Publications

Molecular Principles of Gating Proton Transport in the Antiporter Modules of Respiratory Complex I.

Badolato S, Rossmann SC, Pereira J, Kim H, Kaila VRI · Journal of the American Chemical Society · 2026

AAA+ protein unfoldases-the Moirai of the proteome.

Azinas S, Carroni M · FEBS letters · 2026

Mass spectrometry integrates protein design into structural biology method development.

Stevens A, Osterholz H, Viliuga V, Vosselman T, Kokane S, Marklund EG, Elofsson A, Leppert A, Landreh M · QRB discovery · 2026

Quinones operate as proton-collecting antennas in energy-transducing membranes.

Beghiah A, Bagheri N, Badolato S, Kim H, Sil TB, Pöverlein MC, Widengren J, Kaila VRI · Proceedings of the National Academy of Sciences of the United States of America · 2026

A two-step mechanism for sugar translocation.

Ahn DH, Alleva C, Reichenbach T, Gulati A, Ruda A, Bonaccorsi M, Silberberg JM, Claesson M, Suades A, Delemotte L, Widmalm G, Drew D · Nature structural & molecular biology · 2026

NorQD AAA+ complex drives metal insertion by a twisting mechanism.

Kahle M, Appelgren S, König F, Carroni M, Ädelroth P, Wendler P · Nature communications · 2026

Structure-function analysis of the bacterial ClpE-ClpP AAA+ protease.

De Rosa M, Maag L, Flemming D, Sinning I, Carroni M, Mogk A · The Journal of biological chemistry · 2026

Evaluating deep learning based structure prediction methods on antibody-antigen complexes.

Fromm S, Ludaic M, Elofsson A · Bioinformatics (Oxford, England) · 2026

From molecular dynamics to cryo-EM: Imaging liposomes in silico.

Sharma K, Heberle FA, Doktorova M · Methods in enzymology · 2026

Lipid-Facilitated Opening of the ADAM10 Sheddase Revealed by Enhanced Sampling Simulations.

Schahl A, Haloi N, Carroni M, Zhang S, Sattentau QJ, Sezgin E, Delemotte L, Howard RJ · Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026

Protein-induced membrane strain drives supercomplex formation.

Pöverlein MC, Jussupow A, Kim H, Kaila VRI · eLife · 2026

Structural basis of caveolin-driven membrane bending.

Connelly SM, Bergner L, Tiwari A, Brant TS, Medford S, Ramesh S, Tidwell ED, Yoo Y, Xiao K, Gentry J, Chang L, Han B, et al. · bioRxiv : the preprint server for biology · 2026

A deep learning framework for comprehensive prediction of human RNA G-quadruplex-binding proteins.

Rosignoli S, Taraglio S, Di Luzio F, Lustrino E, Marzella D, Elofsson A, Panella M, Paiardini A · Bioinformatics (Oxford, England) · 2026

Ceramide metabolism in oxidative and glycolytic muscle: Significance for lipid-induced insulin resistance.

Eurén T, Flockhart M, Strmeň T, Zhou X, Horwath O, Apró W, Blackwood SJ, Tischer D, Moberg M, Steneberg P, Edlund H, Katz A, et al. · Molecular metabolism · 2026

Single-shot design of a cyclic peptide inhibitor of HIV membrane fusion.

Daumiller D, Giammarino F, Li Q, Sönnerborg A, Ceña Diez R, Bryant P · Antiviral research · 2026

Blind Prediction of Complex Water and Ion Ensembles Around RNA in CASP16.

Kretsch RC, Posani E, Baulin EF, Bujnicki JM, Bussi G, Cheatham TE 3rd, Chen SJ, Elofsson A, Farsani MA, Fisher ON, Gromiha MM, Gupta A, et al. · Proteins · 2026

AlphaFold3 at CASP16.

Elofsson A · Proteins · 2026

Engaging the Community: CASP Special Interest Groups.

Elofsson A, Kretsch RC, Magnus M, Montelione GT · Proteins · 2026

Mass spectrometric profiling reveals alterations in N-Glycans and O-Glycans in Tay-Sachs disease under Autophagy-Induced conditions.

