SOCKET: a program for identifying and analysing coiled-coil motifs within protein structures11Edited by J. Thornton

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Items 101–200 of 358

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4. Maintaining and breaking symmetry in homomeric coiled-coil assemblies
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5. An Antiparallel α-Helical Coiled-Coil Model System for Rapid Assessment of Side-Chain Recognition at the Hydrophobic Interface
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6. Structural analysis of an oxygen-regulated diguanylate cyclase
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7. Structural basis for cargo binding and autoinhibition of Bicaudal-D1 by a parallel coiled-coil with homotypic registry
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8. Structural and Functional Insights on the Myosin Superfamily
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9. <i>Socket2</i>: a program for locating, visualizing and analyzing coiled-coil interfaces in protein structures
   Kumar, Prasun, Woolfson, Derek N · 2021 · Bioinformatics
10. Structural insights into the assembly of the histone deacetylase-associated Sin3L/Rpd3L corepressor complex
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11. Coiled coils 9-to-5: rational de novo design of α-helical barrels with tunable oligomeric states
    William Dawson, Freddie J. O. Martin, Guto G. Rhys, Kathryn L. Shelley, R.L. Brady, Derek N. Woolfson · 2021 · Chemical Science
12. SCORER 2.0: an algorithm for distinguishing parallel dimeric and trimeric coiled-coil sequences
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13. Navigating the Structural Landscape of De Novo α-Helical Bundles
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14. Complex Networks Govern Coiled-Coil Oligomerization – Predicting and Profiling by Means of a Machine Learning Approach
    Mahrenholz, Carsten C., Abfalter, Ingrid G., Bodenhofer, Ulrich, Volkmer, Rudolf, Hochreiter, Sepp · 2011 · Molecular &amp; Cellular Proteomics
15. CCHMM_PROF: a HMM-based coiled-coil predictor with evolutionary information
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16. Coiled-coils in type III secretion systems: structural flexibility, disorder and biological implications
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17. Sequence Conservation in Families Whose Members Have Little or No Sequence Similarity: The Four-helical Cytokines and Cytochromes
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18. Membrane‐bound structure and energetics of α‐synuclein
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19. Traffic to the Malaria Parasite Food Vacuole
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20. Kinking the Coiled Coil – Negatively Charged Residues at the Coiled-coil Interface
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21. High-resolution structures of a heterochiral coiled coil
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22. Biomimetic Self-Assembling Peptide Hydrogels for Tissue Engineering Applications
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23. Roles of Structure and Structural Dynamics in the Antibody Recognition of the Allergen Proteins: An NMR Study on Blomia tropicalis Major Allergen
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24. Solution Structure of the Symmetric Coiled Coil Tetramer Formed by the Oligomerization Domain of hnRNP C: Implications for Biological Function
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25. Crystal Structure of a Coiled-Coil Domain from Human ROCK I
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26. Angular measurements of the dynein ring reveal a stepping mechanism dependent on a flexible stalk
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27. The Crystal Structure of the Hinge Domain of the Escherichia coli Structural Maintenance of Chromosomes Protein MukB
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28. Solution structure of the C-terminal antiparallel coiled-coil domain from Escherichia coli osmosensor ProP.
