Designed peptides that assemble into cross-α amyloid-like structures

Posted on Jul 30th, 2018 - By Shao-Qing Zhang

Designed peptides that assemble into cross-α amyloid-like structuresDesigned peptides that assemble into cross-α amyloid-like structures, Published online: 30 July 2018; doi:10.1038/s41589-018-0105-5Structural analysis reveals how certain designed peptides adopt unusual spiraling cross-α amyloid-like structures and also rearrange to helical polymers upon mutation of small nonpolar residues that are critical for packing and…

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Monitoring hippocampal glycine with the computationally designed optical sensor GlyFS

Posted on Jul 30th, 2018 - By William H. Zhang

Monitoring hippocampal glycine with the computationally designed optical sensor GlyFSMonitoring hippocampal glycine with the computationally designed optical sensor GlyFS, Published online: 30 July 2018; doi:10.1038/s41589-018-0108-2A genetically encoded FRET-based optical sensor generated from a computational design approach can monitor hippocampal glycine levels in brain tissue to determine differences between spines and shafts and changes induced by high- and low-frequency…

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A multicolor riboswitch-based platform for imaging of RNA in live mammalian cells

Posted on Jul 30th, 2018 - By Esther Braselmann

A multicolor riboswitch-based platform for imaging of RNA in live mammalian cellsA multicolor riboswitch-based platform for imaging of RNA in live mammalian cells, Published online: 30 July 2018; doi:10.1038/s41589-018-0103-7A new riboswitch-based RNA sensor called Riboglow binds to quenched fluorescent probes to induce fluorescence turn-on. Riboglow enables tagging and tracking of mRNA and short noncoding RNAs with different colored fluorophores in live mammalian…

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Gramibactin is a bacterial siderophore with a diazeniumdiolate ligand system

Posted on Jul 30th, 2018 - By Ron Hermenau

Gramibactin is a bacterial siderophore with a diazeniumdiolate ligand systemGramibactin is a bacterial siderophore with a diazeniumdiolate ligand system, Published online: 30 July 2018; doi:10.1038/s41589-018-0101-9Plant-associated rhizosphere bacteria produce gramibactin, a cyclic lipodepsipeptide siderophore that tightly binds iron via an unexpected functional group, the N-nitrosohydroxylamine (diazeniumdiolate) moieties of the amino acid…

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Crowd control

Posted on Jul 17th, 2018 - By Grant Miura

Crowd controlCrowd control, Published online: 17 July 2018; doi:10.1038/s41589-018-0109-1Crowd…

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3D interaction hubs

Posted on Jul 17th, 2018 - By Yiyun Song

3D interaction hubs3D interaction hubs, Published online: 17 July 2018; doi:10.1038/s41589-018-0112-63D interaction…

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Antigen processing movers and shakers

Posted on Jul 17th, 2018 - By Tim Elliott

Antigen processing movers and shakersAntigen processing movers and shakers, Published online: 17 July 2018; doi:10.1038/s41589-018-0106-4Monitoring MHC-I dynamics upon binding to its chaperone TAPBPR helps us understand how optimal peptide sequences are selected for presentation and coordinated with release of the chaperone from the ternary peptide–MHC-I–TAPBPR…

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Caught in the act

Posted on Jul 17th, 2018 - By Karin Kuehnel

Caught in the actCaught in the act, Published online: 17 July 2018; doi:10.1038/s41589-018-0110-8Caught in the…

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Dopamine gets lit

Posted on Jul 17th, 2018 - By Mirella Bucci

Dopamine gets litDopamine gets lit, Published online: 17 July 2018; doi:10.1038/s41589-018-0111-7Dopamine gets…

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A remote control for switching

Posted on Jul 17th, 2018 - By Marc Vendrell

A remote control for switchingA remote control for switching, Published online: 17 July 2018; doi:10.1038/s41589-018-0107-3Calcium channels are crucial regulators of a broad range of biological processes. A photoswitchable chemical probe allows the opening and closing of these channels with unprecedented temporal resolution, providing new opportunities to study calcium-dependent signaling pathways in real…

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Facile target validation in an animal model with intracellularly expressed monobodies

Posted on Jul 16th, 2018 - By Ankit Gupta

Facile target validation in an animal model with intracellularly expressed monobodiesFacile target validation in an animal model with intracellularly expressed monobodies, Published online: 16 July 2018; doi:10.1038/s41589-018-0099-zThe development of a selective and potent monobody to WDR5, a component of the mixed linear leukemia methyltransferase complex, as genetically encoded inhibitor enables suppression of leukemogenesis and confers survival in a mouse leukemia…

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Acetylation blocks DNA damage–induced chromatin ADP-ribosylation

Posted on Jul 16th, 2018 - By Glen Liszczak

Acetylation blocks DNA damage–induced chromatin ADP-ribosylationAcetylation blocks DNA damage–induced chromatin ADP-ribosylation, Published online: 16 July 2018; doi:10.1038/s41589-018-0097-1Histone H3 serine 10 is found to be the major chromatin acceptor residue for DNA damage–induced ADP-ribosylation and is blocked by specific acetylation sites on PARP1 and/or…

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PAINTing translation

Posted on Jul 9th, 2018 - By Yuichiro Mishima

PAINTing translationPAINTing translation, Published online: 09 July 2018; doi:10.1038/s41589-018-0102-8Establishment of the germ cell lineage requires post-transcriptional regulation of mRNAs, yet the underlying molecular mechanisms are not fully understood in vertebrates. A small-molecule inhibitor of germ cell formation reveals a noncanonical translation system used in zebrafish…

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Noncanonical translation via deadenylated 3′ UTRs maintains primordial germ cells

Posted on Jul 9th, 2018 - By Youngnam N. Jin

Noncanonical translation via deadenylated 3′ UTRs maintains primordial germ cellsNoncanonical translation via deadenylated 3′ UTRs maintains primordial germ cells, Published online: 09 July 2018; doi:10.1038/s41589-018-0098-0Primordazine inhibits poly(A)-tail-independent noncanonical translation (PAINT) in early zebrafish embryos and in mammalian cells under select conditions, an effect mediated by deadenylated 3ʹ UTRs that results in ablation of primordial germ…