Can M, Basirli H, Jin C, Karlsson NG, Bojar D, Seyrantepe V · Glycoconjugate journal · 2025

Bridging worlds: connecting glycan representations with glycoinformatics via Universal Input and a canonicalized nomenclature.

Urban J, Joeres R, Bojar D · Bioinformatics advances · 2025

Follow-up and Outcomes of Infants Perinatally-exposed to HIV in a Low-prevalence Setting: The Multicenter Children's HIV Exposure Study 2.

Bryant PA, Bartlett AW, Bowen A, Caukill E, Connell T, Fairhead L, Ford TJ, Francis JR, Giles ML, Hilder M, Griffin P, Khatami A, et al. · Journal of the Pediatric Infectious Diseases Society · 2025

GlyContact analyzes glycan 3D structures at scale.

Thomès L, Joeres R, Akdeniz Z, Bojar D · Nature communications · 2025

Structural basis of specific lysine transport by Pseudomonas aeruginosa permease LysP.

Bicer D, Matsuoka R, Moumbock AFA, Sukumar P, Suades A, Cheruvara H, Quigley A, Drew D, Pardon E, Steyaert J, Henderson PJF, Caffrey M, et al. · Nature communications · 2025

Development of DARPin T cell engagers for specific targeting of tumor-associated HLA/peptide complexes.

Venetz-Arenas N, Schulte T, Müller S, Wallden K, Fischer S, Resink T, Kadri N, Paladino M, Pina N, Radom F, Villemagne D, Bruckmaier S, et al. · iScience · 2025

Seal milk oligosaccharides rival human milk complexity and exhibit functional dynamics during lactation.

Jin C, Lundstrøm J, Cori CR, Guu SY, Bennett AR, Dannborg M, Pomeroy PP, Kennedy MW, Bengtsson-Palme J, Hevey R, Khoo KH, Bojar D · Nature communications · 2025

Blind prediction of complex water and ion ensembles around RNA in CASP16.

Kretsch RC, Posani E, Baulin EF, Bujnicki JM, Bussi G, Cheatham TE 3rd, Chen SJ, Elofsson A, Farsani MA, Fisher ON, Gromiha MM, Gupta A, et al. · bioRxiv : the preprint server for biology · 2025

Eutherian mammals exhibit a greater capacity for cold acclimation than marsupials and birds: a comparative analysis.

Del Basto F, Sabat P, Quintero-Galvis JF, Camus I, Espinoza A, Jastroch M, Nespolo RF · The Journal of experimental biology · 2025

Pooled overexpression screening identifies PIPPI as a novel microprotein involved in the ER stress response.

Lafranchi L, Raja GL, Arenas AM, Spinner A, Shrung KR, Hornisch M, Schlesinger D, Luzon CN, Brinkenstråhle L, Shao R, Piazza I, Lehtiö J, et al. · Nucleic acids research · 2025

Is Predisposition to T2D Impacted by Polymorphisms in Genes Involved in Insulin Signaling and Cellular Bioenergetics?

Pati B, Jastroch M, Bal NC · Acta physiologica (Oxford, England) · 2025

A novel model for proton transport mediated by uncoupling protein 1.

Jacobsen L, Menon S, Gaudry MJ, Hakami Zanjani AA, Reinholdt P, Jastroch M, Khandelia H · Protein science : a publication of the Protein Society · 2025

Structure of the central Staphylococcus aureus AAA+ protease MecA/ClpC/ClpP.

Azinas S, Wallden K, Katikaridis P, Jenne T, Schahl A, Mogk A, Carroni M · Communications biology · 2025

Allosteric control of the bacterial ClpC/ClpP protease and its hijacking by antibacterial peptides.

Jenne T, Engelhardt L, Baronaite I, Levy D, Riven I, Malolepszy M, Azinas S, Sych T, Sezgin E, Flemming D, Sinning I, Haran G, et al. · The EMBO journal · 2025

Natural Mutation in Naked Mole-Rat UCP1 Refutes Importance of the Histidine Pair Motif for Proton Conductance and Thermogenesis.

