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cat_worths library [100 articles]

Nye artikler sendt til cat_worths bibliotek.
  • Amino acid size, charge, hydropathy indices and matrices for protein structure analysis
    Theoretical Biology and Medical Modelling, Vol. 3 (22 March 2006), 15.
    by JC Biro
    posted to aa physicochemical substitution-table by cat_worth on 2008-06-09 14:39:56 as **
  • Structural impact of the E113Q counterion mutation on the activation and deactivation pathways of the G protein-coupled receptor rhodopsin
    Journal of Molecular Biology, Vol. In Press, Accepted Manuscript
    by Jörg Standfuss, Ekaterina Zaitseva, Mohana Mahalingam, Reiner Vogel
    posted to activated cam gpcr membrane_proteins by cat_worth on 2008-06-02 11:03:27 as **
  • Efficacy at G-protein-coupled receptors.
    Nature reviews. Drug discovery, Vol. 1, No. 2. (February 2002), pp. 103-110.
    by T Kenakin
    posted to gpcr by cat_worth on 2008-05-21 14:19:54 as ** along with 1 person IrinaMoreira
  • X-ray crystallographic studies for ligand-protein interaction changes in rhodopsin.
    Biochemical Society transactions, Vol. 32, No. Pt 5. (November 2004), pp. 738-741.
    by T Okada
    posted to gpcr ligand xtal_structure by cat_worth on 2008-05-21 14:14:48 as **
  • Membrane proteins: molecular dynamics simulations
    Current Opinion in Structural Biology, Vol. In Press, Corrected Proof
    by Erik Lindahl, Mark SP Sansom
    posted to membrane_proteins mol_dynamics by cat_worth on 2008-05-21 14:06:55 as ** along with 3 people and 1 group vahmurk jmccammon rok McCammon
  • The Pros and Cons of Predicting Protein Contact Maps
    Protein Structure Prediction (2008), pp. 199-217.
    by Lisa Bartoli, Emidio Capriotti, Piero Fariselli, Pier L Martelli, Rita Casadio
    posted to contact_map by cat_worth on 2008-05-21 14:05:36 as **
  • Constitutively Signaling G-Protein-Coupled Receptors and Human Disease
    Trends in Endocrinology and Metabolism, Vol. 9, No. 1. ( 1998), pp. 27-31.
    by Leandros Arvanitakis, Elizabeth Geras-Raaka, Marvin C Gershengorn
    posted to cam disease-associated gpcr by cat_worth on 2008-05-21 13:57:56 as **
  • G protein-coupled receptor pharmacogenetics.
    Methods in molecular biology (Clifton, N.J.), Vol. 448 (2008), pp. 139-185.
    by MD Thompson, KA Siminoivitch, DE Cole
    posted to gpcr pharmacogenetics by cat_worth on 2008-05-21 13:55:15 as **
  • The protein folding problem: when will it be solved?
    Curr Opin Struct Biol (13 June 2007)
    by Ken A A Dill, S Banu B Ozkan, Thomas R R Weikl, John D D Chodera, Vincent A A Voelz
    posted to folding by cat_worth on 2008-02-19 16:26:17 as ** along with 6 people wouterboomsma cactus Jporci cdeane kalicuta sebk
  • Evolutionary transitions in protein fold space
    Current Opinion in Structural Biology, Vol. 17, No. 3. (June 2007), pp. 354-361.
    by William R Taylor
    posted to folding by cat_worth on 2008-02-19 16:26:14 as ** along with 3 people cactus Jporci cdeane
  • Energetics of protein folding.
    J Mol Biol, Vol. 371, No. 2. (10 August 2007), pp. 283-301.
    by RL Baldwin
    posted to folding by cat_worth on 2008-02-19 16:26:11 as ** along with 1 person choonpeng
  • The nature of the transition state ensemble and the mechanisms of protein folding: A review
    Archives of Biochemistry and Biophysics, Vol. 469, No. 1. (1 January 2008), pp. 34-45.
    by Catherine A Royer
    posted to folding by cat_worth on 2008-02-19 16:24:05 as **
  • Thermodynamics and Folding Kinetics Analysis of the SH3 Domain form Discrete Molecular Dynamics
    Journal of Molecular Biology, Vol. 318, No. 3. (3 May 2002), pp. 863-876.
