistatic Interaction Maps Reveal Global Functional Rewiring of Genome Integrity Pathways in Escherichia coli

(2016) Ashwani Kumar et al.   Cell Reports

Structural insights into cardiolipin transfer from the Inner membrane to the outer membrane by PbgA in Gram-negative bacteria

(2016) Haohao Dong et al.   Scientific Reports

Evolution of the Translocation and Assembly Module (TAM)

(2015) Eva Heinz et al.   Genome Biology and Evolution

MntR(Rv2788): a transcriptional regulator that controls manganese homeostasis inMycobacterium tuberculosis

(2015) Ruchi Pandey et al.   MOLECULAR MICROBIOLOGY

Histidine phosphocarrier protein regulates pyruvate kinase A activity in response to glucose inVibrio vulnificus

(2015) Hey-Min Kim et al.   MOLECULAR MICROBIOLOGY

Panorama of ancient metazoan macromolecular complexes

(2015) Cuihong Wan et al.   NATURE

Bacterial protein networks: properties and functions

(2015) Athanasios Typas et al.   NATURE REVIEWS MICROBIOLOGY

Protein Complexes in Bacteria

(2015) J. Harry Caufield et al.   PLoS Computational Biology

Biosynthesis and Export of Bacterial Lipopolysaccharides

(2014) Chris Whitfield et al.   Annual Review of Biochemistry

Novel function discovery with GeneMANIA: a new integrated resource for gene function prediction in Escherichia coli

(2014) James Vlasblom et al.   BIOINFORMATICS

Physiology and Bioenergetics of [NiFe]-Hydrogenase 2-Catalyzed H2-Consuming and H2-Producing Reactions in Escherichia coli

(2014) Constanze Pinske et al.   JOURNAL OF BACTERIOLOGY

Proteome-wide Subcellular Topologies ofE. coliPolypeptides Database (STEPdb)

(2014) Georgia Orfanoudaki et al.   MOLECULAR & CELLULAR PROTEOMICS

The binary protein-protein interaction landscape of Escherichia coli

(2014) Seesandra V Rajagopala et al.   NATURE BIOTECHNOLOGY

STRING v10: protein–protein interaction networks, integrated over the tree of life

(2014) Damian Szklarczyk et al.   NUCLEIC ACIDS RESEARCH

MS-GF+ makes progress towards a universal database search tool for proteomics

(2014) Sangtae Kim et al.   Nature Communications

Quantitative Genome-Wide Genetic Interaction Screens Reveal Global Epistatic Relationships of Protein Complexes in Escherichia coli

(2014) Mohan Babu et al.   PLoS Genetics

Characterization of cardiolipins and their oxidation products by LC–MS analysis

(2013) Yulia Y. Tyurina et al.   CHEMISTRY AND PHYSICS OF LIPIDS

Interlaboratory reproducibility of large-scale human protein-complex analysis by standardized AP-MS

(2013) Markku Varjosalo et al.   NATURE METHODS

The structural basis of autotransporter translocation by TamA

(2013) Fabian Gruss et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The MIntAct project—IntAct as a common curation platform for 11 molecular interaction databases

(2013) Sandra Orchard et al.   NUCLEIC ACIDS RESEARCH

Glycosylation of the Escherichia coli TibA Self-Associating Autotransporter Influences the Conformation and the Functionality of the Protein

(2013) Jean-Philippe Côté et al.   PLoS One

Membrane transport metabolons

(2012) Trevor F. Moraes et al.   BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES

A Census of Human Soluble Protein Complexes

(2012) Pierre C. Havugimana et al.   CELL

Popular Computational Methods to Assess Multiprotein Complexes Derived From Label-Free Affinity Purification and Mass Spectrometry (AP-MS) Experiments

(2012) Irina M. Armean et al.   MOLECULAR & CELLULAR PROTEOMICS

Interaction landscape of membrane-protein complexes in Saccharomyces cerevisiae

(2012) Mohan Babu et al.   NATURE

Discovery of an archetypal protein transport system in bacterial outer membranes

(2012) Joel Selkrig et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

T-REX: a web server for inferring, validating and visualizing phylogenetic trees and networks

(2012) A. Boc et al.   NUCLEIC ACIDS RESEARCH

Cycling of Etk and Etp Phosphorylation States Is Involved in Formation of Group 4 Capsule by Escherichia coli

(2012) Chen Nadler et al.   PLoS One

Quantification of cardiolipin molecular species inEscherichia colilipid extracts using liquid chromatography/electrospray ionization mass spectrometry

(2012) Teresa A. Garrett et al.   RAPID COMMUNICATIONS IN MASS SPECTROMETRY

β-Barrel Membrane Protein Assembly by the Bam Complex

(2011) Christine L. Hagan et al.   Annual Review of Biochemistry

A Protein Complex Network of Drosophila melanogaster

(2011) K.G. Guruharsha et al.   CELL

Adapt locally and act globally: strategy to maintain high chemoreceptor sensitivity in complex environments

(2011) G. Lan et al.   Molecular Systems Biology

SignalP 4.0: discriminating signal peptides from transmembrane regions

(2011) Thomas Nordahl Petersen et al.   NATURE METHODS

Genetic Interaction Maps in Escherichia coli Reveal Functional Crosstalk among Cell Envelope Biogenesis Pathways

(2011) Mohan Babu et al.   PLoS Genetics

Phenotypic Landscape of a Bacterial Cell

(2010) Robert J. Nichols et al.   CELL

The Zur-Regulated ZinT Protein Is an Auxiliary Component of the High-Affinity ZnuABC Zinc Transporter That Facilitates Metal Recruitment during Severe Zinc Shortage

(2010) P. Petrarca et al.   JOURNAL OF BACTERIOLOGY

Targeting bacterial membrane function: an underexploited mechanism for treating persistent infections

(2010) Julian G. Hurdle et al.   NATURE REVIEWS MICROBIOLOGY

Integrating Protein Homeostasis Strategies in Prokaryotes

(2010) A. Mogk et al.   Cold Spring Harbor Perspectives in Biology

Defining the Human Deubiquitinating Enzyme Interaction Landscape

(2009) Mathew E. Sowa et al.   CELL

Growth Rate-Dependent Global Effects on Gene Expression in Bacteria

(2009) Stefan Klumpp et al.   CELL

Predicting Protein Complexes from PPI Data: A Core-Attachment Approach

(2009) Henry C.M. Leung et al.   JOURNAL OF COMPUTATIONAL BIOLOGY

Pivotal Roles of the Outer Membrane Polysaccharide Export and Polysaccharide Copolymerase Protein Families in Export of Extracellular Polysaccharides in Gram-Negative Bacteria

(2009) L. Cuthbertson et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

CVTree update: a newly designed phylogenetic study platform using composition vectors and whole genomes

(2009) Z. Xu et al.   NUCLEIC ACIDS RESEARCH

InParanoid 7: new algorithms and tools for eukaryotic orthology analysis

(2009) G. Ostlund et al.   NUCLEIC ACIDS RESEARCH

An ABC transport system that maintains lipid asymmetry in the Gram-negative outer membrane

(2009) J. C. Malinverni et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Global Functional Atlas of Escherichia coli Encompassing Previously Uncharacterized Proteins

(2009) Pingzhao Hu et al.   PLOS BIOLOGY

EchoLOCATION: an in silico analysis of the subcellular locations of Escherichia coli proteins and comparison with experimentally derived locations

(2008) Richard S. P. Horler et al.   BIOINFORMATICS

eSGA: E. coli synthetic genetic array analysis

(2008) Gareth Butland et al.   NATURE METHODS