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Open AccessSARS-COV-2 Omicron variants conformationally escape a rare quaternary antibody binding mode
The ongoing evolution of SARS-CoV-2 into more easily transmissible and infectious variants has provided unprecedented insight into mutations enabling immune escape. Understanding how these mutations affect the...
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Open AccessIntegrated modeling of the Nexin-dynein regulatory complex reveals its regulatory mechanism
Cilia are hairlike protrusions that project from the surface of eukaryotic cells and play key roles in cell signaling and motility. Ciliary motility is regulated by the conserved nexin-dynein regulatory comple...
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Open AccessMolecular complex detection in protein interaction networks through reinforcement learning
Proteins often assemble into higher-order complexes to perform their biological functions. Such protein–protein interactions (PPI) are often experimentally measured for pairs of proteins and summarized in a we...
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Open AccessNative doublet microtubules from Tetrahymena thermophila reveal the importance of outer junction proteins
Cilia are ubiquitous eukaryotic organelles responsible for cellular motility and sensory functions. The ciliary axoneme is a microtubule-based cytoskeleton consisting of two central singlets and nine outer dou...
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Open AccessDoes AlphaFold2 model proteins’ intracellular conformations? An experimental test using cross-linking mass spectrometry of endogenous ciliary proteins
A major goal in structural biology is to understand protein assemblies in their biologically relevant states. Here, we investigate whether AlphaFold2 structure predictions match native protein conformations. W...
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Understudied proteins: opportunities and challenges for functional proteomics
Most research aiming at understanding the molecular foundations of life and disease has focused on a limited set of increasingly well-known proteins while the biological functions of many others remain poorly ...
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An open invitation to the Understudied Proteins Initiative
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Open AccessFunctional expression of opioid receptors and other human GPCRs in yeast engineered to produce human sterols
The yeast Saccharomyces cerevisiae is powerful for studying human G protein-coupled receptors as they can be coupled to its mating pathway. However, some receptors, including the mu opioid receptor, are non-funct...
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The emerging landscape of single-molecule protein sequencing technologies
Single-cell profiling methods have had a profound impact on the understanding of cellular heterogeneity. While genomes and transcriptomes can be explored at the single-cell level, single-cell profiling of prot...
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Highly parallel single-molecule identification of proteins in zeptomole-scale mixtures
Single-protein molecules are identified in parallel through fluorescence monitoring of Edman degradation.
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Open AccessA highly parallel strategy for storage of digital information in living cells
Encoding arbitrary digital information in DNA has attracted attention as a potential avenue for large scale and long term data storage. However, in order to enable DNA data storage technologies there needs to ...
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Paternal chromosome loss and metabolic crisis contribute to hybrid inviability in Xenopus
In hybrid inviability between Xenopus laevis and Xenopus tropicalis, genomic regions on two X. laevis chromosomes are incompatible with the X. tropicalis cytoplasm and are mis-segregated during mitosis, leading t...
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Metabolic crosstalk regulates Porphyromonas gingivalis colonization and virulence during oral polymicrobial infection
Many human infections are polymicrobial in origin, and interactions among community inhabitants shape colonization patterns and pathogenic potential 1 . Periodontitis, which is t...
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Open AccessThe E. coli molecular phenotype under different growth conditions
Modern systems biology requires extensive, carefully curated measurements of cellular components in response to different environmental conditions. While high-throughput methods have made transcriptomics and p...
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Open AccessLarge-scale analysis of post-translational modifications in E. coli under glucose-limiting conditions
Post-translational modification (PTM) of proteins is central to many cellular processes across all domains of life, but despite decades of study and a wealth of genomic and proteomic data the biological functi...
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Open AccessTemporal stability and molecular persistence of the bone marrow plasma cell antibody repertoire
Plasma cells in human bone marrow (BM) are thought to be responsible for sustaining lifelong immunity, but its underlying basis is controversial. Here we use high-throughput sequence analysis of the same indiv...
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Molecular-level analysis of the serum antibody repertoire in young adults before and after seasonal influenza vaccination
Antibodies that bind to both H1 and H3 influenza strains exist in the pre-vaccination serum repertoire of healthy adults; most vaccine-elicited clonotypes bind either H1 or H3 strains.
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Open AccessGenome evolution in the allotetraploid frog Xenopus laevis
To explore the origins and consequences of tetraploidy in the African clawed frog, we sequenced the Xenopus laevis genome and compared it to the related diploid X. tropicalis genome. We characterize the allotetra...
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Correction: Corrigendum: The ciliopathy-associated CPLANE proteins direct basal body recruitment of intraflagellar transport machinery
Nat. Genet. 48, 648–656 (2016); published online 9 May 2016; corrected after print 30 May 2016 In the version of this article initially published, the name of author Daniela A. Braun was misspelled. The error ...
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The ciliopathy-associated CPLANE proteins direct basal body recruitment of intraflagellar transport machinery
John Wallingford and colleagues combine proteomics, in vivo imaging and genetic analyses to identify a new ciliopathy-associated protein module, which they call CPLANE. They show that CPLANE proteins, which inclu...
