Elucidation of a sialic acid metabolism pathway in mucus-foraging Ruminococcus gnavus unravels mechanisms of bacterial adaptation to the gut

Substrate-bound outward-open structure of a Na+-coupled sialic acid symporter reveals a new Na+ site

(2018) Weixiao Y. Wahlgren et al.   Nature Communications

Gyre and gimble: a maximum-likelihood replacement for Patterson correlation refinement

(2018) Airlie J. McCoy et al.   Acta Crystallographica Section D-Structural Biology

Distributed computing for macromolecular crystallography

(2018) Evgeny Krissinel et al.   Acta Crystallographica Section D-Structural Biology

The Sodium Sialic Acid Symporter From Staphylococcus aureus Has Altered Substrate Specificity

(2018) Rachel A. North et al.   Frontiers in Chemistry

Streptococcus pneumoniae Sialidase SpNanB-Catalyzed One-Pot Multienzyme (OPME) Synthesis of 2,7-Anhydro-Sialic Acids as Selective Sialidase Inhibitors

(2018) An Xiao et al.   JOURNAL OF ORGANIC CHEMISTRY

Pathological macromolecular crystallographic data affected by twinning, partial-disorder and exhibiting multiple lattices for testing of data processing and refinement tools

(2018) Ivan Campeotto et al.   Scientific Reports

Homology-based loop modeling yields more complete crystallographic protein structures

(2018) Bart van Beusekom et al.   IUCrJ

Deriving Ligand Orientation in Weak Protein–Ligand Complexes by DEEP‐STD NMR Spectroscopy in the Absence of Protein Chemical‐Shift Assignment

(2018) Ridvan Nepravishta et al.   CHEMBIOCHEM

Molecular characterization of the interaction of sialic acid with the periplasmic binding protein from Haemophilus ducreyi

(2018) Thanuja Gangi Setty et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Crystal structures and kinetics of N-acetylneuraminate lyase from Fusobacterium nucleatum

(2018) Jay Prakash Kumar et al.   Acta Crystallographica Section F-Structural Biology Communications

VMXi: a fully automated, fully remote, high-flux in situ macromolecular crystallography beamline

(2018) Juan Sanchez-Weatherby et al.   JOURNAL OF SYNCHROTRON RADIATION

Microbial shifts and signatures of long-term remission in ulcerative colitis after faecal microbiota transplantation

(2017) Susana Fuentes et al.   ISME Journal

Analysis of endoscopic brush samples identified mucosa-associated dysbiosis in inflammatory bowel disease

(2017) Kyohei Nishino et al.   JOURNAL OF GASTROENTEROLOGY

MolProbity: More and better reference data for improved all-atom structure validation

(2017) Christopher J. Williams et al.   PROTEIN SCIENCE

Tools for ligand validation inCoot

(2017) Paul Emsley   Acta Crystallographica Section D-Structural Biology

Sialic acid acquisition in bacteria-one substrate, many transporters

(2016) G. H. Thomas   BIOCHEMICAL SOCIETY TRANSACTIONS

Sialidases from gut bacteria: a mini-review

(2016) N. Juge et al.   BIOCHEMICAL SOCIETY TRANSACTIONS

Structure and inhibition of N -acetylneuraminate lyase from methicillin-resistant Staphylococcus aureus

(2016) Rachel A. North et al.   FEBS LETTERS

Infant Early Gut Colonization by Lachnospiraceae: High Frequency of Ruminococcus gnavus

(2016) Valeria Sagheddu et al.   Frontiers in Pediatrics

Enzyme Function Initiative-Enzyme Similarity Tool (EFI-EST): A web tool for generating protein sequence similarity networks

(2015) John A. Gerlt et al.   BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS

Specific members of the predominant gut microbiota predict pouchitis following colectomy and IPAA in UC

(2015) Kathleen Machiels et al.   GUT

Streptococcus pneumoniaeNanC

(2015) C. David Owen et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

Gut biogeography of the bacterial microbiota

(2015) Gregory P. Donaldson et al.   NATURE REVIEWS MICROBIOLOGY

Discovery of intramolecular trans-sialidases in human gut microbiota suggests novel mechanisms of mucosal adaptation

(2015) Louise E. Tailford et al.   Nature Communications

Mucin glycan foraging in the human gut microbiome

(2015) Louise E. Tailford et al.   Frontiers in Genetics

Reaction Mechanism of N-Acetylneuraminic Acid Lyase Revealed by a Combination of Crystallography, QM/MM Simulation, and Mutagenesis

(2014) Adam D. Daniels et al.   ACS Chemical Biology

The Prevalence of Species and Strains in the Human Microbiome: A Resource for Experimental Efforts

(2014) Laurens Kraal et al.   PLoS One

Bacterial periplasmic sialic acid-binding proteins exhibit a conserved binding site

(2014) Thanuja Gangi Setty et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Structural Basis for Substrate Specificity and Mechanism of N-Acetyl-d-neuraminic Acid Lyase from Pasteurella multocida

(2013) Nhung Huynh et al.   BIOCHEMISTRY

Structural Insights into the Recovery of Aldolase Activity inN-Acetylneuraminic Acid Lyase by Replacement of the Catalytically Active Lysine with γ-Thialysine by Using a Chemical Mutagenesis Strategy

