These tools will no longer be maintained as of December 31, 2024. Archived website can be found here. PubMed4Hh GitHub repository can be found here. Contact NLM Customer Service if you have questions.


BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

112 related articles for article (PubMed ID: 36323866)

  • 1. StarMap: a user-friendly workflow for Rosetta-driven molecular structure refinement.
    Lugmayr W; Kotov V; Goessweiner-Mohr N; Wald J; DiMaio F; Marlovits TC
    Nat Protoc; 2023 Jan; 18(1):239-264. PubMed ID: 36323866
    [TBL] [Abstract][Full Text] [Related]  

  • 2. Automated structure refinement of macromolecular assemblies from cryo-EM maps using Rosetta.
    Wang RY; Song Y; Barad BA; Cheng Y; Fraser JS; DiMaio F
    Elife; 2016 Sep; 5():. PubMed ID: 27669148
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Current approaches for the fitting and refinement of atomic models into cryo-EM maps using CCP-EM.
    Nicholls RA; Tykac M; Kovalevskiy O; Murshudov GN
    Acta Crystallogr D Struct Biol; 2018 Jun; 74(Pt 6):492-505. PubMed ID: 29872001
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Cross-validation in cryo-EM-based structural modeling.
    Falkner B; Schröder GF
    Proc Natl Acad Sci U S A; 2013 May; 110(22):8930-5. PubMed ID: 23674685
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Atomic-accuracy models from 4.5-Å cryo-electron microscopy data with density-guided iterative local refinement.
    DiMaio F; Song Y; Li X; Brunner MJ; Xu C; Conticello V; Egelman E; Marlovits T; Cheng Y; Baker D
    Nat Methods; 2015 Apr; 12(4):361-365. PubMed ID: 25707030
    [TBL] [Abstract][Full Text] [Related]  

  • 6. A New Protocol for Atomic-Level Protein Structure Modeling and Refinement Using Low-to-Medium Resolution Cryo-EM Density Maps.
    Zhang B; Zhang X; Pearce R; Shen HB; Zhang Y
    J Mol Biol; 2020 Sep; 432(19):5365-5377. PubMed ID: 32771523
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Building and refining protein models within cryo-electron microscopy density maps based on homology modeling and multiscale structure refinement.
    Zhu J; Cheng L; Fang Q; Zhou ZH; Honig B
    J Mol Biol; 2010 Apr; 397(3):835-51. PubMed ID: 20109465
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Iterative Molecular Dynamics-Rosetta Membrane Protein Structure Refinement Guided by Cryo-EM Densities.
    Leelananda SP; Lindert S
    J Chem Theory Comput; 2017 Oct; 13(10):5131-5145. PubMed ID: 28949136
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Using NMR Chemical Shifts and Cryo-EM Density Restraints in Iterative Rosetta-MD Protein Structure Refinement.
    Leelananda SP; Lindert S
    J Chem Inf Model; 2020 May; 60(5):2522-2532. PubMed ID: 31872764
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Comparing Cryo-EM Reconstructions and Validating Atomic Model Fit Using Difference Maps.
    Joseph AP; Lagerstedt I; Jakobi A; Burnley T; Patwardhan A; Topf M; Winn M
    J Chem Inf Model; 2020 May; 60(5):2552-2560. PubMed ID: 32043355
    [TBL] [Abstract][Full Text] [Related]  

  • 11. TEMPy2: a Python library with improved 3D electron microscopy density-fitting and validation workflows.
    Cragnolini T; Sahota H; Joseph AP; Sweeney A; Malhotra S; Vasishtan D; Topf M
    Acta Crystallogr D Struct Biol; 2021 Jan; 77(Pt 1):41-47. PubMed ID: 33404524
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Real-space refinement in PHENIX for cryo-EM and crystallography.
    Afonine PV; Poon BK; Read RJ; Sobolev OV; Terwilliger TC; Urzhumtsev A; Adams PD
    Acta Crystallogr D Struct Biol; 2018 Jun; 74(Pt 6):531-544. PubMed ID: 29872004
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Tools for macromolecular model building and refinement into electron cryo-microscopy reconstructions.
    Brown A; Long F; Nicholls RA; Toots J; Emsley P; Murshudov G
    Acta Crystallogr D Biol Crystallogr; 2015 Jan; 71(Pt 1):136-53. PubMed ID: 25615868
    [TBL] [Abstract][Full Text] [Related]  

  • 14. The accuracy of protein models automatically built into cryo-EM maps with ARP/wARP.
    Chojnowski G; Sobolev E; Heuser P; Lamzin VS
    Acta Crystallogr D Struct Biol; 2021 Feb; 77(Pt 2):142-150. PubMed ID: 33559604
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Refinement of Atomic Structures Against cryo-EM Maps.
    Murshudov GN
    Methods Enzymol; 2016; 579():277-305. PubMed ID: 27572731
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Automatic local resolution-based sharpening of cryo-EM maps.
    Ramírez-Aportela E; Vilas JL; Glukhova A; Melero R; Conesa P; Martínez M; Maluenda D; Mota J; Jiménez A; Vargas J; Marabini R; Sexton PM; Carazo JM; Sorzano COS
    Bioinformatics; 2020 Feb; 36(3):765-772. PubMed ID: 31504163
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Building Protein Atomic Models from Cryo-EM Density Maps and Residue Co-Evolution.
    Bouvier G; Bardiaux B; Pellarin R; Rapisarda C; Nilges M
    Biomolecules; 2022 Sep; 12(9):. PubMed ID: 36139128
    [TBL] [Abstract][Full Text] [Related]  

  • 18. Interface refinement of low- to medium-resolution Cryo-EM complexes using HADDOCK2.4.
    Neijenhuis T; van Keulen SC; Bonvin AMJJ
    Structure; 2022 Apr; 30(4):476-484.e3. PubMed ID: 35216656
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Cryo_fit: Democratization of flexible fitting for cryo-EM.
    Kim DN; Moriarty NW; Kirmizialtin S; Afonine PV; Poon B; Sobolev OV; Adams PD; Sanbonmatsu K
    J Struct Biol; 2019 Oct; 208(1):1-6. PubMed ID: 31279069
    [TBL] [Abstract][Full Text] [Related]  

  • 20. CERES: a cryo-EM re-refinement system for continuous improvement of deposited models.
    Liebschner D; Afonine PV; Moriarty NW; Poon BK; Chen VB; Adams PD
    Acta Crystallogr D Struct Biol; 2021 Jan; 77(Pt 1):48-61. PubMed ID: 33404525
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 6.