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29. Invariance and variability in bacterial PanK: a study based on the crystal structure ofMycobacterium tuberculosisPanK
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30. Ultra-Fast Evaluation of Protein Energies Directly from Sequence
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31. Orientation and Oligomerization Specificity of the Bcr Coiled-Coil Oligomerization Domain
    Christina M. Taylor, Amy E. Keating · 2005 · Biochemistry
32. The Tumor Suppressor ING5 Is a Dimeric, Bivalent Recognition Molecule of the Histone H3K4me3 Mark
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33. The Hyperthermophile Protein Sso10a is a Dimer of Winged Helix DNA-binding Domains Linked by an Antiparallel Coiled Coil Rod
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34. CoCoNat: a novel method based on deep learning for coiled-coil prediction
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35. Molecular Modeling of PEGylated Peptides, Dendrimers, and Single-Walled Carbon Nanotubes for Biomedical Applications
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36. Coiled-coil deformations in crystal structures: themeasles virusphosphoprotein multimerization domain as an illustrative example
    David Blocquel, Johnny Habchi, Éric Durand, Marion Sevajol, François Ferrón, Jenny Erales, Nicolas Papageorgiou, Sonia Longhi · 2014 · Acta Crystallographica Section D Biological Crystallography
37. A Parallel Coiled-Coil Tetramer with Offset Helices,
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38. The Human Centriolar Protein CEP135 Contains a Two-Stranded Coiled-Coil Domain Critical for Microtubule Binding
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39. N@a and N@d: Oligomer and Partner Specification by Asparagine in Coiled-Coil Interfaces
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40. Modeling Transmembrane Domain Dimers/Trimers of Plexin Receptors: Implications for Mechanisms of Signal Transmission across the Membrane
    Liqun Zhang, Anton A. Polyansky, Matthias Buck · 2015 · PLoS ONE
41. The Sir4 C-terminal Coiled Coil is Required for Telomeric and Mating Type Silencing in Saccharomyces cerevisiae
    Guinevere A. Murphy, Erik J. Spedale, Sean T. Powell, Lorraine Pillus, Steve C. Schultz, Lin Chen · 2003 · Journal of Molecular Biology
42. The Crystal Structure of the Streptococcal Collagen-like Protein 2 Globular Domain from Invasive M3-type Group A Streptococcus Shows Significant Similarity to Immunomodulatory HIV Protein gp41
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43. Structural aspects of calcium-release activated calcium channel function
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44. Membrane-spanning α-helical barrels as tractable protein-design targets
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45. The Unconventional Cytoplasmic Sensing Mechanism for Ethanol Chemotaxis in Bacillus subtilis
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46. Predicting helix orientation for coiled‐coil dimers
    James R. Apgar, Karl N. Gutwin, Amy E. Keating · 2008 · Proteins Structure Function and Bioinformatics
47. Structure of the Entire Stalk Region of the Dynein Motor Domain
    Yosuke Nishikawa, Takuji Oyama, Narutoshi Kamiya, Takahide Kon, Yoko Yano Toyoshima, Haruki Nakamura, Genji Kurisu · 2014 · Journal of Molecular Biology
48. Design of a Heterospecific, Tetrameric, 21-Residue Miniprotein with Mixed α/β Structure
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49. Communication between the AAA+ ring and microtubule-binding domain of dyneinThis paper is one of a selection of papers published in this special issue entitled 8th International Conference on AAA Proteins and has undergone the Journal's usual peer review process.
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50. The accommodation index measures the perturbation associated with insertions and deletions in coiled‐coils: Application to understand signaling in histidine kinases
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51. Advances in design of protein folds and assemblies
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52. Selective coordination of three transition metal ions within a coiled-coil peptide scaffold
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53. Metal-binding properties and structural characterization of a self-assembled coiled coil: Formation of a polynuclear Cd–thiolate cluster
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54. Investigating the Tolerance of Coiled-Coil Peptides to Nonheptad Sequence Inserts
    Matthew R. Hicks, John Walshaw, Derek N. Woolfson · 2002 · Journal of Structural Biology
55. Structure of the formin-interaction domain of the actin nucleation-promoting factor Bud6
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56. Modeling effects of mutations in coiled‐coil structures: Case study using epidermolysis bullosa simplex mutations in segment 1a of k5/k14 intermediate filaments
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57. Charged single alpha-helices in proteomes revealed by a consensus prediction approach
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58. Structures of Ebola and Reston Virus VP35 Oligomerization Domains and Comparative Biophysical Characterization in All Ebolavirus Species.
