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タグ: folding [503 articles]

Recent papers classified by the tag folding.
  • Protein folding and unfolding studied at atomic resolution by fast two-dimensional NMR spectroscopy
    PNAS, Vol. 104, No. 27. (3 July 2007), pp. 11257-11262.
    by Paul Schanda, Vincent Forge, Bernhard Brutscher
    posted to folding nmr protein structure by zwang on 2007-08-15 04:12:29 as ** along with 1 person rph
  • GroEL stimulates protein folding through forced unfolding
    Nature Structural & Molecular Biology, Vol. 15, No. 3. (02 March 2008), pp. 303-311.
    by Zong Lin, Damian Madan, Hays S Rye
    posted to chaperone folding protein by zwang on 2008-03-06 14:00:12 as ** along with 4 people hsekiguc aalibes choonpeng cactus
  • Structural inference of native and partially folded RNA by high-throughput contact mapping
    Proceedings of the National Academy of Sciences, Vol. 105, No. 11. (18 March 2008), pp. 4144-4149.
    by Rhiju Das, Madhuri Kudaravalli, Magdalena Jonikas, Alain Laederach, Robert Fong, Jason P Schwans, David Baker, Joseph A Piccirilli, Russ B Altman, Daniel Herschlag
    posted to contact folding rna structure by zwang on 2008-03-20 13:00:39 as ***** along with 1 person and 1 group wsjames Oxford Virology
  • Structural Basis for the Cooperation of Hsp70 and Hsp110 Chaperones in Protein Folding
    Cell, Vol. 133, No. 6. (13 June 2008), pp. 1068-1079.
    by Sigrun Polier, Zdravko Dragovic, Ulrich F Hartl, Andreas Bracher
    posted to structure folding by zwang on 2008-07-07 04:17:04 as **
  • Simulating replica exchange simulations of protein folding with a kinetic network model
    Proceedings of the National Academy of Sciences, Vol. 104, No. 39. (25 September 2007), pp. 15340-15345.
    by Weihua Zheng, Michael Andrec, Emilio Gallicchio, Ronald M Levy
    posted to folding modeling network protein by zwang on 2007-11-01 02:13:25 as **
  • Kinetic barriers and the role of topology in Protein and RNA folding.
    Protein Sci (23 May 2008), ps.036319.108.
    by Tobin R Sosnick
    posted to rna protein interaction folding by zwang on 2008-07-01 08:50:56 as ***
  • Implications from a Network-Based Topological Analysis of Ubiquitin Unfolding Simulations
    PLoS ONE, Vol. 3, No. 5. (14 May 2008), e2149.
    by Arun Krishnan, Alessandro Giuliani, Joseph P Zbilut, Masaru Tomita
    posted to structure simulation protein network folding by zwang on 2008-06-16 01:54:32 as ** along with 1 person phoenixzxl
  • Multiple Routes and Structural Heterogeneity in Protein Folding
    Annual Review of Biophysics, Vol. 37, No. 1. (2008), pp. 489-510.
    by Jayant B Udgaonkar
    posted to structure protein folding by zwang on 2008-05-08 09:59:05 as **
  • The Protein Folding Problem
    Annual Review of Biophysics, Vol. 37, No. 1. (2008), pp. 289-316.
    by Ken A Dill, Banu S Ozkan, Scott M Shell, Thomas R Weikl
    posted to protein folding by zwang on 2008-05-08 09:53:48 as **
  • RNA Folding: Conformational Statistics, Folding Kinetics, and Ion Electrostatics
    Annual Review of Biophysics, Vol. 37, No. 1. (2008), pp. 197-214.
    by Shi J Chen
    posted to rna folding by zwang on 2008-05-08 09:53:36 as ***
  • Inhibition of Escherichia coli RNase P by oligonucleotide directed misfolding of RNA
    RNA, Vol. 9, No. 12. (1 December 2003), pp. 1437-1445.
    by Jessica L Childs, Alex W Poole, Douglas H Turner
    posted to bacterial folding rna rnasep by zwang on 2008-03-11 05:35:11 as ****
  • A First-Principles Model of Early Evolution: Emergence of Gene Families, Species, and Preferred Protein Folds
    PLoS Computational Biology, Vol. 3, No. 7. (1 July 2007), e139.
    by Konstantin B Zeldovich, Peiqiu Chen, Boris E Shakhnovich, Eugene I Shakhnovich
    posted to evolution folding gene modeling protein specy by zwang on 2007-08-28 07:39:34 as ** along with 6 people and 1 group BioNica grahamc cjeans Jporci farhat biinins ParkinsonLab_at_MaRS
  • Unfolding the fold of cyclic cysteine-rich peptides
    Protein Sci, Vol. 17, No. 3. (1 March 2008), pp. 482-493.
    by Amarda Shehu, Lydia E Kavraki, Cecilia Clementi
    posted to folding peptide by zwang on 2008-02-22 12:49:50 as *
  • Improved Go-like Models Demonstrate the Robustness of Protein Folding Mechanisms Towards Non-native Interactions
    Journal of Molecular Biology, Vol. 334, No. 2. (21 November 2003), pp. 309-325.
    by John Karanicolas, Charles L Brooks
    posted to folding go-model by yalexeev on 2008-02-08 13:33:15 as **
  • Folding Amphipathic Helices Into Membranes: Amphiphilicity Trumps Hydrophobicity.
