All Stories

  1. New restraints and validation approaches for nucleic acid structures in PDB-REDO
  2. LAHMA: structure analysis through local annotation of homology-matched amino acids
  3. A community proposal to integrate structural bioinformatics activities in ELIXIR (3D-Bioinfo Community)
  4. A crystal structure of the human protein kinase Mps1 reveals an ordered conformation of the activation loop
  5. Characterization and structure determination of a llama-derived nanobody targeting the J-base binding protein 1
  6. Homology-based hydrogen bond information improves crystallographic structures in the PDB
  7. Negative regulation of urokinase receptor activity by a GPI-specific phospholipase C in breast cancer cells
  8. Understanding inhibitor resistance in Mps1 kinase through novel biophysical assays and structures
  9. Homology-based hydrogen bond information improves crystallographic structures in the PDB
  10. Understanding inhibitor resistance in Mps1 kinase through novel biophysical assays and structures
  11. PLA2G16 represents a switch between entry and clearance of Picornaviridae
  12. Structure–Activity Relationships of Small Molecule Autotaxin Inhibitors with a Discrete Binding Mode
  13. Negative regulation of uPAR activity by a GPI-specific phospholipase C
  14. Glycerophosphodiesterase GDE2 Promotes Neuroblastoma Differentiation through Glypican Release and Is a Marker of Clinical Outcome
  15. Structural basis of reversine selectivity in inhibiting Mps1 more potently than aurora B kinase
  16. Glycerophosphodiesterase GDE2 Promotes Neuroblastoma Differentiation through Glypican Release and Is a Marker of Clinical Outcome
  17. Structural snapshots of the catalytic cycle of the phosphodiesterase Autotaxin
  18. Editorial overview: New constructs and expression of proteins
  19. Recombinant cloning strategies for protein expression
  20. Faculty of 1000 evaluation for Outcome of the First wwPDB/CCDC/D3R Ligand Validation Workshop.
  21. Steroid binding to Autotaxin links bile salts and lysophosphatidic acid signalling
  22. Faculty of 1000 evaluation for Structural basis for specific inhibition of Autotaxin by a DNA aptamer.
  23. Faculty of 1000 evaluation for Autotaxin activity increases locally following lung injury, but is not required for pulmonary lysophosphatidic acid production or fibrosis.
  24. Faculty of 1000 evaluation for In vacuo X-ray data collection from graphene-wrapped protein crystals.
  25. Faculty of 1000 evaluation for Collaborative computational project for electron cryo-microscopy.
  26. Data Mining of Macromolecular Structures
  27. Crystal structure of GEMC1 coiled-coil domain
  28. The structure of the GemC1: last of the Geminin family
  29. MPS1 regulates cell division by competing with microtubules for binding to kinetochores
  30. The first step of peptide selection in antigen presentation by MHC class I molecules
  31. Faculty of 1000 evaluation for Automated nucleic acid chain tracing in real time.
  32. Faculty of 1000 evaluation for Archiving raw crystallographic data.
  33. The PDB_REDO server
  34. Faculty of 1000 evaluation for Automated identification of elemental ions in macromolecular crystal structures.
  35. Autotaxin: structure-function and signaling
  36. Faculty of 1000 evaluation for Automating crystallographic structure solution and refinement of protein-ligand complexes.
  37. Faculty of 1000 evaluation for Crystal Structure of TET2-DNA Complex: Insight into TET-Mediated 5mC Oxidation.
  38. Timely deposition of macromolecular structures is necessary for peer review
  39. Faculty of 1000 evaluation for Improved low-resolution crystallographic refinement with Phenix and Rosetta.
  40. The Idas:Geminin heterodimeric parallel coiled-coil
  41. The Geminin and Idas Coiled Coils Preferentially Form a Heterodimer That Inhibits Geminin Function in DNA Replication Licensing
  42. Faculty of 1000 evaluation for Visual automated macromolecular model building.
  43. Faculty of 1000 evaluation for Better models by discarding data?
  44. Faculty of 1000 evaluation for Report of the wwPDB Small-Angle Scattering Task Force: Data Requirements for Biomolecular Modeling and the PDB.