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Peptide exchange on MHC-I by TAPBPR is driven by a negative allostery release cycle

Posted on Jul 9th, 2018 - By Andrew C. McShan

Peptide exchange on MHC-I by TAPBPR is driven by a negative allostery release cyclePeptide exchange on MHC-I by TAPBPR is driven by a negative allostery release cycle, Published online: 09 July 2018; doi:10.1038/s41589-018-0096-2Use of NMR to monitor MHC-I dynamics upon binding to the MHC-I chaperone TAPBPR explains the selection of optimal peptide sequences and release of the chaperone from the ternary peptide-MHC-I–TAPBPR…

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Publisher Correction: The Jumonji-C oxygenase JMJD7 catalyzes (3<i>S</i>)-lysyl hydroxylation of TRAFAC GTPases

Posted on Jun 27th, 2018 - By Suzana Markolovic

Publisher Correction: The Jumonji-C oxygenase JMJD7 catalyzes (3S)-lysyl hydroxylation of TRAFAC GTPasesPublisher Correction: The Jumonji-C oxygenase JMJD7 catalyzes (3<i>S</i>)-lysyl hydroxylation of TRAFAC GTPases, Published online: 27 June 2018; doi:10.1038/s41589-018-0104-6Publisher Correction: The Jumonji-C oxygenase JMJD7 catalyzes (3S)-lysyl hydroxylation of TRAFAC…

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Sarpagan bridge enzyme has substrate-controlled cyclization and aromatization modes

Posted on Jun 25th, 2018 - By Thu-Thuy T. Dang

Sarpagan bridge enzyme has substrate-controlled cyclization and aromatization modesSarpagan bridge enzyme has substrate-controlled cyclization and aromatization modes, Published online: 25 June 2018; doi:10.1038/s41589-018-0078-4Three homologous cytochrome P450s from monoterpene indole alkaloid-producing plants enable the identification of sarpagan bridge enzyme, which catalyzes either cyclization or aromatization to yield sarpagan or β-carboline alkaloids,…

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Metabolic engineering of a carbapenem antibiotic synthesis pathway in <i>Escherichia coli</i>

Posted on Jun 25th, 2018 - By Helena Shomar

Metabolic engineering of a carbapenem antibiotic synthesis pathway in Escherichia coliMetabolic engineering of a carbapenem antibiotic synthesis pathway in <i>Escherichia coli</i>, Published online: 25 June 2018; doi:10.1038/s41589-018-0084-6Efficient production of a simple carbapenem antibiotic in Escherichia coli is achieved by a combination of feedback-resistant enzymes for increased precursor biosynthesis and inhibition of fatty acid synthesis for tolerance toward the toxic…

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Cleavage of a carbon–fluorine bond by an engineered cysteine dioxygenase

Posted on Jun 25th, 2018 - By Jiasong Li

Cleavage of a carbon–fluorine bond by an engineered cysteine dioxygenaseCleavage of a carbon–fluorine bond by an engineered cysteine dioxygenase, Published online: 25 June 2018; doi:10.1038/s41589-018-0085-5Engineered variants of cysteine dioxygenase containing a halogen-substituted tyrosine analog provide insights into the process of Cys–Tyr cross-link formation and indicate that the enzyme can catalyze oxidative cleavage of a carbon–fluorine…

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Kinome rewiring reveals AURKA limits PI3K-pathway inhibitor efficacy in breast cancer

Posted on Jun 25th, 2018 - By Hayley J. Donnella

Kinome rewiring reveals AURKA limits PI3K-pathway inhibitor efficacy in breast cancerKinome rewiring reveals AURKA limits PI3K-pathway inhibitor efficacy in breast cancer, Published online: 25 June 2018; doi:10.1038/s41589-018-0081-9Proteomic mapping of dynamic changes in kinase signaling after drug treatment identifies that AURKA inhibition is required for drug sensitivity, representing a new co-targeting opportunity with PI3K, AKT, or mTOR inhibitors in breast…

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Unraveling the rewired network

Posted on Jun 25th, 2018 - By Vinayak Palve

Unraveling the rewired networkUnraveling the rewired network, Published online: 25 June 2018; doi:10.1038/s41589-018-0083-7Adaptive survival signaling can promote resistance to individual kinase inhibitors. A new study used a pathway-based approach to characterize shared kinome-wide rewiring mechanisms across multiple kinase inhibitors and developed rational drug-combination approaches that target cross-talk between two signaling…

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Designing microbial consortia with defined social interactions

Posted on Jun 25th, 2018 - By Wentao Kong

Designing microbial consortia with defined social interactionsDesigning microbial consortia with defined social interactions, Published online: 25 June 2018; doi:10.1038/s41589-018-0091-7Synthetic microbial consortia were engineered as experimental models of bacterial interactions within ecosystems, and mathematical models of their behavior were used to design more complex microbial systems with additional…

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Single-molecule probing of the conformational homogeneity of the ABC transporter BtuCD

Posted on Jun 18th, 2018 - By Min Yang

Single-molecule probing of the conformational homogeneity of the ABC transporter BtuCDSingle-molecule probing of the conformational homogeneity of the ABC transporter BtuCD, Published online: 18 June 2018; doi:10.1038/s41589-018-0088-2A single-molecule approach combined with molecular dynamics simulations to examine the conformational dynamics of the Escherichia coli ABC transporter BtuCD defines a coordinated sequence of events leading to unidirectional…

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Scavenging of superoxide by a membrane-bound superoxide oxidase

Posted on Jun 18th, 2018 - By Camilla A. K. Lundgren

Scavenging of superoxide by a membrane-bound superoxide oxidaseScavenging of superoxide by a membrane-bound superoxide oxidase, Published online: 18 June 2018; doi:10.1038/s41589-018-0072-xThe membrane-bound enzyme CybB can directly oxidize superoxide to molecular oxygen and transfer the sequestered electrons to ubiquinone in vitro, providing a mechanism for superoxide scavenging distinct from that of superoxide…