    J Mol Biol (22 May 2007)
    by Mónica Fernández-Vidal, Sajith Jayasinghe, Alexey S S Ladokhin, Stephen H H White
    posted to folding helix membrane_proteins transmembrane by xdeupi on 2007-06-02 19:22:34 as ** along with 1 group LabCompMed
  • Bacteriorhodopsin Folds into the Membrane against an External Force.
    J Mol Biol (6 January 2006)
    by Max Kessler, Kay E E Gottschalk, Harald Janovjak, Daniel J J Muller, Hermann E E Gaub
    posted to folding membrane by xdeupi on 2006-01-30 09:27:58 as ** along with 1 group LabCompMed
  • Solving the membrane protein folding problem
    Nature, Vol. 438, No. 7068. (30 November 2005), pp. 581-589.
    by James U Bowie
    posted to folding membrane by xdeupi on 2006-01-27 12:40:48 as ** along with 4 people and 1 group viktor21614 thaliana Odi sebk LabCompMed
  • Atomic-level characterization of disordered protein ensembles
    Current Opinion in Structural Biology, Vol. 17, No. 1. (February 2007), pp. 3-14.
    by Tanja Mittag, Julie D Forman-Kay
    posted to crystallography cterm disorder folding icl3 modeling nmr structure by xdeupi on 2007-03-27 16:17:12 as ** along with 4 people and 1 group allmensch apaydin cactus biehl LabCompMed
  • Can Conformational Change Be Described by Only a Few Normal Modes?
    Biophys. J., Vol. 90, No. 5. (1 March 2006), pp. 1583-1593.
    by Paula Petrone, Vijay S Pande
    posted to activation dynamics folding modeling by xdeupi on 2006-02-10 09:48:29 as ***** along with 10 people and 7 groups BragilMassoud barry dimka aqeel shuns yongzhao choonpeng joergkurtwegner daevans LamBras structural_bioinformatics Bioinformatics TSRI_MGL Molecular-Modelling Drug-Design Cheminformatics LabCompMed
  • Folding of helical membrane proteins: the role of polar, GxxxG-like and proline motifs.
    Curr Opin Struct Biol, Vol. 14, No. 4. (August 2004), pp. 465-479.
    by A Senes, DE Engel, WF DeGrado
    posted to folding gly membrane pro-kink sequence ser structure transmembrane by xdeupi on 2006-05-22 10:55:10 as **** along with 1 person and 1 group thaliana LabCompMed
  • Helix-packing motifs in membrane proteins.
    Proc Natl Acad Sci U S A (5 September 2006)
    by R F S F Walters, W F F Degrado
    posted to folding helix membrane modeling sequence structure transmembrane by xdeupi on 2006-09-13 10:25:08 as **** along with 4 people and 1 group thaliana dgront sebk chgjb LabCompMed
  • The Calpha ---H...O hydrogen bond: a determinant of stability and specificity in transmembrane helix interactions.
    Proc Natl Acad Sci U S A, Vol. 98, No. 16. (31 July 2001), pp. 9056-9061.
    by A Senes, I Ubarretxena-Belandia, DM Engelman
    posted to folding gly hbond membrane transmembrane by xdeupi on 2006-05-22 10:17:00 as ** along with 1 person and 1 group thaliana LabCompMed
  • Statistical analysis of amino acid patterns in transmembrane helices: the GxxxG motif occurs frequently and in association with beta-branched residues at neighboring positions.
    J Mol Biol, Vol. 296, No. 3. (25 February 2000), pp. 921-936.
    by A Senes, M Gerstein, DM Engelman
    posted to dimer folding gly helix membrane transmembrane by xdeupi on 2006-05-22 10:15:33 as read along with 1 group LabCompMed
  • Stable Interactions Between the Transmembrane Domains of the Adenosine A2A Receptor.
    Protein science : a publication of the Protein Society (23 April 2008)
    by Damien Thevenin, Tzvetana Lazarova
    posted to transmembrane structure gpcr folding by xdeupi on 2008-04-28 11:00:29 as ** along with 1 person IrinaMoreira
  • Comparison of stability predictions and simulated unfolding of rhodopsin structures.
