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pdelosri's library [93 articles]

Recent papers added to pdelosri's library.
  • A random graph model for massive graphs
    (2000), pp. 171-180.
    by William Aiello, Fan Chung, Linyuan Lu
    posted to copying networks by pdelosri on 2008-01-29 15:44:23 as **
  • Stochastic Processes in Physics and Chemistry, Third Edition (North-Holland Personal Library)
    (26 April 2007)
    by NG Van Kampen
    posted to stochastic-processes by pdelosri on 2007-03-18 18:03:52 as ** along with 2 people and 1 group jjray kkims EPFL_SB_ITP_LBS
  • Molecular dynamics studies on HIV-1 protease: Drug resistance and folding pathways
    Proteins: Structure, Function, and Genetics, Vol. 43, No. 4. (2001), pp. 365-372.
    by Fabio Cecconi, Cristian Micheletti, Paolo Carloni, Amos Maritan
    posted to go-models hiv-protease molecular-dynamics by pdelosri on 2007-03-17 13:59:31 as ** along with 1 group EPFL_SB_ITP_LBS
  • Resolution limit in community detection
    PNAS, Vol. 104, No. 1. (2 January 2007), pp. 36-41.
    by Santo Fortunato, Marc Barthelemy
    posted to networks modularity clustering by pdelosri on 2007-02-04 14:45:07 as ** along with 5 people and 3 groups kubyaddi lfriedl yas muraken iris_2001 kdl T_lab EPFL_SB_ITP_LBS
  • Synchronization reveals topological scales in complex networks.
    Phys Rev Lett, Vol. 96, No. 11. (24 March 2006)
    by A Arenas, A Díaz-Guilera, CJ Pérez-Vicente
    posted to synchronization networks clustering by pdelosri on 2007-02-03 15:59:41 as ** along with 1 group EPFL_SB_ITP_LBS
  • Molecular chaperones Hsp90 and Hsp70 deliver preproteins to the mitochondrial import receptor Tom70.
    Cell, Vol. 112, No. 1. (10 January 2003), pp. 41-50.
    by JC Young, NJ Hoogenraad, FU Hartl
    posted to tom70 hsp70 by pdelosri on 2007-01-31 21:08:27 as ** along with 1 group EPFL_SB_ITP_LBS
  • A new connection: chaperones meet a mitochondrial receptor.
    Mol Cell, Vol. 11, No. 1. (January 2003), pp. 1-3.
    by W Voos
    posted to tom70 hsp70 by pdelosri on 2007-01-31 21:00:07 as ** along with 1 group EPFL_SB_ITP_LBS
  • More than folding: localized functions of cytosolic chaperones.
    Trends Biochem Sci, Vol. 28, No. 10. (October 2003), pp. 541-547.
    by JC Young, JM Barral, F Ulrich Hartl
    posted to tom70 hsp70 by pdelosri on 2007-01-31 20:58:31 as ** along with 1 group EPFL_SB_ITP_LBS
  • Pea seed mitochondria are endowed with a remarkable tolerance to extreme physiological temperatures.
    Plant Physiol, Vol. 140, No. 1. (January 2006), pp. 326-335.
    by I Stupnikova, A Benamar, D Tolleter, J Grelet, G Borovskii, AJ Dorne, D Macherel
    posted to lea by pdelosri on 2007-01-28 15:08:17 as ** along with 1 group EPFL_SB_ITP_LBS
  • ATP-dependent proteases of bacteria: recognition logic and operating principles.
    Trends Biochem Sci, Vol. 31, No. 12. (December 2006), pp. 647-653.
    by TA Baker, RT Sauer
    posted to unfolding ratchet protease power-stroke by pdelosri on 2007-01-28 14:37:59 as ** along with 1 group EPFL_SB_ITP_LBS
  • Balls and Chains--A Mesoscopic Approach to Tethered Protein Domains
    Biophys. J., Vol. 91, No. 7. (1 October 2006), pp. 2383-2392.