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The anti-staphylococcal lipolanthines are ribosomally synthesized lipopeptides

Posted on Jun 18th, 2018 - By Vincent Wiebach

The anti-staphylococcal lipolanthines are ribosomally synthesized lipopeptidesThe anti-staphylococcal lipolanthines are ribosomally synthesized lipopeptides, Published online: 18 June 2018; doi:10.1038/s41589-018-0068-6The antibacterial microvionin contains two new lanthipeptide modifications, a triamino-dicarboxylic acid (avionin) and an N-terminal guanidino fatty acid, that lead to the establishment of the lipolanthine natural product…

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The Jumonji-C oxygenase JMJD7 catalyzes (3<i>S</i>)-lysyl hydroxylation of TRAFAC GTPases

Posted on Jun 18th, 2018 - By Suzana Markolovic

The Jumonji-C oxygenase JMJD7 catalyzes (3S)-lysyl hydroxylation of TRAFAC GTPasesThe Jumonji-C oxygenase JMJD7 catalyzes (3<i>S</i>)-lysyl hydroxylation of TRAFAC GTPases, Published online: 18 June 2018; doi:10.1038/s41589-018-0071-yStructural, biochemical and cellular studies reveal JMJD7 to be a Jumonji-C oxygenase that catalyzes (3S)-lysyl hydroxylation of the translation factor family of GTPases, DRG1 and…

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Vitamin B<sub>12</sub> import is all about timing

Posted on Jun 18th, 2018 - By Lutz Schmitt

Vitamin B12 import is all about timingVitamin B<sub>12</sub> import is all about timing, Published online: 18 June 2018; doi:10.1038/s41589-018-0087-3Single-molecule techniques combined with molecular dynamics simulations allowed visualization of a surprisingly high level of conformational homogeneity in the transport cycle of an ABC import system, BtuCD-F, and revealed an unexpected tight coupling of distinct conformational states responsible for vitamin B12 binding, transport and…

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Please hold for chaperones

Posted on Jun 18th, 2018 - By Caitlin Deane

Please hold for chaperonesPlease hold for chaperones, Published online: 18 June 2018; doi:10.1038/s41589-018-0092-6Please hold for…

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Tricks for taking up residence

Posted on Jun 18th, 2018 - By Mirella Bucci

Tricks for taking up residenceTricks for taking up residence, Published online: 18 June 2018; doi:10.1038/s41589-018-0094-4Tricks for taking up…

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Stabilizing synapsis

Posted on Jun 18th, 2018 - By Yiyun Song

Stabilizing synapsisStabilizing synapsis, Published online: 18 June 2018; doi:10.1038/s41589-018-0095-3Stabilizing…

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Linkers for protein degradation

Posted on Jun 11th, 2018 - By Philip P. Chamberlain

Linkers for protein degradationLinkers for protein degradation, Published online: 11 June 2018; doi:10.1038/s41589-018-0057-9The ability to subvert E3 ubiquitin ligases with small-molecule drugs offers tremendous promise for drug discovery. A new study demonstrates how structural and computational techniques can engineer and exploit unnatural protein–protein interfaces to design selective protein…

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Structural and genomic decoding of human and plant myristoylomes reveals a definitive recognition pattern

Posted on Jun 11th, 2018 - By Benoit Castrec

Structural and genomic decoding of human and plant myristoylomes reveals a definitive recognition patternStructural and genomic decoding of human and plant myristoylomes reveals a definitive recognition pattern, Published online: 11 June 2018; doi:10.1038/s41589-018-0077-5Aided by the solving of the structures of human NMT1 with substrate-mimicking peptides, mapping of human and Arabidopsis myristoylomes defines a myristoylation recognition motif and over 1,000 myristoylated protein…

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Plasticity in binding confers selectivity in ligand-induced protein degradation

Posted on Jun 11th, 2018 - By Radosław P. Nowak

Plasticity in binding confers selectivity in ligand-induced protein degradationPlasticity in binding confers selectivity in ligand-induced protein degradation, Published online: 11 June 2018; doi:10.1038/s41589-018-0055-ySelectivity of ligand-induced protein degradation and dimerization is conferred by plastic interprotein contacts. Computational protein–protein docking reveals the underlying interprotein contacts to inform the design of a BRD4 selective…

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Natural separation of the acyl-CoA ligase reaction results in a non-adenylating enzyme

Posted on Jun 4th, 2018 - By Nan Wang

Natural separation of the acyl-CoA ligase reaction results in a non-adenylating enzymeNatural separation of the acyl-CoA ligase reaction results in a non-adenylating enzyme, Published online: 04 June 2018; doi:10.1038/s41589-018-0061-0Functional and structural characterization of PtmA2 reveals that it is an unusual non-adenylating acyl-CoA ligase and part of a system wherein the canonical acyl-CoA ligase reaction is separated into two half-reactions performed by distinct…

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Copper regulates rest-activity cycles through the locus coeruleus-norepinephrine system

Posted on Jun 4th, 2018 - By Tong Xiao

Copper regulates rest-activity cycles through the locus coeruleus-norepinephrine systemCopper regulates rest-activity cycles through the locus coeruleus-norepinephrine system, Published online: 04 June 2018; doi:10.1038/s41589-018-0062-zCopper contributes to regulating zebrafish rest–activity cycles through the locus coeruleus system by modulating the biosynthesis of norepinephrine; brain copper deficiency leads to lower levels of both synaptic norepinephrine and daytime…

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Functional assignment of multiple catabolic pathways for <span class=”small-caps”>d</span>-apiose

Posted on Jun 4th, 2018 - By Michael S. Carter

Functional assignment of multiple catabolic pathways for d-apioseFunctional assignment of multiple catabolic pathways for <span class="small-caps">d</span>-apiose, Published online: 04 June 2018; doi:10.1038/s41589-018-0067-7A bioinformatic strategy beginning with solute-binding proteins involved in sugar transport led to the functional annotation of four previously unknown catabolic pathways of the branched pentose…

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Potent and specific Atg8-targeting autophagy inhibitory peptides from giant ankyrins

