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Protein Structure Prediction and Structural Genomics
Genome sequencing projects are producing linear amino acid sequences, but full understanding of the biological role of these proteins will require knowledge of their structure and function. AlthoughExpand
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The DIAP1 RING finger mediates ubiquitination of Dronc and is indispensable for regulating apoptosis
Members of the Inhibitor of Apoptosis Protein (IAP) family block activation of the intrinsic cell death machinery by binding to and neutralizing the activity of pro-apoptotic caspases. In DrosophilaExpand
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High Resolution Mapping of Protein Sequence–Function Relationships
We present a large-scale approach to investigate the functional consequences of sequence variation in a protein. The approach entails the display of hundreds of thousands of protein variants,Expand
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The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design.
Over the past decade, the Rosetta biomolecular modeling suite has informed diverse biological questions and engineering challenges ranging from interpretation of low-resolution structural data toExpand
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Quantitative reactivity profiling predicts functional cysteines in proteomes
Cysteine is the most intrinsically nucleophilic amino acid in proteins, where its reactivity is tuned to perform diverse biochemical functions. The absence of a consensus sequence that definesExpand
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Atomic accuracy models from 4.5 Å cryo-electron microscopy data with density-guided iterative local refinement
We describe a general approach for refining protein structure models on the basis of cryo-electron microscopy maps with near-atomic resolution. The method integrates Monte Carlo sampling with localExpand
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Improved protein structure prediction using predicted interresidue orientations
TLDR
We develop a deep residual network for predicting interresidue orientations, in addition to distances, and a Rosetta-constrained energy-minimization protocol for rapidly and accurately generating structure models guided by these restraints. Expand
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Mae mediates MAP kinase phosphorylation of Ets transcription factors in Drosophila
The evolutionarily conserved Ras/mitogen-activated protein kinase (MAPK) cascade is an integral part of the processes of cell division, differentiation, movement and death. Signals received at theExpand
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Atomic accuracy in predicting and designing non-canonical RNA structure
We present fragment assembly of RNA with full-atom refinement (FARFAR), a Rosetta framework for predicting and designing noncanonical motifs that define RNA tertiary structure. In a test set ofExpand
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Cryo-EM structure of the protein-conducting ERAD channel Hrd1 in complex with Hrd3
TLDR
Hrd1 is the crucial membrane component for retro-translocation, but it is unclear whether it forms a protein-conducting channel. Expand
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