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baaden library [257 articles]

最近 baaden さんのライブラリ .
  • Monte Carlo molecular simulation predictions for the heat of vaporization of acetone and butyramide
    Fluid Phase Equilibria, Vol. 236, No. 1-2. (20 September 2005), pp. 53-57.
    by Marcus G Martin, Mary J Biddy
    posted to convergence force_fields validation by baaden on 2007-08-13 12:01:32 as **
  • Industrial property prediction using Towhee and LAMMPS
    Fluid Phase Equilibria, Vol. 217, No. 1. (10 March 2004), pp. 105-110.
    by Marcus G Martin, Aidan P Thompson
    posted to convergence force_fields validation by baaden on 2007-08-13 12:00:57 as **
  • Deficiency of the Coulomb-field approximation in the generalized Born model: An improved formula for Born radii evaluation
    The Journal of Chemical Physics, Vol. 119, No. 9. (2003), pp. 4817-4826.
    by Tomasz Grycuk
    posted to force_fields gb implicit_solvent by baaden on 2007-08-10 15:22:29 as ** along with 1 person onufriev
  • Conformational and helicoidal analysis of the molecular dynamics of proteins: "curves," dials and windows for a 50 psec dynamic trajectory of BPTI.
    Proteins, Vol. 8, No. 2. (1990), pp. 179-193.
    by S Swaminathan, G Ravishanker, DL Beveridge, R Lavery, C Etchebest, H Sklenar
    posted to pcurves by baaden on 2007-03-01 16:31:48 as **
  • Dynamic domains: A simple method of analysing structural movements in proteins
    Molecular Engineering, Vol. V5, No. 1. (1 March 1995), pp. 107-119.
    by Krystyna Zakrzewska
    posted to pcurves by baaden on 2007-03-01 16:28:55 as **
  • Low-frequency vibrations in ?-helices: Helicoidal analysis of polyalanine and deoxymyoglobin molecular dynamics trajectories
    Biopolymers, Vol. 35, No. 6. (1995), pp. 555-571.
    by S Furois-Corbin, JC Smith, R Lavery
    posted to pcurves by baaden on 2007-03-01 16:27:08 as ** along with 1 person saravan
  • Investigation of Salt Bridge Stability in a Generalized Born Solvent Model
    J. Chem. Theory Comput., Vol. 2, No. 1. (10 January 2006), pp. 115-127.
    by R Geney, M Layten, R Gomperts, V Hornak, C Simmerling
    posted to force_fields gb molecular_dynamics by baaden on 2007-03-01 14:23:50 as ** along with 1 person choonpeng
  • Comparison of multiple Amber force fields and development of improved protein backbone parameters
    Proteins: Structure, Function, and Bioinformatics, Vol. 65, No. 3. (2006), pp. 712-725.
    by Viktor Hornak, Robert Abel, Asim Okur, Bentley Strockbine, Adrian Roitberg, Carlos Simmerling
    posted to force_fields molecular_dynamics by baaden on 2007-03-01 13:46:56 as ** along with 5 people barry lna allmensch choonpeng kazemi
  • Secondary Structure Bias in Generalized Born Solvent Models: Comparison of Conformational Ensembles and Free Energy of Solvent Polarization from Explicit and Implicit Solvation
    J. Phys. Chem. B, Vol. 111, No. 7. (22 February 2007), pp. 1846-1857.
    by DR Roe, A Okur, L Wickstrom, V Hornak, C Simmerling
    posted to force_fields gb molecular_dynamics by baaden on 2007-03-01 13:46:14 as ** along with 3 people and 1 group choonpeng sobolevnrm onufriev baker-group
  • Targeting structural flexibility in HIV-1 protease inhibitor binding
    Drug Discovery Today, Vol. 12, No. 3-4. (February 2007), pp. 132-138.
    by Viktor Hornak, Carlos Simmerling
    posted to enzymes flexibility fonflon by baaden on 2007-02-28 14:50:45 as **
  • The Cooperative Response of Synaptotagmin I C2A. A Hypothesis for a Ca2+-Driven Molecular Hammer.
    Biophys J, Vol. 92, No. 4. (15 February 2007), pp. 1409-1418.
    by JA Kertz, PF Almeida, AA Frazier, AK Berg, A Hinderliter
    posted to snares by baaden on 2007-02-22 14:04:04 as **
  • Structural Stabilization and Functional Improvement of Horseradish Peroxidase upon Modification of Accessible Lysines: Experiments and Simulation.