Posted on Jun 4th, 2018 - By Jianchao Li

Potent and specific Atg8-targeting autophagy inhibitory peptides from giant ankyrinsPotent and specific Atg8-targeting autophagy inhibitory peptides from giant ankyrins, Published online: 04 June 2018; doi:10.1038/s41589-018-0082-8Potent pan-Atg8 or GABARAP-selective inhibitory peptides derived from giant neuronal ankyrin-B and -G effectively block autophagy in cell cultures and in C. elegans…

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A pathogenesis-related 10 protein catalyzes the final step in thebaine biosynthesis

Posted on May 28th, 2018 - By Xue Chen

A pathogenesis-related 10 protein catalyzes the final step in thebaine biosynthesisA pathogenesis-related 10 protein catalyzes the final step in thebaine biosynthesis, Published online: 28 May 2018; doi:10.1038/s41589-018-0059-7Although the conversion of (7S)-salutaridinol 7-O-acetate to thebaine can occur spontaneously, the identification of a thebaine synthase enzyme that catalyzes the reaction indicates how nature avoids the formation of labile hydroxylated…

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Genome-wide mapping reveals that deoxyuridine is enriched in the human centromeric DNA

Posted on May 21st, 2018 - By Xiaoting Shu

Genome-wide mapping reveals that deoxyuridine is enriched in the human centromeric DNAGenome-wide mapping reveals that deoxyuridine is enriched in the human centromeric DNA, Published online: 21 May 2018; doi:10.1038/s41589-018-0065-9A genome-wide uracil profiling technology (termed “dU-seq”), based on selective labeling and biotin pull-down, reveals that uracil is enriched at the centromere of the human…

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Computational redesign of enzymes for regio- and enantioselective hydroamination

Posted on May 21st, 2018 - By Ruifeng Li

Computational redesign of enzymes for regio- and enantioselective hydroaminationComputational redesign of enzymes for regio- and enantioselective hydroamination, Published online: 21 May 2018; doi:10.1038/s41589-018-0053-0Computational protein design, without subsequent directed evolution, rapidly provides a set of aspartase variants capable of biocatalytic asymmetric addition of ammonia to substituted acrylates, producing various enantiopure β-amino…

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Electron handoff

Posted on May 16th, 2018 - By Caitlin Deane

Electron handoffElectron handoff, Published online: 16 May 2018; doi:10.1038/s41589-018-0073-9Electron…

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Membrane association of monotopic phosphoglycosyl transferase underpins function

Posted on May 16th, 2018 - By Leah C. Ray

Membrane association of monotopic phosphoglycosyl transferase underpins functionMembrane association of monotopic phosphoglycosyl transferase underpins function, Published online: 16 May 2018; doi:10.1038/s41589-018-0054-zThe structure of a monotopic polyprenol phosphate phosphoglycosyl transferase, PglC, reveals how it interacts with the bacterial membrane and coordinates a reaction between membrane-embedded and soluble substrates during glycoconjugate…

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tRNA tracking for direct measurements of protein synthesis kinetics in live cells

Posted on May 16th, 2018 - By Ivan L. Volkov

tRNA tracking for direct measurements of protein synthesis kinetics in live cellstRNA tracking for direct measurements of protein synthesis kinetics in live cells, Published online: 16 May 2018; doi:10.1038/s41589-018-0063-yCombination of single-molecule tracking experiments and machine-learning approaches to monitor diffusional state transitions between ribosome-bound and free tRNAs allows codon resolution measurements of translation…

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Next-generation biocontainment systems for engineered organisms

Posted on May 16th, 2018 - By Jeong Wook Lee

Next-generation biocontainment systems for engineered organismsNext-generation biocontainment systems for engineered organisms, Published online: 16 May 2018; doi:10.1038/s41589-018-0056-xSynthetic biology offers innovative approaches for engineering biological systems, but also supports the development of biocontainment strategies that ensure the safe application of genetically modified…

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Identification of a <i>S. aureus</i> virulence factor by activity-based protein profiling (ABPP)

Posted on May 16th, 2018 - By Christian S. Lentz

Identification of a S. aureus virulence factor by activity-based protein profiling (ABPP)Identification of a <i>S. aureus</i> virulence factor by activity-based protein profiling (ABPP), Published online: 16 May 2018; doi:10.1038/s41589-018-0060-1ABP profiling identifies uncharacterized S. aureus serine hydrolases, including the surface-localized FphB, which processes lipid ester substrates and is required for infection in vivo. An FphB inhibitor reduces in vivo bacterial…

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Functional phosphorylation

Posted on May 16th, 2018 - By Mirella Bucci

Functional phosphorylationFunctional phosphorylation, Published online: 16 May 2018; doi:10.1038/s41589-018-0075-7Functional…

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Tracking tRNA packages

Posted on May 16th, 2018 - By Achillefs N. Kapanidis

Tracking tRNA packagesTracking tRNA packages, Published online: 16 May 2018; doi:10.1038/s41589-018-0066-8Fast, single-molecule tracking microscopy monitors transitions between mobile and ribosome-bound fluorescent tRNAs to achieve nucleotide-resolution measurements of translation rates in living…

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Buffering transition

Posted on May 16th, 2018 - By Yiyun Song

Buffering transitionBuffering transition, Published online: 16 May 2018; doi:10.1038/s41589-018-0076-6Buffering…

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Design of glycosylation sites by rapid synthesis and analysis of glycosyltransferases

Posted on May 7th, 2018 - By Weston Kightlinger

Design of glycosylation sites by rapid synthesis and analysis of glycosyltransferasesDesign of glycosylation sites by rapid synthesis and analysis of glycosyltransferases, Published online: 07 May 2018; doi:10.1038/s41589-018-0051-2The GlycoSCORES method, which involves cell-free protein expression and substrate-site profiling of glycosyltransferase enzymes by SAMDI–MS, enables the identification of glycosylation tags for glycoengineering…

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Publisher Correction: A selective peptide inhibitor of Frizzled 7 receptors disrupts intestinal stem cells

