Explanipedia

Inceptor binds to and directs insulin towards lysosomal degradation in β cells Open

Johanna Siehler, Sara Bilekova, Prisca Chapouton, Alessandro Dema, Pascal Albanese , et al. · 2024

Engineering a cleaved, prefusion-stabilized influenza B virus hemagglutinin by identification and locking of all six pH switches Open

Jarek Juraszek, Fin Milder, Xiaodi Yu, Sven Blokland, Daan van Overveld , et al. · 2024

Vaccine components based on viral fusion proteins require high stability of the native prefusion conformation for optimal potency and manufacturability. In the case of influenza B virus hemagglutinin (HA), the stem's conformation relies on…

Efficacious human metapneumovirus vaccine based on AI-guided engineering of a closed prefusion trimer Open

Mark J. G. Bakkers, Tina Ritschel, Machteld M. Tiemessen, Jacobus Dijkman, Angelo A. Zuffianò , et al. · 2024

Into the Dark Serum Proteome: Personalized Features of IgG1 and IgA1 Repertoires in Severe COVID-19 Patients Open

Albert Bondt, Max Hoek, Kelly A. Dingess, Sem Tamara, Bastiaan de Graaf , et al. · 2023

Direct Mass Spectrometry-Based Detection and Antibody Sequencing of Monoclonal Gammopathy of Undetermined Significance from Patient Serum: A Case Study Open

Weiwei Peng, Maurits A. den Boer, Sem Tamara, Nadia J. Mokiem, Sjors P. A. van der Lans , et al. · 2023

Monoclonal gammopathy of undetermined significance (MGUS) is a plasma cell disorder characterized by the presence of a predominant monoclonal antibody (i.e., M-protein) in serum, without clinical symptoms. Here we present a case study in w…

Direct mass spectrometry-based detection and antibody sequencing of Monoclonal Gammopathy of Undetermined Significance from patient serum – a case study Open

Weiwei Peng, Maurits A. den Boer, Sem Tamara, Nadia J. Mokiem, Sjors P. A. van der Lans , et al. · 2023

Monoclonal gammopathy of undetermined significance (MGUS) is a plasma cell disorder, characterized by the presence of a predominant monoclonal antibody ( i . e ., M-protein) in serum, without clinical symptoms. Here we present a case study…

No patient is the same; lessons learned from antibody repertoire profiling in hospitalized severe COVID-19 patients Open

Albert Bondt, Max Hoek, Kelly A. Dingess, Sem Tamara, Bastiaan de Graaf , et al. · 2022

Here, by using mass spectrometry-based methods IgG1 and IgA1 clonal repertoires were monitored quantitatively and longitudinally in more than 50 individual serum samples obtained from 17 COVID-19 patients admitted to intensive care units b…

Identification of common and distinct origins of human serum and breastmilk IgA1 by mass spectrometry-based clonal profiling Open

Kelly A. Dingess, Max Hoek, Danique M.H. van Rijswijck, Sem Tamara, Maurits A. den Boer , et al. · 2022

A perspective toward mass spectrometry-based de novo sequencing of endogenous antibodies Open

Bastiaan de Graaf, Max Hoek, Sem Tamara, Albert J. R. Heck · 2022

A key step in therapeutic and endogenous humoral antibody characterization is identifying the amino acid sequence. So far, this task has been mainly tackled through sequencing of B-cell receptor (BCR) repertoires at the nucleotide level. M…

Humans have distinct repertoires of IgA1 Open

Kelly A. Dingess, Max Hoek, Danique M.H. van Rijswijck, Sem Tamara, Maurits A. den Boer , et al. · 2022

The most abundant immunoglobulin present in the human body is IgA1. It has the highest concentrations at the mucosal lining and in biofluids such as milk and is the second most abundant class of antibodies in serum. We assessed the structu…

Identifying glycation hot-spots in bovine milk proteins during production and storage of skim milk powder Open

Inge Gazi, Vojtěch Franc, Sem Tamara, Martine P. van Gool, Thom Huppertz , et al. · 2022

We investigated protein glycation in a complex milk system under controlled conditions representative of real-life consumer products, analysing intermediate and final products from skim milk powder production, and aged powder samples. We c…

Huntingtin structure is orchestrated by HAP40 and shows a polyglutamine expansion-specific interaction with exon 1 Open

Rachel Harding, Justin C. Deme, Johannes F. Hevler, Sem Tamara, Alexander Lemak , et al. · 2021

Single-particle mass analysis of intact ribosomes by mass photometry and Orbitrap-based charge detection mass spectrometry Open

Szu‐Hsueh Lai, Sem Tamara, Albert J. R. Heck · 2021

Huntingtin structure is orchestrated by HAP40 and shows a polyglutamine expansion-specific interaction with exon 1 Open

Rachel Harding, Justin C. Deme, Johannes F. Hevler, Sem Tamara, Alexander Lemak , et al. · 2021

Supplementary Data files to accompany manuscript by Harding et al "Huntingtin structure is orchestrated by HAP40 and shows a polyglutamine expansion-specific interaction with exon 1" Supplementary Data 1 - Multiple sequence alignment for H…

Huntingtin structure is orchestrated by HAP40 and shows a polyglutamine expansion-specific interaction with exon 1 Open

Rachel Harding, Justin C. Deme, Johannes F. Hevler, Sem Tamara, Alexander Lemak , et al. · 2021

Supplementary Data files to accompany manuscript by Harding et al "Huntingtin structure is orchestrated by HAP40 and shows a polyglutamine expansion-specific interaction with exon 1" Supplementary Data 1 - Multiple sequence alignment for H…