    by Jose M Borreguero, Nikolay V Dokholyan, Sergey V Buldyrev, Eugene I Shakhnovich, Eugene
    posted to folding hydrogen_bonding_networks by cat_worth on 2007-11-09 12:03:47 as **
  • Thermodynamics of Partly Folded Intermediates in Proteins - Annual Review of Biophysics and Biomolecular Structure, 24(1):141 - First Page Image
    by E Freire
    posted to folding hydrogen_bonding by cat_worth on 2007-11-09 10:55:44 as **
  • Statistical sequence analyses of G-protein-coupled receptors: Structural and functional characteristics viewed with periodicities of entropy, hydrophobicity, and volume
    Proteins: Structure, Function, and Bioinformatics, Vol. 56, No. 4. (2004), pp. 650-660.
    by Takashi Imai, Norihisa Fujita
    posted to entropy gpcr by cat_worth on 2007-10-29 11:53:48 as **
  • Relationship between local structural entropy and protein thermostabilty
    Proteins: Structure, Function, and Bioinformatics, Vol. 57, No. 4. (2004), pp. 684-691.
    by Chen-Hsiung Chan, Han-Kuen Liang, Nai-Wan Hsiao, Ming-Tat Ko, Ping-Chiang Lyu, Jenn-Kang Hwang
    posted to entropy stability by cat_worth on 2007-10-29 11:51:45 as **
  • Computation of conformational entropy from protein sequences using the machine-learning method - Application to the study of the relationship between structural conservation and local structural stability
    Proteins: Structure, Function, and Genetics, Vol. 59, No. 4. (12 April 2005), pp. 802-809.
    by Shao-Wei Huang, Jenn-Kang Hwang
    posted to entropy sequence-based stability by cat_worth on 2007-10-29 11:50:36 as ** along with 1 person and 2 groups ana structural_bioinformatics Bioinformatics
  • Protein design simulations suggest that side-chain conformational entropy is not a strong determinant of amino acid environmental preferences.
    Proteins, Vol. 62, No. 3. (15 March 2006), pp. 739-748.
    by X Hu, B Kuhlman
    posted to entropy structure-based by cat_worth on 2007-10-29 11:45:13 as ** along with 2 people apaydin msuarezdiez
  • A two-entropies analysis to identify functional positions in the transmembrane region of class A G protein-coupled receptors.
    Proteins, Vol. 63, No. 4. (1 June 2006), pp. 1018-1030.
    by K Ye, EW Lameijer, MW Beukers, AP Ijzerman
    posted to entropy function-prediction gpcr by cat_worth on 2007-10-29 11:42:49 as ** along with 2 people and 1 group xdeupi cen4ik LabCompMed
  • Critical evaluation of methods to incorporate entropy loss upon binding in high-throughput docking.
    Proteins (26 October 2006)
    by Sumeet Salaniwal, Eric S S Manas, Juan C C Alvarez, Rayomand J J Unwalla
    posted to entropy protein-interactions by cat_worth on 2007-10-29 11:41:33 as ** along with 1 person BragilMassoud
  • Thermodynamic effects of proline introduction on protein stability
    Proteins: Structure, Function, and Bioinformatics, Vol. 66, No. 2. (2007), pp. 480-491.
    by Ravindra S Prajapati, Mili Das, Sridhar Sreeramulu, Minhajuddin Sirajuddin, Sankaranarayanan Srinivasan, Vaishnavi Krishnamurthy, Ranganathan Ranjani, C Ramakrishnan, Raghavan Varadarajan
    posted to proline stability by cat_worth on 2007-10-29 11:37:19 as **
  • Comparison between computational alanine scanning and per-residue binding free energy decomposition for protein-protein association using MM-GBSA: Application to the TCR-p-MHC complex
    Proteins: Structure, Function, and Bioinformatics, Vol. 67, No. 4. (2007), pp. 1026-1047.
    by Vincent Zoete, Olivier Michielin
    posted to binding_energy protein-interactions by cat_worth on 2007-10-29 11:25:52 as **
  • Patterns in ionizable side chain interactions in protein structures
    Proteins: Structure, Function, and Genetics, Vol. 24, No. 4. (1996), pp. 439-449.
    by Daniele Gandini, Luca Gogioso, Martino Bolognesi, Domenico Bordo
    posted to hydrogen_bonding protonation by cat_worth on 2007-10-26 12:29:54 as **
  • Intermolecular Nonbonded Contact Distances in Organic Crystal Structures: Comparison with Distances Expected from van der Waals Radii
    J. Phys. Chem., Vol. 100, No. 18. (2 May 1996), pp. 7384-7391.
    by RS Rowland, R Taylor
    posted to hydrogen_bonding vdw by cat_worth on 2007-10-23 13:31:49 as ** along with 1 person kimikazu
  • Hiking in the energy landscape in sequence space: a bumpy road to good folders.