Posted on May 4th, 2018 - By Aaron H. Nile

Publisher Correction: A selective peptide inhibitor of Frizzled 7 receptors disrupts intestinal stem cellsPublisher Correction: A selective peptide inhibitor of Frizzled 7 receptors disrupts intestinal stem cells, Published online: 04 May 2018; doi:10.1038/s41589-018-0069-5Publisher Correction: A selective peptide inhibitor of Frizzled 7 receptors disrupts intestinal stem…

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Publisher Correction: Direct multiplex imaging and optogenetics of Rho GTPases enabled by near-infrared FRET

Posted on May 4th, 2018 - By Daria M. Shcherbakova

Publisher Correction: Direct multiplex imaging and optogenetics of Rho GTPases enabled by near-infrared FRETPublisher Correction: Direct multiplex imaging and optogenetics of Rho GTPases enabled by near-infrared FRET, Published online: 04 May 2018; doi:10.1038/s41589-018-0070-zPublisher Correction: Direct multiplex imaging and optogenetics of Rho GTPases enabled by near-infrared…

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Shared strategies for β-lactam catabolism in the soil microbiome

Posted on Apr 30th, 2018 - By Terence S. Crofts

Shared strategies for β-lactam catabolism in the soil microbiomeShared strategies for β-lactam catabolism in the soil microbiome, Published online: 30 April 2018; doi:10.1038/s41589-018-0052-1A β-lactamase, a novel type of amidase, and the phenylacetic acid catabolon comprise a catabolic pathway, revealed by genomic and transcriptomic analysis, that enables multiple soil bacteria to use β-lactam antibiotics as a carbon…

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Evolution of chalcone isomerase from a noncatalytic ancestor

Posted on Apr 23rd, 2018 - By Miriam Kaltenbach

Evolution of chalcone isomerase from a noncatalytic ancestorEvolution of chalcone isomerase from a noncatalytic ancestor, Published online: 23 April 2018; doi:10.1038/s41589-018-0042-3Ancestral sequence inference, directed evolution, structural analysis, NMR, and molecular dynamics simulations illuminate how enantioselective activity arises during the evolutionary trajectory of chalcone isomerase from a noncatalytic…

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Evolution of cyclohexadienyl dehydratase from an ancestral solute-binding protein

Posted on Apr 23rd, 2018 - By Ben E. Clifton

Evolution of cyclohexadienyl dehydratase from an ancestral solute-binding proteinEvolution of cyclohexadienyl dehydratase from an ancestral solute-binding protein, Published online: 23 April 2018; doi:10.1038/s41589-018-0043-2Ancestral protein reconstruction, with structural and biochemical analysis, illustrates the evolution of a solute-binding protein to cyclohexadienyl dehydratase through incorporation of a catalytic residue and gradual reshaping of the binding…

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Generalized extracellular molecule sensor platform for programming cellular behavior

Posted on Apr 23rd, 2018 - By Leo Scheller

Generalized extracellular molecule sensor platform for programming cellular behaviorGeneralized extracellular molecule sensor platform for programming cellular behavior, Published online: 23 April 2018; doi:10.1038/s41589-018-0046-zEngineered erythropoietin receptor scaffolds equipped with extracellular sensor domains and modular intracellular domains that couple to endogenous signaling pathways enable modular reprogramming of designer membrane-bound…

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Direct multiplex imaging and optogenetics of Rho GTPases enabled by near-infrared FRET

Posted on Apr 23rd, 2018 - By Daria M. Shcherbakova

Direct multiplex imaging and optogenetics of Rho GTPases enabled by near-infrared FRETDirect multiplex imaging and optogenetics of Rho GTPases enabled by near-infrared FRET, Published online: 23 April 2018; doi:10.1038/s41589-018-0044-1The monomeric near-infrared (NIR) fluorescent protein miRFP720 enables development of fully NIR Förster resonance energy transfer (FRET) biosensors compatible with CFP–YFP FRET biosensors and blue–green optogenetic tools without optical…

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Spotting the signal

Posted on Apr 16th, 2018 - By Caitlin Deane

Spotting the signalSpotting the signal, Published online: 16 April 2018; doi:10.1038/s41589-018-0047-ySpotting the…

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Genome-wide mutant profiling predicts the mechanism of a Lipid II binding antibiotic

Posted on Apr 16th, 2018 - By Marina Santiago

Genome-wide mutant profiling predicts the mechanism of a Lipid II binding antibioticGenome-wide mutant profiling predicts the mechanism of a Lipid II binding antibiotic, Published online: 16 April 2018; doi:10.1038/s41589-018-0041-4Use of a combined Tn-seq and machine-learning approach for predicting mechanisms and targets of antibiotic action in Staphylococcus aureus shows that the natural product lysocin E (LysE) binds Lipid II on the cell surface and damages the…

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Fueled by light

Posted on Apr 16th, 2018 - By Grant Miura

Fueled by lightFueled by light, Published online: 16 April 2018; doi:10.1038/s41589-018-0048-xFueled by…

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The peptide <span class=”small-caps”>d</span>-list

Posted on Apr 16th, 2018 - By Mirella Bucci

The peptide d-listThe peptide <span class="small-caps">d</span>-list, Published online: 16 April 2018; doi:10.1038/s41589-018-0049-9The peptide…

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Structure in sequence

Posted on Apr 16th, 2018 - By Yiyun Song

Structure in sequenceStructure in sequence, Published online: 16 April 2018; doi:10.1038/s41589-018-0050-3Structure in…

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Dynamic coupling between conformations and nucleotide states in DNA gyrase

Posted on Apr 16th, 2018 - By Aakash Basu

Dynamic coupling between conformations and nucleotide states in DNA gyraseDynamic coupling between conformations and nucleotide states in DNA gyrase, Published online: 16 April 2018; doi:10.1038/s41589-018-0037-0Single-molecule measurements of DNA gyrase activity reveal conformational dynamics coupling ATP consumption to DNA…

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Designing macrocyclic disulfide-rich peptides for biotechnological applications