(2013) Nicole Timms et al.   CHEMBIOCHEM

Transport and catabolism of the sialic acidsN-glycolylneuraminic acid and 3-keto-3-deoxy-d-glycero-d-galactonononic acid byEscherichia coliK-12

(2013) Adam P. Hopkins et al.   FEMS MICROBIOLOGY LETTERS

Detecting Sequence Homology at the Gene Cluster Level with MultiGeneBlast

(2013) Marnix H. Medema et al.   MOLECULAR BIOLOGY AND EVOLUTION

Utilisation of Mucin Glycans by the Human Gut Symbiont Ruminococcus gnavus Is Strain-Dependent

(2013) Emmanuelle H. Crost et al.   PLoS One

Exploiting structure similarity in refinement: automated NCS and target-structure restraints inBUSTER

(2012) Oliver S. Smart et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Host sialoglycans and bacterial sialidases: a mucosal perspective

(2012) Amanda L. Lewis et al.   CELLULAR MICROBIOLOGY

Exogenous Sialic Acid Transport Contributes to Group B Streptococcus Infection of Mucosal Surfaces

(2012) Alfredo Pezzicoli et al.   JOURNAL OF INFECTIOUS DISEASES

Fiji: an open-source platform for biological-image analysis

(2012) Johannes Schindelin et al.   NATURE METHODS

A Functional Genomics Approach to Establish the Complement of Carbohydrate Transporters in Streptococcus pneumoniae

(2012) Alessandro Bidossi et al.   PLoS One

Data processing and analysis with theautoPROCtoolbox

(2011) Clemens Vonrhein et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Dysbiosis of the faecal microbiota in patients with Crohn's disease and their unaffected relatives

(2011) M. Joossens et al.   GUT

The Membrane Proteins SiaQ and SiaM Form an Essential Stoichiometric Complex in the Sialic Acid Tripartite ATP-independent Periplasmic (TRAP) Transporter SiaPQM (VC1777–1779) fromVibrio cholerae

(2011) Christopher Mulligan et al.   JOURNAL OF BIOLOGICAL CHEMISTRY

ThreeStreptococcus pneumoniaeSialidases: Three Different Products

(2011) Guogang Xu et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

Mucolytic Bacteria With Increased Prevalence in IBD Mucosa Augment In Vitro Utilization of Mucin by Other Bacteria

(2010) Chin Wen Png et al.   AMERICAN JOURNAL OF GASTROENTEROLOGY

A Pyrosequencing Study in Twins Shows That Gastrointestinal Microbial Profiles Vary With Inflammatory Bowel Disease Phenotypes

(2010) Ben P. Willing et al.   GASTROENTEROLOGY

Sialic Acid Transport Contributes to Pneumococcal Colonization

(2010) Carolyn Marion et al.   INFECTION AND IMMUNITY

A human gut microbial gene catalogue established by metagenomic sequencing

(2010) Junjie Qin et al.   NATURE

The two mucus layers of colon are organized by the MUC2 mucin, whereas the outer layer is a legislator of host-microbial interactions

(2010) M. E. V. Johansson et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Differential expression analysis for sequence count data

(2010) Simon Anders et al.   GENOME BIOLOGY

Molecular replacement withMOLREP

(2009) Alexei Vagin et al.   ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY

Insights into the evolution of sialic acid catabolism among bacteria

(2009) Salvador Almagro-Moreno et al.   BMC EVOLUTIONARY BIOLOGY

Mucin-type O-glycosylation - putting the pieces together

(2009) Pia H. Jensen et al.   FEBS Journal

Characterization of a novel sialic acid transporter of the sodium solute symporter (SSS) family and in vivo comparison with known bacterial sialic acid transporters

(2009) Emmanuele Severi et al.   FEMS MICROBIOLOGY LETTERS

Sialic Acid (N-Acetyl Neuraminic Acid) Utilization by Bacteroides fragilis Requires a Novel N-Acetyl Mannosamine Epimerase

(2009) C. Brigham et al.   JOURNAL OF BACTERIOLOGY

The ClosTron: Mutagenesis in Clostridium refined and streamlined

(2009) John T. Heap et al.   JOURNAL OF MICROBIOLOGICAL METHODS

The substrate-binding protein imposes directionality on an electrochemical sodium gradient-driven TRAP transporter

(2009) Christopher Mulligan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mucosal Glycan Foraging Enhances Fitness and Transmission of a Saccharolytic Human Gut Bacterial Symbiont

(2008) Eric C. Martens et al.   Cell Host & Microbe

Glycosylation of human fetal mucins: a similar repertoire of O-glycans along the intestinal tract

(2008) Catherine Robbe-Masselot et al.   GLYCOCONJUGATE JOURNAL

Crystal Structure of the NanB Sialidase from Streptococcus pneumoniae

(2008) Guogang Xu et al.   JOURNAL OF MOLECULAR BIOLOGY

Automated macromolecular model building for X-ray crystallography using ARP/wARP version 7

(2008) Gerrit Langer et al.   Nature Protocols

A simple and efficient expression and purification system using two newly constructed vectors

(2008) Huanting Liu et al.   PROTEIN EXPRESSION AND PURIFICATION