    Proteins, Vol. 39, No. 3. (15 May 2000), pp. 244-251.
    by G Tiana, RA Broglia, EI Shakhnovich
    posted to entropy by cat_worth on 2007-10-17 17:41:19 as **
  • How evolution makes proteins fold quickly
    PNAS, Vol. 95, No. 9. (28 April 1998), pp. 4976-4981.
    by Leonid A Mirny, Victor I Abkevich, Eugene I Shakhnovich
    posted to entropy by cat_worth on 2007-10-17 17:37:05 as ** along with 1 person medic0747
  • Evolutionary conservation of the folding nucleus
    Journal of Molecular Biology, Vol. 308, No. 2. (27 April 2001), pp. 123-129.
    by Leonid Mirny, Eugene Shakhnovich
    posted to entropy by cat_worth on 2007-10-17 17:33:11 as **
  • Hydrogen-bonding and packing features of membrane proteins: functional implications.
    Biophys J (5 October 2007)
    by Peter Hildebrand, Stefan Guenther, Andrean Goede, Lucy Forrest, Cornelius Frömmel, Robert Preissner
    posted to hydrogen_bonding_networks membrane_proteins by cat_worth on 2007-10-15 10:13:35 as **
  • PROVAT: a tool for Voronoi tessellation analysis of protein structures and complexes
    Bioinformatics, Vol. 21, No. 15. (1 August 2005), pp. 3316-3317.
    by Swanand P Gore, David F Burke, Tom L Blundell
    posted to provat solvation by cat_worth on 2007-10-11 16:05:20 as ** along with 3 people and 2 groups jwm siebertm sebk Radiation_Damage Stressosome
  • Benchmarking pKa prediction
    BMC Biochemistry, Vol. 7 (02 June 2006), 18.
    by Matthew N Davies, Christopher P Toseland, David S Moss, Darren R Flower
    posted to mcce pka by cat_worth on 2007-10-11 15:18:31 as ** along with 4 people zfekete bicko sim82 RamuAnandakrishnan
  • An assessment of the accuracy of methods for predicting hydrogen positions in protein structures.
    Proteins, Vol. 61, No. 2. (1 November 2005), pp. 296-309.
    by LR Forrest, B Honig
    posted to mcce protonation by cat_worth on 2007-10-11 14:33:58 as ** along with 1 person and 2 groups ana structural_bioinformatics Bioinformatics
  • Enhancing the stability and solubility of TEV protease using in silico design.
    Protein Sci (28 September 2007)
    by Lisa D D Cabrita, Dimitri Gilis, Amy L L Robertson, Yves Dehouck, Marianne Rooman, Stephen P P Bottomley
    posted to protein_engineering stability by cat_worth on 2007-10-08 09:23:21 as **
  • Intrahelical hydrogen bonding of serine, threonine and cysteine residues within [alpha]-helices and its relevance to membrane-bound proteins
    Journal of Molecular Biology, Vol. 175, No. 1. (5 May 1984), pp. 75-81.
    by TM Gray, BW Matthews
    posted to hydrogen_bonding by cat_worth on 2007-10-04 13:41:41 as **
  • Electrostatic interactions in the denatured state ensemble: Their effect upon protein folding and protein stability
    Archives of Biochemistry and Biophysics, Vol. In Press, Corrected Proof
    by Jae-Hyun Cho, Satoshi Sato, Jia-Cherng Horng, Burcu Anil, Daniel P Raleigh
    posted to electrostatics folding stability by cat_worth on 2007-10-02 13:50:22 as **
  • Classification of conformational stability of protein mutants from 3D pseudo-folding graph representation of protein sequences using support vector machines.