Posted on Apr 16th, 2018 - By Conan K. Wang

Designing macrocyclic disulfide-rich peptides for biotechnological applicationsDesigning macrocyclic disulfide-rich peptides for biotechnological applications, Published online: 16 April 2018; doi:10.1038/s41589-018-0039-yThrough molecular grafting, cyclic disulfide-rich peptides can be used as scaffolds to improve the stability, rigidity, and cellular uptake of bioactive peptides, although a number of factors should be considered when designing such grafted…

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Understanding the Pro/N-end rule pathway

Posted on Apr 16th, 2018 - By David A. Dougan

Understanding the Pro/N-end rule pathwayUnderstanding the Pro/N-end rule pathway, Published online: 16 April 2018; doi:10.1038/s41589-018-0045-0Regulated destruction of proteins underlies just about everything a cell does. A structural study of human Gid4, the N-recognin of the Pro/N-end rule pathway that targets proteins through their N-terminal proline, illuminates the recognition of substrates by this proteolytic…

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FINO<sub>2</sub> initiates ferroptosis through GPX4 inactivation and iron oxidation

Posted on Apr 2nd, 2018 - By Michael M. Gaschler

FINO2 initiates ferroptosis through GPX4 inactivation and iron oxidationFINO<sub>2</sub> initiates ferroptosis through GPX4 inactivation and iron oxidation, Published online: 02 April 2018; doi:10.1038/s41589-018-0031-6FINO2 is a small molecule that requires the endoperoxide moiety and hydroxyl group to promote ferroptosis through indirect inhibition of GPX4 enzymatic function and direct oxidation of iron, resulting in increased lipid…

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Super-long single-molecule tracking reveals dynamic-anchorage-induced integrin function

Posted on Apr 2nd, 2018 - By Taka A. Tsunoyama

Super-long single-molecule tracking reveals dynamic-anchorage-induced integrin functionSuper-long single-molecule tracking reveals dynamic-anchorage-induced integrin function, Published online: 02 April 2018; doi:10.1038/s41589-018-0032-5Dissolved oxygen and a reducing-plus-oxidizing system suppress photobleaching and photoblinking in single-molecule tracking experiments, allowing long recordings of CD47 and integrin that showed temporary immobilization within focal…

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The structural organization of substrate loading in iterative polyketide synthases

Posted on Apr 2nd, 2018 - By Dominik A. Herbst

The structural organization of substrate loading in iterative polyketide synthasesThe structural organization of substrate loading in iterative polyketide synthases, Published online: 02 April 2018; doi:10.1038/s41589-018-0026-3The crystal structure and cryo-electron microscopy of the loading/condensing region of a nonreducing polyketide synthase reveals the insertion of a starter-unit acyltransferase into the condensing region and an asymmetrical post-loading…

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Author Correction: Mitochondrial DNA repair and replication proteins revealed by targeted chemical probes

Posted on Apr 2nd, 2018 - By Simon Wisnovsky

Author Correction: Mitochondrial DNA repair and replication proteins revealed by targeted chemical probesAuthor Correction: Mitochondrial DNA repair and replication proteins revealed by targeted chemical probes, Published online: 02 April 2018; doi:10.1038/s41589-018-0040-5Author Correction: Mitochondrial DNA repair and replication proteins revealed by targeted chemical…

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Unfolding of a ClC chloride transporter retains memory of its evolutionary history

Posted on Mar 26th, 2018 - By Duyoung Min

Unfolding of a ClC chloride transporter retains memory of its evolutionary historyUnfolding of a ClC chloride transporter retains memory of its evolutionary history, Published online: 26 March 2018; doi:10.1038/s41589-018-0025-4A single-molecule forced unfolding of E. coli chloride transporter ClC-ec1 shows that the N- and C-terminal halves of the protein unfold independently, with exposed polar surfaces stabilized by membrane lipid head groups and…

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Biosynthesis of redox-active metabolites in response to iron deficiency in plants

Posted on Mar 26th, 2018 - By Jakub Rajniak

Biosynthesis of redox-active metabolites in response to iron deficiency in plantsBiosynthesis of redox-active metabolites in response to iron deficiency in plants, Published online: 26 March 2018; doi:10.1038/s41589-018-0019-2The biosynthesis and secretion of redox-active coumarins sideretin and fraxetin in Arabidopsis thaliana enables the plant to acquire iron under nutrient-limited conditions and provides a blueprint for the use of related compounds in other…

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The dTAG system for immediate and target-specific protein degradation

Posted on Mar 26th, 2018 - By Behnam Nabet

The dTAG system for immediate and target-specific protein degradationThe dTAG system for immediate and target-specific protein degradation, Published online: 26 March 2018; doi:10.1038/s41589-018-0021-8The dTAG system pairs potent heterobifunctional degraders and extensible tagging strategies to achieve immediate and reversible degradation of divergent proteins, facilitating biological investigation and drug target validation in cells and in…

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TAGing for destruction

Posted on Mar 26th, 2018 - By Aisha Yesbolatova

TAGing for destructionTAGing for destruction, Published online: 26 March 2018; doi:10.1038/s41589-018-0024-5Proteins brought to an E3 ubiquitin ligase are polyubiquitylated for rapid degradation via the proteasome. A new study developed a tag-based degradation system using heterobifunctional degradation inducers called dTAGs, which rapidly depleted FKBP12F36V-fused proteins in cultured cells and in…

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Mix and match

Posted on Mar 19th, 2018 - By Karin Kuehnel

Mix and matchMix and match, Published online: 19 March 2018; doi:10.1038/s41589-018-0028-1Mix and…

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Discovery of enzymes for toluene synthesis from anoxic microbial communities

Posted on Mar 19th, 2018 - By Harry R. Beller

Discovery of enzymes for toluene synthesis from anoxic microbial communitiesDiscovery of enzymes for toluene synthesis from anoxic microbial communities, Published online: 19 March 2018; doi:10.1038/s41589-018-0017-4The source of biological toluene production in diverse anoxic microbial communities is a glycyl radical enzyme that catalyzes phenylacetate decarboxylation (PhdB), and its cognate activating radical S-adenosylmethionine enzyme…