    Biophys J, Vol. 92, No. 4. (15 February 2007), pp. 1192-1203.
    by N Mogharrab, H Ghourchian, M Amininasab
    posted to enzymes fonflon by baaden on 2007-02-22 14:01:24 as **
  • Bending Elasticity of Anti-Parallel beta-Sheets.
    Biophys J, Vol. 92, No. 4. (15 February 2007), pp. 1204-1214.
    by S Choe, SX Sun
    posted to mechanical by baaden on 2007-02-22 13:59:12 as ** along with 1 person aqeel
  • Membrane simulations of OpcA: gating in the loops?
    Biophys J, Vol. 92, No. 2. (15 January 2007)
    by PJ Bond, JP Derrick, MS Sansom
    posted to sansomgroup by baaden on 2007-02-22 13:55:25 as **
  • Conformational effects in enzyme catalysis: reaction via a high energy conformation in fatty acid amide hydrolase.
    Biophys J, Vol. 92, No. 2. (15 January 2007)
    by A Lodola, M Mor, J Zurek, G Tarzia, D Piomelli, JN Harvey, AJ Mulholland
    posted to enzymes fonflon by baaden on 2007-02-22 13:54:28 as **
  • notes High-resolution in situ x-ray study of the hydrophobic gap at the water-octadecyl-trichlorosilane interface.
    Proc Natl Acad Sci U S A, Vol. 103, No. 49. (5 December 2006), pp. 18401-18404.
    by M Mezger, H Reichert, S Schöder, J Okasinski, H Schröder, H Dosch, D Palms, J Ralston, V Honkimäki
    posted to xray water by baaden on 2007-01-21 08:54:06 as ***
  • Single-molecule observations of neck linker conformational changes in the kinesin motor protein
    Nature Structural & Molecular Biology, Vol. 13, No. 10. (01 October 2006), pp. 887-894.
    by Michio Tomishige, Nico Stuurman, Ronald D Vale
    posted to kinesin by baaden on 2006-10-28 13:55:21 as ** along with 3 people and 1 group samjlord qwermish yusdi moernerlab
  • 3D Complex: a Structural Classification of Protein Complexes
    PLoS Computational Biology, Vol. preprint, No. 2006. (1 October 2006)
    by Emmanuel D Levy, Jose B Pereira-Leal, Cyrus Chothia, Sarah A Teichmann
    posted to etudiants by baaden on 2006-10-28 13:51:40 as ** along with 2 people and 1 group lfriedl tny kdl
  • The leucine zipper: a hypothetical structure common to a new class of DNA binding proteins.
    Science, Vol. 240, No. 4860. (24 June 1988), pp. 1759-1764.
    by WH Landschulz, PF Johnson, SL McKnight
    posted to helices snares by baaden on 2006-10-06 18:00:26 as ** along with 1 person gwenknight
  • X-ray structure of the GCN4 leucine zipper, a two-stranded, parallel coiled coil.
    Science, Vol. 254, No. 5031. (25 October 1991), pp. 539-544.
    by EK O'Shea, JD Klemm, PS Kim, T Alber
    posted to helices snares by baaden on 2006-10-06 17:54:38 as ** along with 1 person hplatero
  • alpha-Helix dipole model and electrostatic stabilization of 4-alpha-helical proteins.
    Proc Natl Acad Sci U S A, Vol. 79, No. 15. (August 1982), pp. 4545-4549.
    by RP Sheridan, RM Levy, FR Salemme
    posted to helices snares by baaden on 2006-10-06 17:47:29 as **
  • Destabilization of an alpha -helix-bundle Protein by Helix Dipoles
    PNAS, Vol. 86, No. 5. (1 March 1989), pp. 1524-1528.
    by Michael K Gilson, Barry Honig
    posted to helices snares by baaden on 2006-10-06 17:34:07 as ** along with 1 person choonpeng
  • Protein design, a minimalist approach.
    Science, Vol. 243, No. 4891. (3 February 1989), pp. 622-628.
    by WF DeGrado, ZR Wasserman, JD Lear
    posted to helices snares by baaden on 2006-10-06 17:31:42 as **
  • Energetic approach to the folding of four alpha-helices connected sequentially.
    Protein Eng, Vol. 3, No. 6. (May 1990), pp. 509-514.
    by L Carlacci, KC Chou
    posted to helices snares by baaden on 2006-10-06 17:30:53 as **
  • Electrostatic interactions between loops and alpha-helices in four-helix bundle proteins.
