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Title
The dynamics of linear polyubiquitin
Authors
Keywords
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Journal
Science Advances
Volume 6, Issue 42, Pages eabc3786
Publisher
American Association for the Advancement of Science (AAAS)
Online
2020-10-15
DOI
10.1126/sciadv.abc3786
References
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Note: Only part of the references are listed.- Determination of protein structural ensembles by hybrid-resolution SAXS restrained Molecular Dynamics.
- (2020) Cristina Paissoni et al. Journal of Chemical Theory and Computation
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- Promoting transparency and reproducibility in enhanced molecular simulations
- (2019) NATURE METHODS
- Developing a molecular dynamics force field for both folded and disordered protein states
- (2018) Paul Robustelli et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Towards a molecular basis of ubiquitin signaling: A dual-scale simulation study of ubiquitin dimers
- (2018) Andrej Berg et al. PLoS Computational Biology
- Metadynamic metainference: Convergence towards force field independent structural ensembles of a disordered peptide
- (2017) Thomas Löhr et al. JOURNAL OF CHEMICAL PHYSICS
- Evidence for M1-Linked Polyubiquitin-Mediated Conformational Change in NEMO
- (2017) Arthur V. Hauenstein et al. JOURNAL OF MOLECULAR BIOLOGY
- In Vivo Ubiquitin Linkage-type Analysis Reveals that the Cdc48-Rad23/Dsk2 Axis Contributes to K48-Linked Chain Specificity of the Proteasome
- (2017) Hikaru Tsuchiya et al. MOLECULAR CELL
- Structural Insights into Linear Tri-ubiquitin Recognition by A20-Binding Inhibitor of NF-κB, ABIN-2
- (2017) Shan-Meng Lin et al. STRUCTURE
- Excessive aggregation of membrane proteins in the Martini model
- (2017) Matti Javanainen et al. PLoS One
- Coarse-Grained Protein Models and Their Applications
- (2016) Sebastian Kmiecik et al. CHEMICAL REVIEWS
- Ubiquitin chain diversity at a glance
- (2016) Masato Akutsu et al. JOURNAL OF CELL SCIENCE
- The CUE Domain of Cue1 Aligns Growing Ubiquitin Chains with Ubc7 for Rapid Elongation
- (2016) Maximilian von Delbrück et al. MOLECULAR CELL
- New conformations of linear polyubiquitin chains from crystallographic and solution-scattering studies expand the conformational space of polyubiquitin
- (2016) Trung Thanh Thach et al. Acta Crystallographica Section D-Structural Biology
- Metainference: A Bayesian inference method for heterogeneous systems
- (2016) M. Bonomi et al. Science Advances
- Inhibition of Canonical NF-κB Signaling by a Small Molecule Targeting NEMO-Ubiquitin Interaction
- (2016) Michelle Vincendeau et al. Scientific Reports
- Metadynamic metainference: Enhanced sampling of the metainference ensemble using metadynamics
- (2016) Massimiliano Bonomi et al. Scientific Reports
- Polyubiquitin Drives the Molecular Interactions of the NF-κB Essential Modulator (NEMO) by Allosteric Regulation
- (2015) Dragana A. M. Catici et al. JOURNAL OF BIOLOGICAL CHEMISTRY
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- (2015) Jim Pfaendtner et al. Journal of Chemical Theory and Computation
- Phosphorylation and linear ubiquitin direct A20 inhibition of inflammation
- (2015) Ingrid E. Wertz et al. NATURE
- Lys63-linked ubiquitin chain adopts multiple conformational states for specific target recognition
- (2015) Zhu Liu et al. eLife
- A SnapShot of Ubiquitin Chain Elongation
- (2014) Jordan Kovacev et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Dipeptide Aggregation in Aqueous Solution from Fixed Point-Charge Force Fields
- (2014) Andreas W. Götz et al. Journal of Chemical Theory and Computation
- Linear ubiquitin chains: NF-κB signalling, cell death and beyond
- (2014) Kazuhiro Iwai et al. NATURE REVIEWS MOLECULAR CELL BIOLOGY