    Proteins (24 July 2007)
    by Michael Fernández, Julio Caballero, Leyden Fernández, Jose Ignacio I Abreu, Gianco Acosta
    posted to disease-associated stability by cat_worth on 2007-07-30 09:16:46 as ** along with 1 group structural_bioinformatics
  • SNAP: predict effect of non-synonymous polymorphisms on function
    Nucl. Acids Res., Vol. 35, No. 11. (28 June 2007), pp. 3823-3835.
    by Yana Bromberg, Burkhard Rost
    posted to disease-associated function-prediction snps by cat_worth on 2007-07-02 11:41:28 as ** along with 2 people and 1 group dakelley jyuh structural_bioinformatics
  • Experiments Suggest that Simulations May Overestimate Electrostatic Contributions to the Mechanical Stability of a Fibronectin Type III Domain.
    J Mol Biol (9 June 2007)
    by Sean P P Ng, Jane Clarke
    posted to protonation stability by cat_worth on 2007-07-02 11:38:51 as ** along with 1 person and 1 group choonpeng structural_bioinformatics
  • Genome-wide association study identifies novel breast cancer susceptibility loci
    Nature (27 May 2007)
    by Douglas F Easton, Karen A Pooley, Alison M Dunning, Paul DP Pharoah, Deborah Thompson, Dennis G Ballinger, Jeffery P Struewing, Jonathan Morrison, Helen Field, Robert Luben, Nicholas Wareham, Shahana Ahmed, Catherine S Healey, Richard Bowman, Kerstin B Meyer, Christopher A Haiman, Laurence K Kolonel, Brian E Henderson, Loic Le Marchand, Paul Brennan, Suleeporn Sangrajrang, Valerie Gaborieau, Fabrice Odefrey, Chen-Yang Shen, Pei-Ei Wu, Hui-Chun Wang, Diana Eccles, Gareth D Evans, Julian Peto, Olivia Fletcher, Nichola Johnson, Sheila Seal, Michael R Stratton, Nazneen Rahman, Georgia Chenevix-Trench, Stig E Bojesen, Børge G Nordestgaard, Christen K Axelsson, Montserrat Garcia-Closas, Louise Brinton, Stephen Chanock, Jolanta Lissowska, Beata Peplonska, Heli Nevanlinna, Rainer Fagerholm, Hannaleena Eerola, Daehee Kang, Keun-Young Yoo, Dong-Young Noh, Sei-Hyun Ahn, David J Hunter, Susan E Hankinson, David G Cox, Per Hall, Sara Wedren, Jianjun Liu, Yen-Ling Low, Natalia Bogdanova, Peter Schürmann, Thilo Dörk, Rob AEM Tollenaar, Catharina E Jacobi, Peter Devilee, Jan GM Klijn, Alice J Sigurdson, Michele M Doody, Bruce H Alexander, Jinghui Zhang, Angela Cox, Ian W Brock, Gordon Macpherson, Malcolm WR Reed, Fergus J Couch, Ellen L Goode, Janet E Olson, Hanne Meijers-Heijboer, Ans van den Ouweland, André Uitterlinden, Fernando Rivadeneira, Roger L Milne, Gloria Ribas, Anna Gonzalez-Neira, Javier Benitez, John L Hopper, Margaret Mccredie, Melissa Southey, Graham G Giles, Chris Schroen, Christina Justenhoven, Hiltrud Brauch, Ute Hamann, Yon-Dschun Ko, Amanda B Spurdle, Jonathan Beesley, Xiaoqing Chen, Arto Mannermaa, Veli-Matti Kosma, Vesa Kataja, Jaana Hartikainen, Nicholas E Day, David R Cox, Bruce AJ Ponder
    posted to cancer genome-wide snps by cat_worth on 2007-06-28 09:41:38 as ** along with 7 people and 1 group Terkko jfr joepickrell caseybrown xingxu jo_davies srp33 structural_bioinformatics
  • Contribution of polar groups in the interior of a protein to the conformational stability.
    Biochemistry, Vol. 40, No. 15. (17 April 2001), pp. 4853-4858.
    by K Takano, Y Yamagata, K Yutani
    posted to buried polar stability by cat_worth on 2007-05-29 09:39:08 as ** along with 1 group structural_bioinformatics
  • Thermodynamic consequences of burial of polar and non-polar amino acid residues in the protein interior.
