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Title: Hallucinating symmetric protein assemblies

Journal Article · · Science

Research Organization:
Argonne National Lab. (ANL), Argonne, IL (United States). Advanced Photon Source (APS)
Sponsoring Organization:
DOE - Office Of Science; National Science Foundation (NSF); OTHER
OSTI ID:
1901070
Journal Information:
Science, Vol. 378
Country of Publication:
United States
Language:
ENGLISH

References (51)

Proteins evolve on the edge of supramolecular self-assembly journal August 2017
Symmetry and simplicity spontaneously emerge from the algorithmic nature of evolution journal March 2022
Principles of assembly reveal a periodic table of protein complexes journal December 2015
Protein Data Bank: the single global archive for 3D macromolecular structure data journal October 2018
Structural Symmetry and Protein Function journal June 2000
De novo design of a Zn2+-binding protein journal August 1990
High-Resolution Protein Design with Backbone Freedom journal November 1998
Computational design of self-assembling cyclic protein homo-oligomers journal December 2016
Computational design of water-soluble α-helical barrels journal October 2014
De novo design of a four-fold symmetric TIM-barrel protein with atomic-level accuracy journal November 2015
De novo design of protein homo-oligomers with modular hydrogen-bond network-mediated specificity journal May 2016
Rational design of α-helical tandem repeat proteins with closed architectures journal December 2015
Accurate design of megadalton-scale two-component icosahedral protein complexes journal July 2016
Generation of ordered protein assemblies using rigid three-body fusion journal May 2021
Design of multi-scale protein complexes by hierarchical building block fusion journal April 2021
Engineering and functionalization of large circular tandem repeat protein nanoparticles journal March 2020
Reconfigurable asymmetric protein assemblies through implicit negative design journal January 2022
De novo protein design by deep network hallucination journal December 2021
Structure-based protein design with deep learning journal December 2021
Protein sequence design by conformational landscape optimization journal March 2021
Protein sequence design with a learned potential journal February 2022
Highly accurate protein structure prediction with AlphaFold journal July 2021
lDDT: a local superposition-free score for comparing protein structures and models using distance difference tests journal August 2013
TM-align: a protein structure alignment algorithm based on the TM-score journal April 2005
How significant is a protein structure similarity with TM-score = 0.5? journal February 2010
Deep neural networks are easily fooled: High confidence predictions for unrecognizable images conference June 2015
Robust deep learning–based protein sequence design using ProteinMPNN journal October 2022
Accurate prediction of protein structures and interactions using a three-track neural network journal July 2021
The leucine-rich repeat: a versatile binding motif journal October 1994
Symmetry disruption commits vault particles to disassembly journal February 2022
MM-align: a quick algorithm for aligning multiple-chain protein complex structures using iterative dynamic programming journal May 2009
The Rosetta All-Atom Energy Function for Macromolecular Modeling and Design journal May 2017
Shape Complementarity at Protein/Protein Interfaces journal December 1993
Protein secondary structure prediction based on position-specific scoring matrices 1 1Edited by G. Von Heijne journal September 1999
Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features journal December 1983
Design of therapeutic proteins with enhanced stability journal July 2009
SNAC-tag for sequence-specific chemical protein cleavage journal March 2019
XDS journal January 2010
Overview of the CCP 4 suite and current developments journal March 2011
Phaser crystallographic software journal July 2007
Coot model-building tools for molecular graphics journal November 2004
PHENIX: a comprehensive Python-based system for macromolecular structure solution journal January 2010
Refinement of Macromolecular Structures by the Maximum-Likelihood Method journal May 1997
MolProbity: More and better reference data for improved all-atom structure validation: PROTEIN SCIENCE.ORG journal November 2017
Overview of Electron Crystallography of Membrane Proteins: Crystallization and Screening Strategies Using Negative Stain Electron Microscopy journal April 2013
cisTEM, user-friendly software for single-particle image processing journal March 2018
cryoSPARC: algorithms for rapid unsupervised cryo-EM structure determination journal February 2017
3D variability analysis: Resolving continuous flexibility and discrete heterogeneity from single particle cryo-EM journal June 2021
Leginon: An Automated System for Acquisition of Images from Vitreous Ice Specimens journal October 2000
MotionCor2: anisotropic correction of beam-induced motion for improved cryo-electron microscopy journal February 2017
CTFFIND4: Fast and accurate defocus estimation from electron micrographs journal November 2015