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A ‘cis’ted localization

Posted on Mar 19th, 2018 - By Mirella Bucci

A ‘cis’ted localizationA ‘cis’ted localization, Published online: 19 March 2018; doi:10.1038/s41589-018-0029-0A ‘cis’ted…

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RaPID hookup

Posted on Mar 19th, 2018 - By Grant Miura

RaPID hookupRaPID hookup, Published online: 19 March 2018; doi:10.1038/s41589-018-0030-7RaPID…

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An optically controlled probe identifies lipid-gating fenestrations within the TRPC3 channel

Posted on Mar 19th, 2018 - By Michaela Lichtenegger

An optically controlled probe identifies lipid-gating fenestrations within the TRPC3 channelAn optically controlled probe identifies lipid-gating fenestrations within the TRPC3 channel, Published online: 19 March 2018; doi:10.1038/s41589-018-0015-6A photoswitchable diacylglycerol enabled a screen that found critical TRPC3 lipid-sensing residues and identified a lateral fenestration in the pore domain that allows lipids to protrude into the permeation pathway to control channel…

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Specialized splicing

Posted on Mar 19th, 2018 - By Caitlin Deane

Specialized splicingSpecialized splicing, Published online: 19 March 2018; doi:10.1038/s41589-018-0027-2Specialized…

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Whole-organism phenotypic screening for anti-infectives promoting host health

Posted on Mar 19th, 2018 - By Anne E. Clatworthy

Whole-organism phenotypic screening for anti-infectives promoting host healthWhole-organism phenotypic screening for anti-infectives promoting host health, Published online: 19 March 2018; doi:10.1038/s41589-018-0018-3Targeting the host during antibiotic discovery efforts is a viable strategy, and the approach has benefited from phenotypic screening of model organisms such as worms, zebrafish, and…

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Structural basis for backbone N-methylation by an interrupted adenylation domain

Posted on Mar 19th, 2018 - By Shogo Mori

Structural basis for backbone N-methylation by an interrupted adenylation domainStructural basis for backbone N-methylation by an interrupted adenylation domain, Published online: 19 March 2018; doi:10.1038/s41589-018-0014-7The crystal structure of a methyltransferase domain embedded within an interrupted adenylation domain provides insight into how a nonribosomal peptide synthetase N-methylates amino acid precursors for their incorporation into the peptide…

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Structural basis of the Cope rearrangement and cyclization in hapalindole biogenesis

Posted on Mar 12th, 2018 - By Sean A. Newmister

Structural basis of the Cope rearrangement and cyclization in hapalindole biogenesisStructural basis of the Cope rearrangement and cyclization in hapalindole biogenesis, Published online: 12 March 2018; doi:10.1038/s41589-018-0003-xThe structure of a Stig cyclase, HpiC1, reveals how it catalyzes Cope rearrangement and 6-exo-trig cyclization, including how it controls the position of electrophilic aromatic substation that distinguishes hapalindole from fischerindole…

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Publisher Correction: Oxidative demethylation of algal carbohydrates by cytochrome P450 monooxygenases

Posted on Mar 8th, 2018 - By Lukas Reisky

Publisher Correction: Oxidative demethylation of algal carbohydrates by cytochrome P450 monooxygenasesPublisher Correction: Oxidative demethylation of algal carbohydrates by cytochrome P450 monooxygenases, Published online: 08 March 2018; doi:10.1038/s41589-018-0020-9Publisher Correction: Oxidative demethylation of algal carbohydrates by cytochrome P450…

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Publisher Correction: A robotic multidimensional directed evolution approach applied to fluorescent voltage reporters

Posted on Mar 8th, 2018 - By Kiryl D. Piatkevich

Publisher Correction: A robotic multidimensional directed evolution approach applied to fluorescent voltage reportersPublisher Correction: A robotic multidimensional directed evolution approach applied to fluorescent voltage reporters, Published online: 08 March 2018; doi:10.1038/s41589-018-0023-6Publisher Correction: A robotic multidimensional directed evolution approach applied to fluorescent voltage…

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Publisher Correction: Resistance to nonribosomal peptide antibiotics mediated by <span class=”small-caps”>d</span>-stereospecific peptidases

Posted on Mar 7th, 2018 - By Yong-Xin Li

Publisher Correction: Resistance to nonribosomal peptide antibiotics mediated by d-stereospecific peptidasesPublisher Correction: Resistance to nonribosomal peptide antibiotics mediated by <span class="small-caps">d</span>-stereospecific peptidases, Published online: 07 March 2018; doi:10.1038/s41589-018-0022-7Publisher Correction: Resistance to nonribosomal peptide antibiotics mediated by d-stereospecific…

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Folding against the wind

Posted on Mar 5th, 2018 - By Frederick Stull

Folding against the windFolding against the wind, Published online: 05 March 2018; doi:10.1038/s41589-018-0016-5Many thermodynamically unfavorable processes in biology are powered by ATP, the energy currency of the cell. New evidence suggests that chaperone-mediated protein stabilization may need to be added to that…

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Chaperones convert the energy from ATP into the nonequilibrium stabilization of native proteins

Posted on Mar 5th, 2018 - By Pierre Goloubinoff

Chaperones convert the energy from ATP into the nonequilibrium stabilization of native proteinsChaperones convert the energy from ATP into the nonequilibrium stabilization of native proteins, Published online: 05 March 2018; doi:10.1038/s41589-018-0013-8A nonequilibrium thermodynamic model can explain how molecular chaperones such as GroEL can use the energy from ATP hydrolysis to maintain substrate proteins in an active state, even under conditions that favor the substrate’s inactive…

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Functional TRIM24 degrader via conjugation of ineffectual bromodomain and VHL ligands

Posted on Mar 5th, 2018 - By Lara N. Gechijian

Functional TRIM24 degrader via conjugation of ineffectual bromodomain and VHL ligandsFunctional TRIM24 degrader via conjugation of ineffectual bromodomain and VHL ligands, Published online: 05 March 2018; doi:10.1038/s41589-018-0010-ySelective TRIM24 degradation is achieved by co-opting the VHL E3 ubiquitin ligase machinery. TRIM24 degradation outperforms bromodomain inhibition, with an enhanced antiproliferative effect in acute leukemia, a novel context of TRIM24…