  45. Faculty of 1000 evaluation for Protein-peptide complex prediction through fragment interaction patterns.
  46. Faculty of 1000 evaluation for Dynamic readers for 5-(hydroxy)methylcytosine and its oxidized derivatives.
  47. A TPR domain–containing N-terminal module of MPS1 is required for its kinetochore localization by Aurora B
  48. Faculty of 1000 evaluation for Techniques, tools and best practices for ligand electron-density analysis and results from their application to deposited crystal structures.
  49. Faculty of 1000 evaluation for Publication guidelines for structural modelling of small-angle scattering data from biomolecules in solution.
  50. Structure–function relationships of autotaxin, a secreted lysophospholipase D
  51. Faculty of 1000 evaluation for A Method for Integrative Structure Determination of Protein-Protein Complexes.
  52. The Polybasic Insertion in Autotaxin α Confers Specific Binding to Heparin and Cell Surface Heparan Sulfate Proteoglycans
  53. Structure of NPP1, an Ectonucleotide Pyrophosphatase/Phosphodiesterase Involved in Tissue Calcification
  54. Faculty of 1000 evaluation for Linking crystallographic model and data quality.
  55. Faculty of 1000 evaluation for Autotaxin expression from synovial fibroblasts is essential for the pathogenesis of modeled arthritis.
  56. Faculty of 1000 evaluation for EM-fold: de novo atomic-detail protein structure determination from medium-resolution density maps.
  57. Binding of the J-Binding Protein to DNA Containing Glucosylated hmU (Base J) or 5-hmC: Evidence for a Rapid Conformational Change upon DNA Binding
  58. Glucosylated Hydroxymethyluracil, DNA Base J, Prevents Transcriptional Readthrough in Leishmania
  59. The Vertebrate Mitotic Checkpoint Protein BUBR1 Is an Unusual Pseudokinase
  60. ARP/wARP– automated model building and refinement
  61. PDB_REDO: constructive validation, more than just looking for errors
  62. Cdt1 and Geminin in DNA Replication Initiation
  63. Mechanism of USP7/HAUSP Activation by Its C-Terminal Ubiquitin-like Domain and Allosteric Regulation by GMP-Synthetase
  64. A New Generation of Crystallographic Validation Tools for the Protein Data Bank
  65. Insights into autotaxin: how to produce and present a lipid mediator
  66. From SPINE to SPINE-2 complexes and beyond
  67. Enabling high-throughput ligation-independent cloning and protein expression for the family of ubiquitin specific proteases
  68. Expression of protein complexes using multiple Escherichia coli protein co-expression systems: A benchmarking study
  69. Investigating a macromolecular complex: The toolkit of methods
  70. Structure-Based Design of Novel Boronic Acid-Based Inhibitors of Autotaxin
  71. Native mass spectrometry provides direct evidence for DNA mismatch-induced regulation of asymmetric nucleotide binding in mismatch repair protein MutS
  72. Idas, a Novel Phylogenetically Conserved Geminin-related Protein, Binds to Geminin and Is Required for Cell Cycle Progression
  73. The structural basis for recognition of base J containing DNA by a novel DNA binding domain in JBP1
  74. Structural basis of substrate discrimination and integrin binding by autotaxin
  75. Target highlights in CASP9: Experimental target structures for the critical assessment of techniques for protein structure prediction
  76. Systematic Bioinformatics and Experimental Validation of Yeast Complexes Reduces the Rate of Attrition during Structural Investigations
  77. Mammalian cell expression, purification, crystallization and microcrystal data collection of autotaxin/ENPP2, a secreted mammalian glycoprotein
  78. Human Cdt1:Geminin complex
  79. UV-Induced Ligand Exchange in MHC Class I Protein Crystals
  80. Class I Major Histocompatibility Complexes Loaded by a Periodate Trigger
  81. Use of Acetylcholine Binding Protein in the Search for Novel α7 Nicotinic Receptor Ligands. In Silico Docking, Pharmacological Screening, and X-ray Analysis†
  82. Insights into the DNA cleavage mechanism of human LINE-1 retrotransposon endonuclease
  83. “Conditional Restraints”: Restraining the Free Atoms in ARP/wARP
