BIOMARKERS

Molecular Biopsy of Human Tumors

- a resource for Precision Medicine *

338 related articles for article (PubMed ID: 27348230)

  • 1. Ligand Docking to Intermediate and Close-To-Bound Conformers Generated by an Elastic Network Model Based Algorithm for Highly Flexible Proteins.
    Kurkcuoglu Z; Doruker P
    PLoS One; 2016; 11(6):e0158063. PubMed ID: 27348230
    [TBL] [Abstract][Full Text] [Related]  

  • 2. DOLINA--docking based on a local induced-fit algorithm: application toward small-molecule binding to nuclear receptors.
    Smieško M
    J Chem Inf Model; 2013 Jun; 53(6):1415-23. PubMed ID: 23725336
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Many local motions cooperate to produce the adenylate kinase conformational transition.
    Daily MD; Phillips GN; Cui Q
    J Mol Biol; 2010 Jul; 400(3):618-31. PubMed ID: 20471396
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Advances in Docking.
    Sulimov VB; Kutov DC; Sulimov AV
    Curr Med Chem; 2019; 26(42):7555-7580. PubMed ID: 30182836
    [TBL] [Abstract][Full Text] [Related]  

  • 5. Folding funnels and conformational transitions via hinge-bending motions.
    Kumar S; Ma B; Tsai CJ; Wolfson H; Nussinov R
    Cell Biochem Biophys; 1999; 31(2):141-64. PubMed ID: 10593256
    [TBL] [Abstract][Full Text] [Related]  

  • 6. ClustENM: ENM-Based Sampling of Essential Conformational Space at Full Atomic Resolution.
    Kurkcuoglu Z; Bahar I; Doruker P
    J Chem Theory Comput; 2016 Sep; 12(9):4549-62. PubMed ID: 27494296
    [TBL] [Abstract][Full Text] [Related]  

  • 7. AutoDockFR: Advances in Protein-Ligand Docking with Explicitly Specified Binding Site Flexibility.
    Ravindranath PA; Forli S; Goodsell DS; Olson AJ; Sanner MF
    PLoS Comput Biol; 2015 Dec; 11(12):e1004586. PubMed ID: 26629955
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Incorporating backbone flexibility in MedusaDock improves ligand-binding pose prediction in the CSAR2011 docking benchmark.
    Ding F; Dokholyan NV
    J Chem Inf Model; 2013 Aug; 53(8):1871-9. PubMed ID: 23237273
    [TBL] [Abstract][Full Text] [Related]  

  • 9. DynaDock: A new molecular dynamics-based algorithm for protein-peptide docking including receptor flexibility.
    Antes I
    Proteins; 2010 Apr; 78(5):1084-104. PubMed ID: 20017216
    [TBL] [Abstract][Full Text] [Related]  

  • 10. A method for biomolecular structural recognition and docking allowing conformational flexibility.
    Sandak B; Nussinov R; Wolfson HJ
    J Comput Biol; 1998; 5(4):631-54. PubMed ID: 10072081
    [TBL] [Abstract][Full Text] [Related]  

  • 11. MOLS 2.0: software package for peptide modeling and protein-ligand docking.
    Paul DS; Gautham N
    J Mol Model; 2016 Oct; 22(10):239. PubMed ID: 27638416
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Higher Accuracy Achieved for Protein-Ligand Binding Pose Prediction by Elastic Network Model-Based Ensemble Docking.
    Wang A; Zhang Y; Chu H; Liao C; Zhang Z; Li G
    J Chem Inf Model; 2020 Jun; 60(6):2939-2950. PubMed ID: 32383873
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Flexible docking allowing induced fit in proteins: insights from an open to closed conformational isomers.
    Sandak B; Wolfson HJ; Nussinov R
    Proteins; 1998 Aug; 32(2):159-74. PubMed ID: 9714156
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Mapping the Dynamics Landscape of Conformational Transitions in Enzyme: The Adenylate Kinase Case.
    Li D; Liu MS; Ji B
    Biophys J; 2015 Aug; 109(3):647-60. PubMed ID: 26244746
    [TBL] [Abstract][Full Text] [Related]  

  • 15. Exploring transition pathway and free-energy profile of large-scale protein conformational change by combining normal mode analysis and umbrella sampling molecular dynamics.
    Wang J; Shao Q; Xu Z; Liu Y; Yang Z; Cossins BP; Jiang H; Chen K; Shi J; Zhu W
    J Phys Chem B; 2014 Jan; 118(1):134-43. PubMed ID: 24350625
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Exploring Large Domain Motions in Proteins Using Atomistic Molecular Dynamics with Enhanced Conformational Sampling.
    Dokainish HM; Sugita Y
    Int J Mol Sci; 2020 Dec; 22(1):. PubMed ID: 33383937
    [TBL] [Abstract][Full Text] [Related]  

  • 17. Testing a flexible-receptor docking algorithm in a model binding site.
    Wei BQ; Weaver LH; Ferrari AM; Matthews BW; Shoichet BK
    J Mol Biol; 2004 Apr; 337(5):1161-82. PubMed ID: 15046985
    [TBL] [Abstract][Full Text] [Related]  

  • 18. CDOCKER and λ-dynamics for prospective prediction in D₃R Grand Challenge 2.
    Ding X; Hayes RL; Vilseck JZ; Charles MK; Brooks CL
    J Comput Aided Mol Des; 2018 Jan; 32(1):89-102. PubMed ID: 28884249
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Multiple Pathways and Time Scales for Conformational Transitions in apo-Adenylate Kinase.
    Zheng Y; Cui Q
    J Chem Theory Comput; 2018 Mar; 14(3):1716-1726. PubMed ID: 29378407
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Insights into the Molecular Mechanisms of Protein-Ligand Interactions by Molecular Docking and Molecular Dynamics Simulation: A Case of Oligopeptide Binding Protein.
    Fu Y; Zhao J; Chen Z
    Comput Math Methods Med; 2018; 2018():3502514. PubMed ID: 30627209
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 17.