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A lanthipeptide library used to identify a protein–protein interaction inhibitor

Posted on Mar 5th, 2018 - By Xiao Yang

A lanthipeptide library used to identify a protein–protein interaction inhibitorA lanthipeptide library used to identify a protein–protein interaction inhibitor, Published online: 05 March 2018; doi:10.1038/s41589-018-0008-5The substrate-tolerant lanthipeptide synthetase ProcM enables the construction of a plasmid-encoded library of bicyclic lanthipeptides, from which an inhibitor of the p6–UEV protein–protein interaction is identified by a reverse two-hybrid…

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Regulation of apoptosis by an intrinsically disordered region of Bcl-xL

Posted on Mar 5th, 2018 - By Ariele Viacava Follis

Regulation of apoptosis by an intrinsically disordered region of Bcl-xLRegulation of apoptosis by an intrinsically disordered region of Bcl-xL, Published online: 05 March 2018; doi:10.1038/s41589-018-0011-xPost-translational modification of residues in an intrinsically disordered region of Bcl-XL promotes interactions with its folded core and allosterically reduces affinity for proapoptotic BH3-domain-containing proteins, resulting in…

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Trp-ing upon new repressors

Posted on Feb 26th, 2018 - By Andreas K. Brödel

Trp-ing upon new repressorsTrp-ing upon new repressors, Published online: 26 February 2018; doi:10.1038/s41589-018-0012-9Bioengineers have used directed evolution to generate a new family of synthetic transcription factors based on the tryptophan repressor. The evolved repressor family enables researchers to build new gene circuits for biomedical…

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Directed evolution of a synthetic phylogeny of programmable Trp repressors

Posted on Feb 26th, 2018 - By Jared W. Ellefson

Directed evolution of a synthetic phylogeny of programmable Trp repressorsDirected evolution of a synthetic phylogeny of programmable Trp repressors, Published online: 26 February 2018; doi:10.1038/s41589-018-0006-7Directed evolution of Trp repressor (TrpR) variants that are responsive to halogenated tryptophan analogs and recognize new operator sites serve as useful components for constructing complex gene expression…

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Resistance to nonribosomal peptide antibiotics mediated by <span class=”small-caps”>d</span>-stereospecific peptidases

Posted on Feb 26th, 2018 - By Yong-Xin Li

Resistance to nonribosomal peptide antibiotics mediated by d-stereospecific peptidasesResistance to nonribosomal peptide antibiotics mediated by <span class="small-caps">d</span>-stereospecific peptidases, Published online: 26 February 2018; doi:10.1038/s41589-018-0009-4Networking-associated genome mining on bacterial genomes followed by chemical and enzymatic analysis identified a mechanism of resistance toward nonribosomal peptide antibiotics based on hydrolytic…

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A robotic multidimensional directed evolution approach applied to fluorescent voltage reporters

Posted on Feb 26th, 2018 - By Kiryl D. Piatkevich

A robotic multidimensional directed evolution approach applied to fluorescent voltage reportersA robotic multidimensional directed evolution approach applied to fluorescent voltage reporters, Published online: 26 February 2018; doi:10.1038/s41589-018-0004-9Directed evolution of opsins via robotic high-content screening finds a fluorescent reporter of voltage that is simultaneously optimized for brightness, localization and voltage sensitivity and is applicable in three model…

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Oxidative demethylation of algal carbohydrates by cytochrome P450 monooxygenases

Posted on Feb 19th, 2018 - By Lukas Reisky

Oxidative demethylation of algal carbohydrates by cytochrome P450 monooxygenasesOxidative demethylation of algal carbohydrates by cytochrome P450 monooxygenases, Published online: 19 February 2018; doi:10.1038/s41589-018-0005-8The discovery of cytochrome P450 monooxygenases that catalyze oxidative demethylation of 6-O-methyl-d-galactose reveals a new activity of cytochrome P450 enzymes and their role in polysaccharide biomass degradation in marine…

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Protein evolution: Hacking an enzyme

Posted on Feb 14th, 2018 - By Kristoffer E Johansson

Protein evolution: Hacking an enzymeProtein evolution: Hacking an enzyme, Published online: 14 February 2018; doi:10.1038/nchembio.2574Early stages of protein evolution are inherently difficult to study. Genetic selection in Escherichia coli has now identified a life-sustaining de novo enzyme arising from a simple scaffold that is completely different from the native…

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Altering form for function

Altering form for functionAltering form for function, Published online: 14 February 2018; doi:10.1038/nchembio.2582Elucidating the mechanisms by which biomolecules are chemically modified and how these alterations regulate biological pathways represents a leading frontier in chemical…

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Viruses: Capsids under pressure

Posted on Feb 14th, 2018 - By Mirella Bucci

Viruses: Capsids under pressureViruses: Capsids under pressure, Published online: 14 February 2018; doi:10.1038/nchembio.2578Viruses: Capsids under…

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How many human proteoforms are there?

Posted on Feb 14th, 2018 - By Ruedi Aebersold

How many human proteoforms are there?How many human proteoforms are there?, Published online: 14 February 2018; doi:10.1038/nchembio.2576How many human proteoforms are…

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Insights into the biogenesis, function, and regulation of ADP-ribosylation

Posted on Feb 14th, 2018 - By Michael S Cohen

Insights into the biogenesis, function, and regulation of ADP-ribosylationInsights into the biogenesis, function, and regulation of ADP-ribosylation, Published online: 14 February 2018; doi:10.1038/nchembio.2568Insights into the biogenesis, function, and regulation of…

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RNA structure: A LASER-focused view into cells

Posted on Feb 14th, 2018 - By Philip C Bevilacqua

RNA structure: A LASER-focused view into cellsRNA structure: A LASER-focused view into cells, Published online: 14 February 2018; doi:10.1038/nchembio.2570RNA structure is irrevocably linked to function. A new method, termed 'LASER', utilizes a light-activated chemical probe to query RNA tertiary structure and illuminate RNA–protein interactions in the living…

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