    J Mol Biol, Vol. 320, No. 2. (5 July 2002), pp. 343-357.
    by VV Loladze, DN Ermolenko, GI Makhatadze
    posted to burial buried polar stability by cat_worth on 2007-05-29 09:36:45 as ** along with 1 group structural_bioinformatics
  • Deleterious SNP prediction: be mindful of your training data!
    Bioinformatics (18 January 2007)
    by Matthew A A Care, Chris J J Needham, Andrew J J Bulpitt, David R R Westhead
    posted to function-prediction snps stability by cat_worth on 2007-05-21 12:29:37 as ** along with 2 people and 1 group bicko massivemayhem structural_bioinformatics
  • Strong and weak hydrogen bonds in the protein-ligand interface.
    Proteins (5 January 2007)
    by Sunil K K Panigrahi, Gautam R R Desiraju
    posted to hydrogen_bonding by cat_worth on 2007-04-10 11:27:13 as ** along with 2 people and 1 group BragilMassoud friendpine structural_bioinformatics
  • Point Mutations in Protein Globular Domains: Contributions from Function, Stability and Misfolding
    Journal of Molecular Biology, Vol. 363, No. 2. (20 October 2006), pp. 422-432.
    by IE Sanchez, J Tejero, C Gomez-Moreno, M Medina, L Serrano
    posted to evolution snps stability by cat_worth on 2007-03-12 09:30:37 as *** along with 2 people and 2 groups barry chad_davis structural_bioinformatics Bioinformatics
  • Significance of aromatic-backbone amide interactions in protein structure
    Proteins: Structure, Function, and Genetics, Vol. 43, No. 4. (2001), pp. 373-381.
    by Gergely Tóth, Charles R Watts, Richard F Murphy, Sándor Lovas
    posted to aromatic electrostatics by cat_worth on 2007-02-27 17:40:52 as ** along with 1 group structural_bioinformatics
  • A recurring two-hydrogen-bond motif incorporating A serine or threonine residue is found both at [alpha]-helical N termini and in other situations
    Journal of Molecular Biology, Vol. 286, No. 5. (12 March 1999), pp. 1651-1662.
    by Wai-Yan Wan, James E Milner-White
    posted to hydrogen_bonding ser thr by cat_worth on 2007-02-27 17:39:22 as ** along with 1 person and 1 group martainn structural_bioinformatics
  • A natural grouping of motifs with an aspartate or asparagine residue forming two hydrogen bonds to residues ahead in sequence: their occurrence at [alpha]-helical N termini and in other situations
    Journal of Molecular Biology, Vol. 286, No. 5. (12 March 1999), pp. 1633-1649.
    by Wai-Yan Wan, James E Milner-White
    posted to asn asp hydrogen_bonding by cat_worth on 2007-02-27 17:38:32 as ** along with 1 group structural_bioinformatics
  • Significance of aromatic-backbone amide interactions in protein structure.
    Proteins, Vol. 43, No. 4. (1 June 2001), pp. 373-381.
    by G Tóth, CR Watts, RF Murphy, S Lovas
    posted to hydrogen_bonding by cat_worth on 2007-02-27 09:57:33 as ** along with 1 group structural_bioinformatics
  • The occurrence of C-H...O hydrogen bonds in proteins.
    J Mol Biol, Vol. 252, No. 2. (15 September 1995), pp. 248-262.
    by ZS Derewenda, L Lee, U Derewenda
    posted to hydrogen_bonding by cat_worth on 2007-02-27 09:56:34 as ** along with 1 group structural_bioinformatics
  • Hydrogen bonds with [pi]-acceptors in proteins: frequencies and role in stabilizing local 3D structures
    Journal of Molecular Biology, Vol. 305, No. 3. (19 January 2001), pp. 535-557.
    by Thomas Steiner, Gertraud Koellner
    posted to hydrogen_bonding pi by cat_worth on 2007-02-27 09:53:09 as ** along with 1 group structural_bioinformatics
  • Side chain dynamics and alternative hydrogen bonding in the mechanism of protein thermostabilization.
    J Biomol Struct Dyn, Vol. 24, No. 3. (December 2006), pp. 255-262.
    by NN Khechinashvili, MV Fedorov, AV Kabanov, S Monti, C Ghio, K Soda
    posted to stability polar hydrogen_bonding by cat_worth on 2007-02-11 12:01:22 as ** along with 1 group structural_bioinformatics
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