    Protein Eng, Vol. 4, No. 2. (December 1990), pp. 225-227.
    by L Carlacci, KC Chou
    posted to helices snares by baaden on 2006-10-06 17:30:33 as **
  • Energetics of the structure of the four-alpha-helix bundle in proteins.
    Proc Natl Acad Sci U S A, Vol. 85, No. 12. (June 1988), pp. 4295-4299.
    by KC Chou, GM Maggiora, G Némethy, HA Scheraga
    posted to helices by baaden on 2006-10-06 17:29:07 as **
  • Investigation of domain structure in proteins via molecular dynamics simulation: application to HIV-1 protease dimer
    J. Am. Chem. Soc., Vol. 113, No. 7. (1991), pp. 2717-2721.
    by S Swaminathan, WE Harte, David L Beveridge
    posted to flexibility molecular_dynamics by baaden on 2006-06-01 17:49:18 as **
  • Covariance analysis of RNA recognition motifs identifies functionally linked amino acids.
    J Mol Biol, Vol. 310, No. 4. (20 July 2001), pp. 793-800.
    by S Crowder, J Holton, T Alber
    posted to bioinf bioinf_methods exp_data by baaden on 2006-06-01 17:42:37 as **
  • Collective motions in proteins: A covariance analysis of atomic fluctuations in molecular dynamics and normal mode simulations
    Proteins: Structure, Function, and Genetics, Vol. 11, No. 3. (1991), pp. 205-217.
    by Toshiko Ichiye, Martin Karplus
    posted to flexibility molecular_dynamics protein_dynamics simulations by baaden on 2006-06-01 17:41:41 as ** along with 2 people and 1 group simone ssomani structure-bii
  • Molecular dynamics simulation studies of induced fit and conformational capture in U1A-RNA binding: do molecular substates code for specificity?
    Biopolymers, Vol. 65, No. 6. (15 December 2002), pp. 424-435.
    by F Pitici, DL Beveridge, AM Baranger
    posted to flexibility molecular_dynamics by baaden on 2006-06-01 17:38:08 as **
  • Neuronal SNAREs Do Not Trigger Fusion between Synthetic Membranes but Do Promote PEG-Mediated Membrane Fusion
    Biophys. J., Vol. 90, No. 5. (1 March 2006), pp. 1661-1675.
    by Moses S Dennison, Mark E Bowen, Axel T Brunger, Barry R Lentz
    posted to snares by baaden on 2006-04-26 10:51:34 as ***
  • [Application of fluoroquinolons in practice of the intensive therapy departments]
    Klin Khir, No. 10. (October 2005), pp. 28-32.
    by AP Mazur
    posted to docking lipid_bilayers by baaden on 2006-03-22 15:16:09 as **
  • Pairwise solute descreening of solute charges from a dielectric medium
    Chemical Physics Letters, Vol. 246, No. 1. (17 November 1995), pp. 122-129.
    by GD Hawkins, CJ Cramer, DG Truhlar
    posted to cgreview by baaden on 2006-02-08 08:31:37 as ** along with 1 person sigalov
  • notes Purification of the low density lipoprotein receptor, an acidic glycoprotein of 164,000 molecular weight
    J. Biol. Chem., Vol. 257, No. 5. (10 March 1982), pp. 2664-2673.
    by Wj Schneider, U Beisiegel, Jl Goldstein, Ms Brown
    posted to ldlr by baaden on 2006-02-08 06:24:19 as **
  • notes Inhibition of the binding of low-density lipoprotein to its cell surface receptor in human fibroblasts by positively charged proteins.
    J Supramol Struct, Vol. 8, No. 3. (1978), pp. 223-234.
    by MS Brown, TF Deuel, SK Basu, JL Goldstein
    posted to ldlr by baaden on 2006-02-08 06:10:46 as **
  • notes Site-specific mutagenesis of human apolipoprotein E. Receptor binding activity of variants with single amino acid substitutions
    J. Biol. Chem., Vol. 263, No. 8. (15 March 1988), pp. 3542-3545.
    by A Lalazar, Kh Weisgraber, Sc Rall, H Giladi, Tl Innerarity, Az Levanon, Jk Boyles, B Amit, M Gorecki, Rw Mahley
    posted to ldlr by baaden on 2006-02-08 06:06:43 as **
  • notes Possible Functional Interactions of Apolipoprotein B-100 Segments That Associate With Cell Proteoglycans and the ApoB/E Receptor
    Arterioscler Thromb Vasc Biol, Vol. 17, No. 1. (1 January 1997), pp. 149-155.
    by Urban Olsson, German Camejo, Eva Hurt-Camejo, Karin Elfsber, Olof Wiklund, Goran Bondjers
    posted to ldlr by baaden on 2006-02-08 06:02:58 as **
  • notes A cross-species comparison of the apolipoprotein B domain that binds to the LDL receptor.