  84. Advances in automatic model building and structure completion in the context ofARP/wARP
  85. Automated macromolecular model building for X-ray crystallography using ARP/wARP version 7
  86. Polo-box domains confer target specificity to the Polo-like kinase family
  87. A knowledge-driven approach for crystallographic protein model completion
  88. Assembly of Protein Complexes by Coexpression in Prokaryotic and Eukaryotic Hosts: an Overview
  89. ARP/wARPand molecular replacement: the next generation
  90. RNA-Binding Protein Dnd1 Inhibits MicroRNA Access to Target mRNA
  91. Determinants for DNA target structure selectivity of the human LINE-1 retrotransposon endonuclease
  92. The protein that binds to DNA base J in trypanosomatids has features of a thymidine hydroxylase
  93. Assessment of automatic ligand building inARP/wARP
  94. Polo-like Kinase-1 Controls Proteasome-Dependent Degradation of Claspin during Checkpoint Recovery
  95. Co-expression of protein complexes in prokaryotic and eukaryotic hosts: experimental procedures, database tracking and case studies
  96. Modelling bound ligands with ARP/wARP
  97. Structure and E3-ligase activity of the Ring–Ring complex of Polycomb proteins Bmi1 and Ring1b
  98. Selectivity and Promiscuity in Eph Receptors
  99. Towards rationalization of crystallization screening for small- to medium-sized academic laboratories: the PACT/JCSG+ strategy
  100. Modeling and Experimental Validation of the Binary Complex of the Plectin Actin-binding Domain and the First Pair of Fibronectin Type III (FNIII) Domains of the β4 Integrin
  101. Inhibition of Autotaxin by Lysophosphatidic Acid and Sphingosine 1-Phosphate
  102. Model building and refinement
  103. Towards complete validated models in the next generation ofARP/wARP
  104. Developments in theCCP4 molecular-graphics project
  105. Crystal Structure of the Targeting Endonuclease of the Human LINE-1 Retrotransposon
  106. Breaking good resolutions with ARP/wARP
  107. ARP⧸wARP and Automatic Interpretation of Protein Electron Density Maps
  108. The ARP/wARP suite for the automation of crystal structure determination
  109. Ptprj is a candidate for the mouse colon-cancer susceptibility locus Scc1 and is frequently deleted in human cancers
  110. ARP/wARP's model-building algorithms. I. The main chain
  111. ARP/wARP and molecular replacement
  112. Structure elucidation of β-mannanase: from the electron-density map to the DNA sequence
  113. Apotheosis, not apocalypse: methods in protein crystallography
  114. ARP/wARP: Procedures for automated model building and refinement
  115. The X-ray crystal structure of neuronal Sec1 from squid sheds new light on the role of this protein in exocytosis
  116. Protein microcrystals and the design of a microdiffractometer: current experience and plans at EMBL and ESRF/ID13
  117. Automated protein model building combined with iterative structure refinement
  118. Molecular, crystal and solution structure of a β-cyclodextrin complex with the bromide salt of 2-(3-dimethylaminopropyl)tricyclo[3.3.1.13,7]decan-2-ol, a potent antimicrobial drug
  119. Small is beautiful: protein micro-crystallography
  120. Accelerated X-ray Structure Elucidation of a 36 kDa Muramidase/Transglycosylase Using wARP
  121. Evolution of immunoglobulin-like modules in chitinases: their structural flexibility and functional implications
  122. Crystal structure of the specific DNA-binding domain of Tc3 transposase of C.elegans in complex with transposon DNA
  123. Crystal Structure of Murine/Human Ubc9 Provides Insight into the Variability of the Ubiquitin-conjugating System
  124. Substrate-Assisted Catalysis Unifies Two Families of Chitinolytic Enzymes
  125. Crystal structure of UDP-N-acetylglucosamine enolpyruvyltransferase, the target of the antibiotic fosfomycin
  126. Bacterial chitobiase structure provides insight into catalytic mechanism and the basis of Tay–Sachs disease
  127. The Crystal Structure of the Complexes of Concanavalin A with 4′-Nitrophenyl-α-d-mannopyranoside and 4′-Nitrophenyl-α-d-glucopyranoside
  128. Crystal structure of a bacterial chitinase at 2.3 Å resolution
  129. Evolutionary divergence and conservation of trypsin