Gaudry MJ, Bundgaard A, Kutschke M, Ostatek K, Dela Rosa MAS, Crichton PG, Reznick J, Jastroch M · Acta physiologica (Oxford, England) · 2025

Serum N-glycosylation is altered in Nephropathic Cystinosis.

Cislaru A, Saldova R, Heggenstaller A, Nigrovic PA, Harlin E, Greville G, De Andrade Moral R, Bojar D, Awan A, O'Flaherty R · Glycobiology · 2025

Plasma membrane asymmetry and lipid homeostasis: general discussion.

Barerra F, Bibrowski M, Conboy J, Decker NP, Deserno M, Dimova R, Doktorova M, Enoki T, Farago O, Feigenson GW, Fellows AP, Golani G, et al. · Faraday discussions · 2025

Proteins in asymmetric membranes: general discussion.

Barrera FN, Cooney A, Decker NP, Deserno M, Doktorova M, Enoki TA, Fellows AP, Fiorin G, Golani G, Huster D, Kaur M, Levental I, et al. · Faraday discussions · 2025

Engineering plasma membrane mimics: general discussion.

Barrera F, Bibrowski M, Conboy JC, Cooney A, Deserno M, Dimova R, Doktorova M, Enoki TA, Farago O, Fellows AP, Gericke A, Giacomello A, et al. · Faraday discussions · 2025

Structure and dynamics of asymmetric membranes: general discussion.

Andreghetti D, Barrera FN, Conboy JC, Connell S, Cooney A, Deng Z, Deserno M, Dimova R, Doktorova M, Enoki TA, Farago O, Feigenson GW, et al. · Faraday discussions · 2025

CLIPPERs - Clip the right protein - a new tool for targeted proteolysis in bacteria.

Carroni M · EMBO reports · 2025

Design of linear and cyclic peptide binders from protein sequence information.

Li Q, Vlachos EN, Bryant P · Communications chemistry · 2025

Editorial overview: Sequences and topology (2025).

Elofsson A, Kolodny R · Current opinion in structural biology · 2025

AI-first structural identification of pathogenic protein target interfaces.

Saluri M, Landreh M, Bryant P · PLoS computational biology · 2025

Xylem Parenchyma Anatomy and Gene Expression Patterns Indicate Mechanisms of Cavitation Resistance in Eucalyptus grandis During Drought.

Keret R, Hills PN, Drew DM · Plant-environment interactions (Hoboken, N.J.) · 2025

Modified chlorophyll pigment at Chl(D1) tunes photosystem II beyond the red-light limit.

Allgöwer F, Sirohiwal A, Gamiz-Hernandez AP, Pöverlein MC, Fantuzzi A, Rutherford AW, Kaila VRI · Chemical science · 2025

Stepwise ATP translocation into the endoplasmic reticulum by human SLC35B1.

Gulati A, Ahn DH, Suades A, Hult Y, Wolf G, Iwata S, Superti-Furga G, Nomura N, Drew D · Nature · 2025

Single-cell RNA-sequencing reveals early mitochondrial dysfunction unique to motor neurons shared across FUS- and TARDBP-ALS.

Schweingruber C, Nijssen J, Mechtersheimer J, Reber S, Lebœuf M, O'Brien NL, Mei I, Hedges E, Keuper M, Benitez JA, Radoi V, Jastroch M, et al. · Nature communications · 2025

Mitochondrial Bioenergetics in Physiology.

Jastroch M, Keuper M · Acta physiologica (Oxford, England) · 2025

Structure and Inhibition of the Human Na(+)/H(+) Exchanger SLC9B2.

Jung S, Kokane S, Li H, Iwata S, Nomura N, Drew D · International journal of molecular sciences · 2025

Immune cell activation produces locally scrambled foci of plasma membrane lipids.

Sputay D, Doktorova M, Chan SH, Guo EH, Wang HY, Lorent JH, Levental I, Levental KR · Faraday discussions · 2025

Pervasive glycative stress links metabolic imbalance and muscle atrophy in early-onset Parkinson's disease.

de Mello NP, Berger MT, Lagerborg KA, Yan Y, Wettmarshausen J, Keipert S, Weidner L, Tokarz J, Möller G, Ciciliot S, Walia S, Cheng Y, et al. · Molecular metabolism · 2025

Exploring the sensitivities of experimental techniques to various types of membrane asymmetry using atomistic simulations.

