Connecting the Sequence-Space of Bacterial Signaling Proteins to Phenotypes Using Coevolutionary Landscapes
出版年份 2016 全文链接
标题
Connecting the Sequence-Space of Bacterial Signaling Proteins to Phenotypes Using Coevolutionary Landscapes
作者
关键词
-
出版物
MOLECULAR BIOLOGY AND EVOLUTION
Volume 33, Issue 12, Pages 3054-3064
出版商
Oxford University Press (OUP)
发表日期
2016-09-08
DOI
10.1093/molbev/msw188
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注意:仅列出部分参考文献,下载原文获取全部文献信息。- Causes of evolutionary rate variation among protein sites
- (2016) Julian Echave et al. NATURE REVIEWS GENETICS
- Inter-Protein Sequence Co-Evolution Predicts Known Physical Interactions in Bacterial Ribosomes and the Trp Operon
- (2016) Christoph Feinauer et al. PLoS One
- Evolution, energy landscapes and the paradoxes of protein folding
- (2015) Peter G. Wolynes BIOCHIMIE
- Capturing coevolutionary signals inrepeat proteins
- (2015) Rocío Espada et al. BMC BIOINFORMATICS
- Evolving New Protein-Protein Interaction Specificity through Promiscuous Intermediates
- (2015) Christopher D. Aakre et al. CELL
- Structural and Functional Impact of Parkinson Disease-Associated Mutations in the E3 Ubiquitin Ligase Parkin
- (2015) Fabienne C. Fiesel et al. HUMAN MUTATION
- A many-body term improves the accuracy of effective potentials based on protein coevolutionary data
- (2015) A. Contini et al. JOURNAL OF CHEMICAL PHYSICS
- Coevolutionary Landscape Inference and the Context-Dependence of Mutations in Beta-Lactamase TEM-1
- (2015) Matteo Figliuzzi et al. MOLECULAR BIOLOGY AND EVOLUTION
- The Relationship between dN/dS and Scaled Selection Coefficients
- (2015) Stephanie J. Spielman et al. MOLECULAR BIOLOGY AND EVOLUTION
- Synthetic biology of cell signaling
- (2015) Jonathan Hansen et al. Natural Computing
- MMB-GUI: a fast morphing method demonstrates a possible ribosomal tRNA translocation trajectory
- (2015) Alex Tek et al. NUCLEIC ACIDS RESEARCH
- From residue coevolution to protein conformational ensembles and functional dynamics
- (2015) Ludovico Sutto et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Constructing sequence-dependent protein models using coevolutionary information
- (2015) Ryan R. Cheng et al. PROTEIN SCIENCE
- Predicting protein folding rate change upon point mutation using residue-level coevolutionary information
- (2015) Saurav Mallik et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Pervasive degeneracy and epistasis in a protein-protein interface
- (2015) A. I. Podgornaia et al. SCIENCE
- Dimeric interactions and complex formation using direct coevolutionary couplings
- (2015) Ricardo N. dos Santos et al. Scientific Reports
- Large-Scale Conformational Transitions and Dimerization Are Encoded in the Amino-Acid Sequences of Hsp70 Chaperones
- (2015) Duccio Malinverni et al. PLoS Computational Biology
- Synthetic biology of cell signaling
- (2015) Jonathan Hansen et al. Natural Computing
- Biophysics of protein evolution and evolutionary protein biophysics
- (2014) T. Sikosek et al. Journal of the Royal Society Interface
- Toward rationally redesigning bacterial two-component signaling systems using coevolutionary information
- (2014) Ryan R. Cheng et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Coevolutionary information, protein folding landscapes, and the thermodynamics of natural selection
- (2014) F. Morcos et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- A multiscale approach to predicting affinity changes in protein-protein interfaces
- (2014) Daniel F. A. R. Dourado et al. PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS
- Frustration in biomolecules
- (2014) Diego U. Ferreiro et al. QUARTERLY REVIEWS OF BIOPHYSICS
- Refactoring and Optimization of Light-Switchable Escherichia coli Two-Component Systems
- (2014) Sebastian R. Schmidl et al. ACS Synthetic Biology
- Phosphorylation by PINK1 Releases the UBL Domain and Initializes the Conformational Opening of the E3 Ubiquitin Ligase Parkin
- (2014) Thomas R. Caulfield et al. PLoS Computational Biology