    J Lipid Res, Vol. 31, No. 6. (June 1990), pp. 1109-1120.
    by A Law, J Scott
    posted to ldlr by baaden on 2006-02-08 06:01:08 as **
  • notes Agarose isoelectric focusing of plasma low and very low density lipoproteins using the PhastSystem.
    Anal Biochem, Vol. 182, No. 1. (October 1989), pp. 94-97.
    by G Camejo, B Rosengren, U Olsson, G Bondjers
    posted to ldlr by baaden on 2006-02-08 05:56:51 as **
  • notes The use of monoclonal antibodies to localize the low density lipoprotein receptor-binding domain of apolipoprotein B.
    J Biol Chem, Vol. 264, No. 33. (25 November 1989), pp. 19754-19760.
    by R Milne, R Théolis, R Maurice, RJ Pease, PK Weech, E Rassart, JC Fruchart, J Scott, YL Marcel
    posted to ldlr by baaden on 2006-02-08 05:55:54 as **
  • Finite-Time Disentanglement Via Spontaneous Emission
    Physical Review Letters, Vol. 93, No. 14. (2004)
    by Ting Yu, JH Eberly
    posted to no-tag by baaden on 2006-01-18 17:41:37 as ** along with 4 people takahashi itmeson KyuhoLee kevina
  • Order-N methodologies and their applications
    Physics Reports, Vol. 358, No. 1. (February 2002), pp. 1-74.
    by SY Wu, CS Jayanthi
    posted to cgreview by baaden on 2006-01-18 11:54:40 as **
  • Energy landscape distortions and the mechanical unfolding of proteins.
    Biophys J, Vol. 88, No. 5. (May 2005), pp. 3494-3501.
    by DJ Lacks
    posted to folding mechanical smd by baaden on 2006-01-09 14:48:50 as **
  • Genetic algorithms for protein folding simulations.
    J Mol Biol, Vol. 231, No. 1. (5 May 1993), pp. 75-81.
    by R Unger, J Moult
    posted to cgreview folding by baaden on 2006-01-09 14:41:51 as ** along with 2 people dgront ejames
  • Exploring conformational space with a simple lattice model for protein structure.
    J Mol Biol, Vol. 243, No. 4. (4 November 1994), pp. 668-682.
    by DA Hinds, M Levitt
    posted to cgreview coarse-graining folding by baaden on 2006-01-09 14:18:56 as ** along with 1 person nigham
  • Folding and stability of helical proteins: carp myogen.
    J Mol Biol, Vol. 106, No. 2. (15 September 1976), pp. 421-437.
    by A Warshel, M Levitt
    posted to cgreview folding by baaden on 2006-01-09 14:13:16 as **
  • A simplified representation of protein conformations for rapid simulation of protein folding.
    J Mol Biol, Vol. 104, No. 1. (14 June 1976), pp. 59-107.
    by M Levitt
    posted to cgreview folding by baaden on 2006-01-09 14:03:27 as ** along with 3 people nigham dgront leelarcombe
  • Computer simulation of protein folding.
    Nature, Vol. 253, No. 5494. (27 February 1975), pp. 694-698.
    by M Levitt, A Warshel
    posted to cgreview folding by baaden on 2006-01-09 14:02:46 as ** along with 2 people nigham dgront
  • A model of myoglobin self-organization.
    Biophys Chem, Vol. 3, No. 1. (February 1975), pp. 1-20.
    by OB Ptitsyn, AA Rashin
    posted to folding by baaden on 2006-01-09 14:00:52 as *
  • Brownian dynamics simulations of protein folding: access to milliseconds time scale and beyond.
    Proc Natl Acad Sci U S A, Vol. 95, No. 8. (14 April 1998), pp. 4288-4292.
    by A Rojnuckarin, S Kim, S Subramaniam
    posted to brownian_dynamics cgreview folding by baaden on 2006-01-09 13:54:09 as **
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