Human plasma IgG1 repertoires are simple, unique, and dynamic Open

Albert Bondt, Max Hoek, Sem Tamara, Bastiaan de Graaf, Weiwei Peng , et al. · 2021

High-Resolution Native Mass Spectrometry Open

Sem Tamara, Maurits A. den Boer, Albert J. R. Heck · 2021

Native mass spectrometry (MS) involves the analysis and characterization of macromolecules, predominantly intact proteins and protein complexes, whereby as much as possible the native structural features of the analytes are retained. As su…

Structure of the human signal peptidase complex reveals the determinants for signal peptide cleavage Open

A. Manuel Liaci, Barbara Steigenberger, Paulo C. T. Souza, Sem Tamara, Mariska Gröllers‐Mulderij , et al. · 2021

Human Milk from Previously COVID-19-Infected Mothers: The Effect of Pasteurization on Specific Antibodies and Neutralization Capacity Open

Britt J. van Keulen, Michelle Romijn, Albert Bondt, Kelly A. Dingess, Eva Kontopodi , et al. · 2021

Background: Since the outbreak of coronavirus disease 2019 (COVID-19), many put their hopes in the rapid availability of effective immunizations. Human milk, containing antibodies against syndrome coronavirus 2 (SARS-CoV-2), may serve as m…

HAP40 orchestrates huntingtin structure for differential interaction with polyglutamine expanded exon 1 Open

Rachel Harding, Justin C. Deme, Johannes F. Hevler, Sem Tamara, Alexander Lemak , et al. · 2021

Huntington’s disease results from expansion of a glutamine-coding CAG tract in the huntingtin (HTT) gene, producing an aberrantly functioning form of HTT. Both wildtype and disease-state HTT form a hetero-dimer with HAP40 of unknown functi…

Generating Informative Sequence Tags from Antigen-Binding Regions of Heavily Glycosylated IgA1 Antibodies by Native Top-Down Electron Capture Dissociation Open

Jean‐François Greisch, Maurits A. den Boer, Frank J. Beurskens, Janine Schuurman, Sem Tamara , et al. · 2021

Immunoglobulins A (IgA) include some of the most abundant human antibodies and play an important role in defending mucosal surfaces against pathogens. The unique structural features of the heavy chain of IgA subclasses (called IgA1 and IgA…

Middle-down data - sequencing Open

Albert Bondt, Max Hoek, Sem Tamara, Bastiaan de Graaf, Weiwei Peng , et al. · 2021

This data supports the de novo determined sequence of a single clone from human plasma IgG1 as described in the manuscript "Human plasma IgG1 repertoires are simple, unique, and dynamic"Data and code for "Human plasma IgG1 repertoires are …

Bottom-up data - sequencing Open

Albert Bondt, Max Hoek, Sem Tamara, Bastiaan de Graaf, Weiwei Peng , et al. · 2021

This data supports the de novo determined sequence of a single clone from human plasma IgG1 as described in the manuscript "Human plasma IgG1 repertoires are simple, unique, and dynamic"Data and code for "Human plasma IgG1 repertoires are …

Profiling data Open

Albert Bondt, Max Hoek, Sem Tamara, Bastiaan de Graaf, Weiwei Peng , et al. · 2021

This dataset includes the profiles of IgG1 Fabs as detected by LC-MS for 8 sepsis patients at four time points, belonging to the manuscript "Human plasma IgG1 repertoires are simple, unique, and dynamic".Data and code for "Human plasma IgG…

Structure of the Human Signal Peptidase Complex Reveals the Determinants for Signal Peptide Cleavage Open

A. Manuel Liaci, Barbara Steigenberger, Sem Tamara, Paulo C. T. Souza, Mariska Gröllers‐Mulderij , et al. · 2021

Code for 'Human plasma IgG1 repertoires are simple, unique, and dynamic' Open

Albert Bondt, Max Hoek, Sem Tamara, Bastiaan de Graaf, Weiwei Peng , et al. · 2021

Code used to analyze the data and generate several of the figures for the paper 'Human plasma IgG1 repertoires are simple, unique, and dynamic'.Data and code for "Human plasma IgG1 repertoires are simple, unique, and dynamic" published in …

Structure of the Human Signal Peptidase Complex Reveals the Determinants for Signal Peptide Cleavage Open

A. Manuel Liaci, Barbara Steigenberger, Sem Tamara, Paulo C. T. Souza, Mariska Gröllers‐Mulderij , et al. · 2020

The signal peptidase complex (SPC) is an essential membrane complex in the endoplasmic reticulum (ER), where it removes signal peptides (SPs) from a large variety of secretory pre-proteins with exquisite specificity. Although the determina…

Breastmilk; a source of SARS-CoV-2 specific IgA antibodies Open

Britt J. van Keulen, Michelle Romijn, Albert Bondt, Kelly A. Dingess, Eva Kontopodi , et al. · 2020

Background Since the outbreak of COVID-19, many put their hopes in the rapid development of effective immunizations. For now patient isolation, physical distancing and good hygiene are the sole measures for prevention. Processed breast mil…

A wealth of genotype-specific proteoforms fine-tunes hemoglobin scavenging by haptoglobin Open

Sem Tamara, Vojtěch Franc, Albert J. R. Heck · 2020

Significance Haptoglobin (Hp) is one of the most abundant plasma proteins; it binds with high affinity to hemoglobin (Hb). Thereby Hp protects against the toxic effects of the heme when Hb leaks into plasma from damaged red blood cells. Th…

Structural Proteomics Applied to Plant Membrane Protein Complexes Open

Pascal Albanese, Sem Tamara, Richard A. Scheltema, Cristina Pagliano · 2020

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