- Determinants of specificity in two-component signal transduction
- (2013) Anna I Podgornaia et al. CURRENT OPINION IN MICROBIOLOGY
- Translating HIV Sequences into Quantitative Fitness Landscapes Predicts Viral Vulnerabilities for Rational Immunogen Design
- (2013) Andrew L. Ferguson et al. IMMUNITY
- Engineered fumarate sensing Escherichia coli based on novel chimeric two-component system
- (2013) Irisappan Ganesh et al. JOURNAL OF BIOTECHNOLOGY
- The network of stabilizing contacts in proteins studied by coevolutionary data
- (2013) Sara Lui et al. JOURNAL OF CHEMICAL PHYSICS
- Emerging methods in protein co-evolution
- (2013) David de Juan et al. NATURE REVIEWS GENETICS
- Fast fitting to low resolution density maps: elucidating large-scale motions of the ribosome
- (2013) Samuel Coulbourn Flores NUCLEIC ACIDS RESEARCH
- Pfam: the protein families database
- (2013) Robert D. Finn et al. NUCLEIC ACIDS RESEARCH
- Improved contact prediction in proteins: Using pseudolikelihoods to infer Potts models
- (2013) Magnus Ekeberg et al. PHYSICAL REVIEW E
- Coevolutionary signals across protein lineages help capture multiple protein conformations
- (2013) F. Morcos et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Evolution of Two-Component Signal Transduction Systems
- (2012) Emily J. Capra et al. Annual Review of Microbiology
- Protein structure prediction from sequence variation
- (2012) Debora S Marks et al. NATURE BIOTECHNOLOGY
- Structural basis of histidine kinase autophosphorylation deduced by integrating genomics, molecular dynamics, and mutagenesis
- (2012) A. E. Dago et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Genomics-aided structure prediction
- (2012) J. I. Sulkowska et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Engineering robust control of two-component system phosphotransfer using modular scaffolds
- (2012) W. R. Whitaker et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Estimating the Distribution of Selection Coefficients from Phylogenetic Data Using Sitewise Mutation-Selection Models
- (2011) A. U. Tamuri et al. GENETICS
- Dissecting the Specificity of Protein-Protein Interaction in Bacterial Two-Component Signaling: Orphans and Crosstalks
- (2011) Andrea Procaccini et al. PLoS One
- Direct-coupling analysis of residue coevolution captures native contacts across many protein families
- (2011) F. Morcos et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Interaction fidelity in two-component signaling
- (2010) Hendrik Szurmant et al. CURRENT OPINION IN MICROBIOLOGY
- The mechanism of signal transduction by two-component systems
- (2010) Patricia Casino et al. CURRENT OPINION IN STRUCTURAL BIOLOGY
- Fast Flexible Modeling of RNA Structure Using Internal Coordinates
- (2010) S. C. Flores et al. IEEE-ACM Transactions on Computational Biology and Bioinformatics
- Multichromatic Control of Gene Expression in Escherichia coli
- (2010) Jeffrey J. Tabor et al. JOURNAL OF MOLECULAR BIOLOGY
- Turning limited experimental information into 3D models of RNA
- (2010) S. C. Flores et al. RNA
- Systematic Dissection and Trajectory-Scanning Mutagenesis of the Molecular Interface That Ensures Specificity of Two-Component Signaling Pathways
- (2010) Emily J. Capra et al. PLoS Genetics
- Structural Insight into Partner Specificity and Phosphoryl Transfer in Two-Component Signal Transduction
- (2009) Patricia Casino et al. CELL
- High-resolution protein complexes from integrating genomic information with molecular simulation
- (2009) Alexander Schug et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Rewiring the Specificity of Two-Component Signal Transduction Systems
- (2008) Jeffrey M. Skerker et al. CELL
- Accurate prediction of protein–protein interactions from sequence alignments using a Bayesian method
- (2008) Lukas Burger et al. Molecular Systems Biology
- Identification of direct residue contacts in protein-protein interaction by message passing
- (2008) M. Weigt et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
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