    Photochem Photobiol, Vol. 83, No. 2. (r 2007), pp. 351-363.
    by O Tastan, E Yu, M Ganapathiraju, A Aref, AJ Rader, J Klein-Seetharaman
    posted to folding helix membrane_proteins mutation rhodopsin structure transmembrane by xdeupi on 2007-06-25 10:08:49 as ** along with 1 group LabCompMed
  • Structural Search and Retrieval using a Tableau Representation of Protein Folding Patterns.
    Bioinformatics (5 January 2008)
    by Arun S S Konagurthu, Peter J J Stuckey, Arthur M M Lesk
    posted to bologna08 folding structure by winterschlaefer on 2008-02-18 10:05:12 as **
  • Energetics of membrane protein folding and stability
    Archives of Biochemistry and Biophysics, Vol. 453, No. 1. (1 September 2006), pp. 30-51.
    by Conceicao A Minetti, David P Remeta
    posted to membrane_protein folding by viktor21614 on 2008-07-22 16:09:19 as ** along with 1 person Odi
  • Statistical mechanics of simple models of protein folding and design.
    Biophysical journal, Vol. 73, No. 6. (December 1997), pp. 3192-3210.
    by VS Pande, AY Grosberg, T Tanaka
    posted to protein folding by viktor21614 on 2008-07-22 16:00:32 as ** along with 1 person rph
  • Refolding of Escherichia coli outer membrane protein F in detergent creates LPS-free trimers and asymmetric dimers.
    Biochem J, Vol. 392, No. Pt 2. (1 December 2005), pp. 375-381.
    by V Visudtiphole, MB Thomas, DA Chalton, JH Lakey
    posted to membrane_protein folding ecoli by viktor21614 on 2008-07-22 15:53:58 as ** along with 1 person Odi
  • Membrane protein folding on the example of outer membrane protein A of Escherichia coli.
    Cell Mol Life Sci, Vol. 60, No. 8. (August 2003), pp. 1547-1558.
    by JH Kleinschmidt
    posted to membrane_protein folding by viktor21614 on 2008-07-22 15:51:03 as ** along with 1 person Odi
  • Outer membrane protein A of E. coli folds into detergent micelles, but not in the presence of monomeric detergent.
    Protein Sci, Vol. 8, No. 10. (October 1999), pp. 2065-2071.
    by JH Kleinschmidt, MC Wiener, LK Tamm
    posted to membrane_protein folding detergent by viktor21614 on 2008-07-22 15:39:38 as ** along with 1 person Odi
  • Reversible folding of cysteine-rich metallothionein by an overcritical reaction path
    Biochemical and Biophysical Research Communications, Vol. 306, No. 1. (20 June 2003), pp. 59-63.
    by Yi-Liang Liu, Hui-Ting Lee, Chia-Ching Chang, Lou-Sing Kan
    posted to metallothionein folding by ts3435 on 2008-06-03 13:17:58 as ***
  • Persistence of Native-Like Topology in a Denatured Protein in 8 M Urea
    Science, Vol. 293, No. 5529. (20 July 2001), pp. 487-489.
    by David Shortle, Michael S Ackerman
    posted to folding unfolded_state by thamelry on 2006-02-06 15:51:56 as ***** along with 1 person allmensch
  • Transition states for protein folding have native topologies despite high structural variability.
    Nat Struct Mol Biol, Vol. 11, No. 5. (May 2004), pp. 443-449.
    by K Lindorff-Larsen, M Vendruscolo, E Paci, CM Dobson
    posted to folding nmr prediction protein by thamelry on 2005-11-16 15:15:52 as read along with 1 person allmensch
  • A backbone-based theory of protein folding.
    Proc Natl Acad Sci U S A (30 October 2006)
    by George D D Rose, Patrick J J Fleming, Jayanth R R Banavar, Amos Maritan
    posted to folding by thaliana on 2007-04-19 16:16:48 as read along with 3 people marck j3xucite choonpeng
  • A Continuum Method for Determining Membrane Protein Insertion Energies and the Problem of Charged Residues
    J. Gen. Physiol. (12 May 2008), jgp.200809959.
    by Seungho Choe, Karen A Hecht, Michael Grabe
    posted to membrane-protein folding by superpyrin on 2008-05-26 11:57:24 as ** along with 1 person and 1 group sobolevnrm baker-group
  • The protein folding 'speed limit'.
    Curr Opin Struct Biol, Vol. 14, No. 1. (February 2004), pp. 76-88.
    by J Kubelka, J Hofrichter, WA Eaton
    posted to folding by superpyrin on 2008-03-17 11:33:31 as ** along with 3 people fjc1 choonpeng yalexeev
  • Method To Assess Packing Quality of Transmembrane alpha-Helices in Proteins. 2. Validation by "Correct vs Misleading" Test
    J. Chem. Inf. Model., Vol. 47, No. 3. (29 May 2007), pp. 1163-1170.
    by AO Chugunov, VN Novoseletsky, DE Nolde, AS Arseniev, RG Efremov
    posted to folding gpcr by superpyrin on 2008-04-16 12:31:42 as **
  • Method To Assess Packing Quality of Transmembrane alpha-Helices in Proteins. 1. Parametrization Using Structural Data.
