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- Publications
- Influence
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. Although… Expand
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 Drosophila… Expand
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
The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design.
- Rebecca F. Alford, A. Leaver-Fay, +17 authors J. J. Gray
- Physics, Medicine
- Journal of chemical theory and computation
- 12 May 2017
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 to… Expand
Quantitative reactivity profiling predicts functional cysteines in proteomes
- E. Weerapana, C. Wang, +7 authors B. Cravatt
- Biology, Medicine
- Nature
- 14 September 2010
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 defines… Expand
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 local… Expand
Improved protein structure prediction using predicted interresidue orientations
- Jianyi Yang, I. Anishchenko, Hahnbeom Park, Zhenling Peng, S. Ovchinnikov, D. Baker
- Computer Science, Medicine
- Proceedings of the National Academy of Sciences
- 2 January 2020
TLDR
Mae mediates MAP kinase phosphorylation of Ets transcription factors in Drosophila
- D. Baker, B. Mille-Baker, S. M. Wainwright, D. Ish-Horowicz, Nicholas J. Dibb
- Biology, Medicine
- Nature
- 17 May 2001
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 the… Expand
Atomic accuracy in predicting and designing non-canonical RNA structure
- R. Das, J. Karanicolas, D. Baker
- Biology, Medicine
- Nature Methods
- 28 February 2010
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 of… Expand
Cryo-EM structure of the protein-conducting ERAD channel Hrd1 in complex with Hrd3
- S. Schoebel, Wei Mi, +9 authors M. Liao
- Biology, Computer Science
- Nature
- 6 July 2017
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