    by Bernhard Windisch, Dennis Bray, Thomas Duke
    posted to entropic-pulling by pdelosri on 2007-01-23 00:04:38 as ** along with 2 people and 1 group kupopo ssfeldman EPFL_SB_ITP_LBS
  • Mutations in the substrate binding domain of the Escherichia coli 70 kda molecular chaperone, DnaK, which alter substrate affinity or interdomain coupling
    Journal of Molecular Biology, Vol. 286, No. 3. (26 February 1999), pp. 915-932.
    by Diana L Montgomery, Richard I Morimoto, Lila M Gierasch
    posted to dnak hsp70 substrate-affinity by pdelosri on 2007-01-02 19:58:37 as ** along with 1 group EPFL_SB_ITP_LBS
  • Conformational properties of bacterial DnaK and yeast mitochondrial Hsp70. Role of the divergent C-terminal alpha-helical subdomain
    FEBS Journal, Vol. 272, No. 12. (2005), pp. 3184-3196.
    by Fernando Moro, Vanesa Fernandez-Saiz, Olga Slutsky, Abdussalam Azem, Arturo Muga
    posted to dnak hsp70 by pdelosri on 2007-01-01 13:03:34 as ** along with 1 group EPFL_SB_ITP_LBS
  • The protein import motor of mitochondria: a targeted molecular ratchet driving unfolding and translocation.
    EMBO J, Vol. 21, No. 14. (15 July 2002), pp. 3659-3671.
    by K Okamoto, A Brinker, SA Paschen, I Moarefi, M Hayer-Hartl, W Neupert, M Brunner
    posted to brownian-ratchet hsp70 unfolding by pdelosri on 2006-12-31 14:29:59 as ** along with 1 group EPFL_SB_ITP_LBS
  • Mitochondrial import driving forces: enhanced trapping by matrix Hsp70 stimulates translocation and reduces the membrane potential dependence of loosely folded preproteins.
    Mol Cell Biol, Vol. 21, No. 20. (October 2001), pp. 7097-7104.
    by A Geissler, J Rassow, N Pfanner, W Voos
    posted to hsp70 trapping unfolding by pdelosri on 2006-12-31 14:27:50 as ** along with 1 group EPFL_SB_ITP_LBS
  • Effect of protein structure on mitochondrial import
    PNAS, Vol. 102, No. 43. (25 October 2005), pp. 15435-15440.
    by Alexander J Wilcox, Jason Choy, Carlos Bustamante, Andreas Matouschek
    posted to hsp70 import mitochondria structure unfolding by pdelosri on 2006-12-31 13:59:13 as ** along with 2 people and 1 group ruudvanleeuwen choonpeng EPFL_SB_ITP_LBS
  • Fluorescence-mediated analysis of mitochondrial preprotein import in vitro.
    Anal Biochem, Vol. 355, No. 1. (1 August 2006), pp. 81-89.
    by M Krayl, B Guiard, K Paal, W Voos
    posted to fluorescence hsp70 import by pdelosri on 2006-12-31 13:58:41 as ** along with 1 group EPFL_SB_ITP_LBS
  • Active unfolding of precursor proteins during mitochondrial protein import.
    EMBO J, Vol. 16, No. 22. (17 November 1997), pp. 6727-6736.
    by A Matouschek, A Azem, K Ratliff, BS Glick, K Schmid, G Schatz
    posted to hsp70 unfolding by pdelosri on 2006-12-31 13:32:09 as ** along with 1 group EPFL_SB_ITP_LBS
  • Can Hsp70 proteins act as force-generating motors?
    Cell, Vol. 80, No. 1. (13 January 1995), pp. 11-14.
    by BS Glick
    posted to hsp70 power-stroke by pdelosri on 2006-12-31 12:46:25 as ** along with 1 group EPFL_SB_ITP_LBS
  • Unfolding of preproteins upon import into mitochondria.
    EMBO J, Vol. 17, No. 22. (16 November 1998), pp. 6497-6507.
    by B Gaume, C Klaus, C Ungermann, B Guiard, W Neupert, M Brunner
    posted to hsp70 unfolding by pdelosri on 2006-12-30 19:20:40 as ** along with 1 group EPFL_SB_ITP_LBS
  • The protein import motor of mitochondria: unfolding and trapping of preproteins are distinct and separable functions of matrix Hsp70.