    J Chem Inf Model (20 March 2007)
    by Anton O Chugunov, Valery N Novoseletsky, Dmitry E Nolde, Alexander S Arseniev, Roman G Efremov
    posted to folding gpcr by superpyrin on 2008-04-16 12:25:12 as ** along with 1 person and 1 group xdeupi LabCompMed
  • Mfold web server for nucleic acid folding and hybridization prediction
    Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3406-3415.
    by M Zuker
    posted to dna folding kinetics by stsaft on 2006-02-28 21:03:43 as ** along with 6 people and 2 groups davidng dayjm balajis dquest cdawson vwchan beta GIG
  • Rational engineering of enzyme stability.
    J Biotechnol, Vol. 113, No. 1-3. (30 September 2004), pp. 105-120.
    by VG Eijsink, A Bjørk, S Gåseidnes, R Sirevåg, B Synstad, B van den Burg, G Vriend
    posted to enzyme folding protein proteolysis stability by steinia on 2005-03-12 15:54:20 as **** along with 1 person sgaseid
  • RNAsoft: A suite of RNA secondary structure prediction and design software tools.
    Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3416-3422.
    by M Andronescu, R Aguirre-Hernández, A Condon, HH Hoos
    posted to folding rna by stajich on 2008-02-26 08:40:33 as ** along with 6 people and 4 groups marcius eckart_bindewald stsaft Hosna cthachuk mgaldzic BioinfoCIPF SGU-CIPF CHIP Berkeley Mycology
  • A max-margin model for efficient simultaneous alignment and folding of RNA sequences.
    Bioinformatics (Oxford, England), Vol. 24, No. 13. (1 July 2008)
    by CB Do, CS Foo, S Batzoglou
    posted to rna methods folding bioinformatics alignment by stajich on 2008-07-07 03:32:02 as ** along with 1 person and 1 group bootsy Berkeley Mycology
  • The folding energy landscape of apoflavodoxin is rugged: Hydrogen exchange reveals nonproductive misfolded intermediates
    PNAS, Vol. 103, No. 11. (14 March 2006), pp. 4095-4100.
    by Yves J Bollen, Monique B Kamphuis, Carlo P van Mierlo
    posted to energy_landscape folding by sotaro on 2006-03-23 11:32:46 as **
  • Identification of the minimal protein-folding nucleus through loop-entropy perturbations
    PNAS, Vol. 103, No. 11. (14 March 2006), pp. 4083-4088.
    by Magnus O Lindberg, Ellinor Haglund, Isaac A Hubner, Eugene I Shakhnovich, Mikael Oliveberg
    posted to folding loop-entropy by sotaro on 2006-03-23 11:29:19 as **
  • Multistate Folding of the Villin Headpiece Domain
    Journal of Molecular Biology, Vol. 355, No. 5. (3 February 2006), pp. 1066-1077.
    by Yuefeng Tang, Michael J Grey, James Mcknight, Palmer, Daniel P Raleigh
    posted to folding villin_headpiece by sotaro on 2006-03-03 03:35:16 as **
  • Shaping up the protein folding funnel by local interaction: Lesson from a structure prediction study
    PNAS, Vol. 103, No. 9. (28 February 2006), pp. 3141-3146.
    by George Chikenji, Yoshimi Fujitsuka, Shoji Takada
    posted to folding by sotaro on 2006-03-13 06:55:05 as *** along with 4 people eckart_bindewald wouterboomsma rsantana saunders
  • Evolutionary Computer Programming of Protein Folding and Structure Predictions
    Journal of Theoretical Biology, Vol. 229, No. 1. (7 July 2004), pp. 13-18.
    by Bengt Nolting, Dennis Julich, Winfried Vonau, Karl Andert
    posted to folding protein simulation by soremo on 2005-11-02 13:26:09 as read
  • Insertion of an arginine residue into the transmembrane segments corrects protein misfolding.
    J Biol Chem, Vol. 281, No. 40. (6 October 2006), pp. 29436-29440.
    by TW Loo, MC Bartlett, DM Clarke
    posted to abc arganine folding by softsimu on 2008-01-21 03:52:24 as ** along with 1 person happy_manatee
  • Minimizing frustration by folding in an aqueous environment
    Archives of Biochemistry and Biophysics, Vol. 469, No. 1. (1 January 2008), pp. 118-131.
    by Carla Mattos, Clay A Clark
    posted to folding solvation water by softsimu on 2008-04-03 22:12:20 as **
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