Heberle FA, Doktorova M · Faraday discussions · 2025

Engineering cardiolipin binding to an artificial membrane protein reveals determinants for lipid-mediated stabilization.

Abramsson ML, Corey RA, Skerle JL, Persson LJ, Anden O, Oluwole AO, Howard RJ, Lindahl E, Robinson CV, Strisovsky K, Marklund EG, Drew D, et al. · eLife · 2025

A CRISPR homing screen finds a chloroquine resistance transporter-like protein of the Plasmodium oocyst essential for mosquito transmission of malaria.

Balakrishnan A, Hunziker M, Tiwary P, Pandey V, Drew D, Billker O · Nature communications · 2025

PIP(2)-mediated oligomerization of the endosomal sodium/proton exchanger NHE9.

Kokane S, Gulati A, Meier PF, Matsuoka R, Pipatpolkai T, Albano G, Ho TM, Delemotte L, Fuster D, Drew D · Nature communications · 2025

A leigh syndrome mutation perturbs long-range energy coupling in respiratory complex I.

Hoeser F, Saura P, Harter C, Kaila VRI, Friedrich T · Chemical science · 2025

Benchmarking of Quantitative Proteomics Workflows for Limited Proteolysis Mass Spectrometry.

Koudelka T, Bassot C, Piazza I · Molecular & cellular proteomics : MCP · 2025

Molecular principles of redox-coupled sodium pumping of the ancient Rnf machinery.

Kumar A, Roth J, Kim H, Saura P, Bohn S, Reif-Trauttmansdorff T, Schubert A, Kaila VRI, Schuller JM, Müller V · Nature communications · 2025

Molecular Principles of Proton-Coupled Quinone Reduction in the Membrane-Bound Superoxide Oxidase.

Riepl D, Abou-Hamdan A, Gellner J, Biner O, Sjöstrand D, Högbom M, von Ballmoos C, Kaila VRI · Journal of the American Chemical Society · 2025

Compositional data analysis enables statistical rigor in comparative glycomics.

Bennett AR, Lundstrøm J, Chatterjee S, Thaysen-Andersen M, Bojar D · Nature communications · 2025

Absence of MCJ/DnaJC15 promotes brown adipose tissue thermogenesis.

Cicuéndez B, Mora A, López JA, Curtabbi A, Pérez-García J, Porteiro B, Jimenez-Blasco D, Latorre-Muro P, Vo P, Jerome M, Gómez-Santos B, Romero-Becerra R, et al. · Nature communications · 2025

Lipoproteins and lipoprotein lipid composition are associated with stages of dysglycemia and subclinical coronary atherosclerosis.

Gigante B, Chen Q, Björkbacka H, Björnson E, Brinck J, Chorell E, Djekic D, Edsfeldt A, Engström G, Eriksson JW, Gottsäter A, Gummesson A, et al. · International journal of cardiology · 2025

Navigating the maze of mass spectra: a machine-learning guide to identifying diagnostic ions in O-glycan analysis.

Urban J, Joeres R, Thomès L, Thomsson KA, Bojar D · Analytical and bioanalytical chemistry · 2025

Mechanism of proton release during water oxidation in Photosystem II.

Allgöwer F, Pöverlein MC, Rutherford AW, Kaila VRI · Proceedings of the National Academy of Sciences of the United States of America · 2024

O-glycosylation contributes to mammalian glycoRNA biogenesis.

Porat J, Watkins CP, Jin C, Xie X, Tan X, Lebedenko CG, Hemberger H, Shin W, Chai P, Collins JJ, Garcia BA, Bojar D, et al. · bioRxiv : the preprint server for biology · 2024

Structure prediction of alternative protein conformations.

Bryant P, Noé F · Nature communications · 2024

Improved protein complex prediction with AlphaFold-multimer by denoising the MSA profile.