- PolyUbiquitin Chain Linkage Topology Selects the Functions from the Underlying Binding Landscape
- (2014) Yong Wang et al. PLoS Computational Biology
- MARTINI bead form factors for the analysis of time-resolved X-ray scattering of proteins
- (2014) Stephan Niebling et al. JOURNAL OF APPLIED CRYSTALLOGRAPHY
- PLUMED 2: New feathers for an old bird
- (2013) Gareth A. Tribello et al. COMPUTER PHYSICS COMMUNICATIONS
- The IκB kinase complex in NF-κB regulation and beyond
- (2013) Michael Hinz et al. EMBO REPORTS
- Toward Optimized Potential Functions for Protein–Protein Interactions in Aqueous Solutions: Osmotic Second Virial Coefficient Calculations Using the MARTINI Coarse-Grained Force Field
- (2013) Austin C. Stark et al. Journal of Chemical Theory and Computation
- Flory theory for polymers
- (2013) Somendra M Bhattacharjee et al. JOURNAL OF PHYSICS-CONDENSED MATTER
- Recovering a Representative Conformational Ensemble from Underdetermined Macromolecular Structural Data
- (2013) Konstantin Berlin et al. JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
- Sequence-specific determination of protein and peptide concentrations by absorbance at 205 nm
- (2013) Nicholas J. Anthis et al. PROTEIN SCIENCE
- Unique Structural, Dynamical, and Functional Properties of K11-Linked Polyubiquitin Chains
- (2013) Carlos A. Castañeda et al. STRUCTURE
- A Structural Basis for IκB Kinase 2 Activation Via Oligomerization-Dependent Trans Auto-Phosphorylation
- (2013) Smarajit Polley et al. PLOS BIOLOGY
- Structure of a compact conformation of linear diubiquitin
- (2012) Ahmed Rohaim et al. ACTA CRYSTALLOGRAPHICA SECTION D-BIOLOGICAL CRYSTALLOGRAPHY
- The Ubiquitin Code
- (2012) David Komander et al. Annual Review of Biochemistry
- New developments in theATSASprogram package for small-angle scattering data analysis
- (2012) Maxim V. Petoukhov et al. JOURNAL OF APPLIED CRYSTALLOGRAPHY
- Metadynamics with Adaptive Gaussians
- (2012) Davide Branduardi et al. Journal of Chemical Theory and Computation
- Improved Parameters for the Martini Coarse-Grained Protein Force Field
- (2012) Djurre H. de Jong et al. Journal of Chemical Theory and Computation
- Ubiquitin chain conformation regulates recognition and activity of interacting proteins
- (2012) Yu Ye et al. NATURE
- Equilibrium Sampling in Biomolecular Simulations
- (2011) Daniel M. Zuckerman Annual Review of Biophysics
- NF-κB Essential Modulator (NEMO) Interaction with Linear and Lys-63 Ubiquitin Chains Contributes to NF-κB Activation
- (2011) Kamyar Hadian et al. JOURNAL OF BIOLOGICAL CHEMISTRY
- Linear ubiquitination prevents inflammation and regulates immune signalling
- (2011) Björn Gerlach et al. NATURE
- Lys11-linked ubiquitin chains adopt compact conformations and are preferentially hydrolyzed by the deubiquitinase Cezanne
- (2010) Anja Bremm et al. NATURE STRUCTURAL & MOLECULAR BIOLOGY
- Distinct consequences of posttranslational modification by linear versus K63-linked polyubiquitin chains
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- Polarizable Water Model for the Coarse-Grained MARTINI Force Field
- (2010) Semen O. Yesylevskyy et al. PLoS Computational Biology
- RING Domain E3 Ubiquitin Ligases
- (2009) Raymond J. Deshaies et al. Annual Review of Biochemistry
- NEMO oligomerization and its ubiquitin-binding properties
- (2009) Frank J. Ivins et al. BIOCHEMICAL JOURNAL
- Specific Recognition of Linear Ubiquitin Chains by NEMO Is Important for NF-κB Activation
- (2009) Simin Rahighi et al. CELL
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- Combining an Elastic Network With a Coarse-Grained Molecular Force Field: Structure, Dynamics, and Intermolecular Recognition
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- (2009) Nathan W. Pierce et al. NATURE
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