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59. Computational Design of Peptide Assemblies
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60. Evidence for Phenylalanine Zipper-Mediated Dimerization in the X-ray Crystal Structure of a Magainin 2 Analogue
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61. A library of coiled-coil domains: from regular bundles to peculiar twists
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62. A Molecular Dynamics Study of the Formation, Stability, and Oligomerization State of Two Designed Coiled Coils: Possibilities and Limitations
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63. Assembly of bioinspired helical protein fibers
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64. Stabilization of vimentin coil2 fragment via an engineered disulfide
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65. A novel cell binding site in the coiled‐coil domain of laminin involved in capillary morphogenesis
    Laura Sanz, Laura García‐Bermejo, Francisco J. Blanco, Peter Kjær Kristensen, Mónica Feijóo, Eduardo Suárez, Belén Blanco, Luis Álvarez‐Vallina · 2003 · The EMBO Journal
66. Structure and dynamics of the RNAPII CTDsome with Rtt103
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67. Identification of a Molecular Latch that Regulates Staphylococcal Virulence
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68. A Conserved Basic Patch and Central Kink in the Nipah Virus Phosphoprotein Multimerization Domain Are Essential for Polymerase Function
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70. Crystal structure of the human glial fibrillary acidic protein 1B domain
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71. Statistical analysis of intrahelical ionic interactions in α-helices and coiled coils
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72. Energetic Determinants of Oligomeric State Specificity in Coiled Coils
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73. An Amino Acid Packing Code for α-Helical Structure and Protein Design
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74. Analyzing PEGylation through Molecular Dynamics Simulations
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75. The structure of the GemC1 coiled coil and its interaction with the Geminin family of coiled-coil proteins
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76. A Critical Coiled Coil Motif in the Small Terminase, gp16, from Bacteriophage T4: Insights into DNA Packaging Initiation and Assembly of Packaging Motor
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77. Molecular dynamics guided study of salt bridge length dependence in both fluorinated and non‐fluorinated parallel dimeric coiled‐coils
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78. Folded‐unfolded cross‐predictions and protein evolution: The case study of coiled‐coils
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79. Structural resolution of switchable states of a de novo peptide assembly
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80. From peptides to proteins: coiled-coil tetramers to single-chain 4-helix bundles
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81. How sequence directs bending in tropomyosin and other two‐stranded alpha‐helical coiled coils
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82. Functional Analysis of Predicted Coiled-Coil Regions in the Escherichia coli K-12 O-Antigen Polysaccharide Chain Length Determinant Wzz
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83. Critical evaluation ofin silicomethods for prediction of coiled-coil domains in proteins
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84. Structural Basis for Selective Interaction between the ESCRT Regulator HD-PTP and UBAP1
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85. Chirality transmission in macromolecular domains
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86. X-ray Crystallographic Structure and Solution Behavior of an Antiparallel Coiled-Coil Hexamer Formed by de Novo Peptides
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87. Critical assessment of coiled-coil predictions based on protein structure data
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88. Conformational Specificity of the Lac Repressor Coiled-Coil Tetramerization Domain,
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89. Synthetic protein–protein interaction domains created by shuffling Cys2His2 zinc‐fingers
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90. Constructing manmade enzymes for oxygen activation.
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91. A Computationally Guided Protein-Interaction Screen Uncovers Coiled-Coil Interactions Involved in Vesicular Trafficking
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92. Structural Change in the Dynein Stalk Region Associated with Two Different Affinities for the Microtubule
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93. Molecular insights into the self‐assembly mechanism of dystrophia myotonica kinase
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95. Applying graph theory to protein structures: an Atlas of coiled coils
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96. Role of Coiled-Coil Registry Shifts in the Activation of Human Bicaudal D2 for Dynein Recruitment upon Cargo Binding
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97. Relevance of Ebola virus VP35 homo-dimerization on the type I interferon cascade inhibition
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98. Directed Assembly of Homopentameric Cholera Toxin B-Subunit Proteins into Higher-Order Structures Using Coiled-Coil Appendages
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99. Contribution of Buried Lysine Residues to the Oligomerization Specificity and Stability of the Fos Coiled Coil
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100. Structural Basis for Dimerization of LAP2α, a Component of the Nuclear Lamina
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