Bryant P, Noé F · PLoS computational biology · 2024

Combination of Measurements of the Top Quark Mass from Data Collected by the ATLAS and CMS Experiments at sqrt[s]=7 and 8 TeV.

Hayrapetyan A, Tumasyan A, Adam W, Andrejkovic JW, Bergauer T, Chatterjee S, Damanakis K, Dragicevic M, Hussain PS, Jeitler M, Krammer N, Li A, et al. · Physical review letters · 2024

Myofiber-specific lipidomics unveil differential contributions to insulin sensitivity in individuals of African and European ancestry.

Eurén T, Gower B, Steneberg P, Wilson A, Edlund H, Chorell E · Heliyon · 2024

Defining complicated urinary tract infection and route of antibiotics in children presenting to the emergency department: a cohort study using the Melbourne RUPERT clinical score.

Scanlan BT, Ibrahim LF, Babl FE, Hopper SM, McNab S, Donath SM, Davidson A, Bryant PA · BMJ open · 2024

Metabolite interactions in the bacterial Calvin cycle and implications for flux regulation.

Sporre E, Karlsen J, Schriever K, Asplund-Samuelsson J, Janasch M, Strandberg L, Karlsson A, Kotol D, Zeckey L, Piazza I, Syrén PO, Edfors F, et al. · Communications biology · 2023

The potential of cross-linking mass spectrometry in the development of protein-protein interaction modulators.

Ruwolt M, Piazza I, Liu F · Current opinion in structural biology · 2023

Author Correction: Proteome-wide structural changes measured with limited proteolysis-mass spectrometry: an advanced protocol for high-throughput applications.

Malinovska L, Cappelletti V, Kohler D, Piazza I, Tsai TH, Pepelnjak M, Stalder P, Dörig C, Sesterhenn F, Elsässer F, Kralickova L, Beaton N, et al. · Nature protocols · 2023

Proteome-wide structural changes measured with limited proteolysis-mass spectrometry: an advanced protocol for high-throughput applications.

Malinovska L, Cappelletti V, Kohler D, Piazza I, Tsai TH, Pepelnjak M, Stalder P, Dörig C, Sesterhenn F, Elsässer F, Kralickova L, Beaton N, et al. · Nature protocols · 2023

Genetic Mimicry Analysis Reveals the Specific Lipases Targeted by the ANGPTL3-ANGPTL8 Complex and ANGPTL4.

Landfors F, Chorell E, Kersten S · Journal of lipid research · 2023

Improved Peripheral and Hepatic Insulin Sensitivity after Lifestyle Interventions in Type 2 Diabetes Is Associated with Specific Metabolomic and Lipidomic Signatures in Skeletal Muscle and Plasma.

Chorell E, Otten J, Stomby A, Ryberg M, Waling M, Hauksson J, Svensson M, Olsson T · Metabolites · 2021

The rise of proteome-wide biophysics.

Mateus A, Savitski MM, Piazza I · Molecular systems biology · 2021

Exercise training improves mitochondrial respiration and is associated with an altered intramuscular phospholipid signature in women with obesity.

Mendham AE, Goedecke JH, Zeng Y, Larsen S, George C, Hauksson J, Fortuin-de Smidt MC, Chibalin AV, Olsson T, Chorell E · Diabetologia · 2021

Dynamic 3D proteomes reveal protein functional alterations at high resolution in situ.

Cappelletti V, Hauser T, Piazza I, Pepelnjak M, Malinovska L, Fuhrer T, Li Y, Dörig C, Boersema P, Gillet L, Grossbach J, Dugourd A, et al. · Cell · 2021

Fatty Acid Metabolism and Associations with Insulin Sensitivity Differs Between Black and White South African Women.

Goedecke JH, Chorell E, van Jaarsveld PJ, Risérus U, Olsson T · The Journal of clinical endocrinology and metabolism · 2021

Circulating and Adipose Tissue Fatty Acid Composition in Black South African Women with Obesity: A Cross-Sectional Study.

Nankam PAN, Jaarsveld PJV, Chorell E, Smidt MCF, Adams K, Blüher M, Olsson T, Mendham AE, Goedecke JH · Nutrients · 2020