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 *

164 related articles for article (PubMed ID: 21905115)

  • 1. Progress in super long loop prediction.
    Zhao S; Zhu K; Li J; Friesner RA
    Proteins; 2011 Oct; 79(10):2920-35. PubMed ID: 21905115
    [TBL] [Abstract][Full Text] [Related]  

  • 2. A hierarchical approach to all-atom protein loop prediction.
    Jacobson MP; Pincus DL; Rapp CS; Day TJ; Honig B; Shaw DE; Friesner RA
    Proteins; 2004 May; 55(2):351-67. PubMed ID: 15048827
    [TBL] [Abstract][Full Text] [Related]  

  • 3. Long loop prediction using the protein local optimization program.
    Zhu K; Pincus DL; Zhao S; Friesner RA
    Proteins; 2006 Nov; 65(2):438-52. PubMed ID: 16927380
    [TBL] [Abstract][Full Text] [Related]  

  • 4. Toward better refinement of comparative models: predicting loops in inexact environments.
    Sellers BD; Zhu K; Zhao S; Friesner RA; Jacobson MP
    Proteins; 2008 Aug; 72(3):959-71. PubMed ID: 18300241
    [TBL] [Abstract][Full Text] [Related]  

  • 5. The VSGB 2.0 model: a next generation energy model for high resolution protein structure modeling.
    Li J; Abel R; Zhu K; Cao Y; Zhao S; Friesner RA
    Proteins; 2011 Oct; 79(10):2794-812. PubMed ID: 21905107
    [TBL] [Abstract][Full Text] [Related]  

  • 6. Comparison between self-guided Langevin dynamics and molecular dynamics simulations for structure refinement of protein loop conformations.
    Olson MA; Chaudhury S; Lee MS
    J Comput Chem; 2011 Nov; 32(14):3014-22. PubMed ID: 21793008
    [TBL] [Abstract][Full Text] [Related]  

  • 7. Ab Initio Prediction of 3-D Conformations for Protein Long Loops with High Accuracy and Applications to Antibody CDRH3 Modeling.
    Liang S; Zhang C; Zhu M
    J Chem Inf Model; 2023 Dec; 63(23):7568-7577. PubMed ID: 38018130
    [TBL] [Abstract][Full Text] [Related]  

  • 8. Crystal packing effects on protein loops.
    Rapp CS; Pollack RM
    Proteins; 2005 Jul; 60(1):103-9. PubMed ID: 15852307
    [TBL] [Abstract][Full Text] [Related]  

  • 9. Protein loop modeling using a new hybrid energy function and its application to modeling in inaccurate structural environments.
    Park H; Lee GR; Heo L; Seok C
    PLoS One; 2014; 9(11):e113811. PubMed ID: 25419655
    [TBL] [Abstract][Full Text] [Related]  

  • 10. Development of a new physics-based internal coordinate mechanics force field and its application to protein loop modeling.
    Arnautova YA; Abagyan RA; Totrov M
    Proteins; 2011 Feb; 79(2):477-98. PubMed ID: 21069716
    [TBL] [Abstract][Full Text] [Related]  

  • 11. New efficient statistical sequence-dependent structure prediction of short to medium-sized protein loops based on an exhaustive loop classification.
    Wojcik J; Mornon JP; Chomilier J
    J Mol Biol; 1999 Jun; 289(5):1469-90. PubMed ID: 10373380
    [TBL] [Abstract][Full Text] [Related]  

  • 12. Fast protein loop sampling and structure prediction using distance-guided sequential chain-growth Monte Carlo method.
    Tang K; Zhang J; Liang J
    PLoS Comput Biol; 2014 Apr; 10(4):e1003539. PubMed ID: 24763317
    [TBL] [Abstract][Full Text] [Related]  

  • 13. Loop prediction for a GPCR homology model: algorithms and results.
    Goldfeld DA; Zhu K; Beuming T; Friesner RA
    Proteins; 2013 Feb; 81(2):214-28. PubMed ID: 22965891
    [TBL] [Abstract][Full Text] [Related]  

  • 14. Fast de novo discovery of low-energy protein loop conformations.
    Wong SWK; Liu JS; Kou SC
    Proteins; 2017 Aug; 85(8):1402-1412. PubMed ID: 28378911
    [TBL] [Abstract][Full Text] [Related]  

  • 15. PDB-based protein loop prediction: parameters for selection and methods for optimization.
    van Vlijmen HW; Karplus M
    J Mol Biol; 1997 Apr; 267(4):975-1001. PubMed ID: 9135125
    [TBL] [Abstract][Full Text] [Related]  

  • 16. Ab initio construction of all-atom loop conformations.
    Jiang H; Blouin C
    J Mol Model; 2006 Jan; 12(2):221-8. PubMed ID: 16247602
    [TBL] [Abstract][Full Text] [Related]  

  • 17. High-resolution prediction of protein helix positions and orientations.
    Li X; Jacobson MP; Friesner RA
    Proteins; 2004 May; 55(2):368-82. PubMed ID: 15048828
    [TBL] [Abstract][Full Text] [Related]  

  • 18. LOOPER: a molecular mechanics-based algorithm for protein loop prediction.
    Spassov VZ; Flook PK; Yan L
    Protein Eng Des Sel; 2008 Feb; 21(2):91-100. PubMed ID: 18194981
    [TBL] [Abstract][Full Text] [Related]  

  • 19. Antibodies as a model system for comparative model refinement.
    Sellers BD; Nilmeier JP; Jacobson MP
    Proteins; 2010 Aug; 78(11):2490-505. PubMed ID: 20602354
    [TBL] [Abstract][Full Text] [Related]  

  • 20. Loopholes and missing links in protein modeling.
    Rossi KA; Weigelt CA; Nayeem A; Krystek SR
    Protein Sci; 2007 Sep; 16(9):1999-2012. PubMed ID: 17660258
    [TBL] [Abstract][Full Text] [Related]  

    [Next]    [New Search]
    of 9.