    Cell, Vol. 97, No. 5. (28 May 1999), pp. 565-574.
    by C Voisine, EA Craig, N Zufall, O von Ahsen, N Pfanner, W Voos
    posted to hsp70 translocation trapping unfolding by pdelosri on 2006-12-30 19:09:23 as ** along with 1 group EPFL_SB_ITP_LBS
  • The mitochondrial Hsp70-dependent import system actively unfolds preproteins and shortens the lag phase of translocation.
    EMBO J, Vol. 20, No. 5. (1 March 2001), pp. 941-950.
    by JH Lim, F Martin, B Guiard, N Pfanner, W Voos
    posted to hsp70 translocation by pdelosri on 2006-12-30 19:03:07 as ** along with 1 group EPFL_SB_ITP_LBS
  • Polymer Translocation through a Pore in a Membrane.
    PHYSICAL REVIEW LETTERS, Vol. 77, No. 4. (22 July 1996), pp. 783-786.
    by W Sung, PJ Park
    posted to translocation by pdelosri on 2006-12-30 18:37:02 as ** along with 1 group EPFL_SB_ITP_LBS
  • Speeding molecular recognition by using the folding funnel: the fly-casting mechanism.
    Proc Natl Acad Sci U S A, Vol. 97, No. 16. (1 August 2000), pp. 8868-8873.
    by BA Shoemaker, JJ Portman, PG Wolynes
    posted to binding fly-casting by pdelosri on 2006-12-14 15:13:42 as ** along with 2 people and 1 group cactus allmensch EPFL_SB_ITP_LBS
  • Protein topology determines binding mechanism.
    Proc Natl Acad Sci U S A, Vol. 101, No. 2. (13 January 2004), pp. 511-516.
    by Y Levy, PG Wolynes, JN Onuchic
    posted to binding fly-casting by pdelosri on 2006-12-14 15:06:28 as ** along with 1 person and 1 group cactus EPFL_SB_ITP_LBS
  • Evaluation of clustering algorithms for protein-protein interaction networks
    BMC Bioinformatics, Vol. 7 (06 November 2006), 488.
    by Sylvain Brohee, Jacques van Helden
    posted to clustering protein-interaction-networks by pdelosri on 2006-11-30 13:08:00 as ** along with 15 people and 1 group ethkim cerca AbnerCYH Borelli carlk jfr chad_davis balajis nirfriedman dquest grahamc cjeans hpaces Pao-Yang oktie EPFL_SB_ITP_LBS
  • FoldIndex: a simple tool to predict whether a given protein sequence is intrinsically unfolded.
    Bioinformatics, Vol. 21, No. 16. (15 August 2005), pp. 3435-3438.
    by J Prilusky, CE Felder, T Zeev-Ben-Mordehai, EH Rydberg, O Man, JS Beckmann, I Silman, JL Sussman
    posted to bioinformatics natively-unfolded by pdelosri on 2006-11-30 11:32:17 as ** along with 2 people and 1 group chad_davis nm EPFL_SB_ITP_LBS
  • Molecular structure of amyloid fibrils: insights from solid-state NMR.
    Q Rev Biophys, Vol. 39, No. 1. (February 2006), pp. 1-55.
    by R Tycko
    posted to amyloid by pdelosri on 2006-11-28 08:07:49 as ** along with 1 group EPFL_SB_ITP_LBS
  • Two-dimensional experimental simulation of polymers in annealed disordered media
    Physical Review E, Vol. 57, No. 3. (1998), pp. 3656-3659.
    by Ippolito, D Bideau, A Hansen
    posted to disorder saw by pdelosri on 2006-11-23 15:23:30 as ** along with 1 group EPFL_SB_ITP_LBS
  • Exact enumeration of self-avoiding walks on lattices with random site energies.
    Physical Review E, Vol. 47, No. 1. (1993), pp. 262-266.
    by II Smailer, J Machta, S Redner
    posted to disorder saw by pdelosri on 2006-11-23 14:52:00 as ** along with 1 group EPFL_SB_ITP_LBS
  • Universality classes for self-avoiding walks in a strongly disordered system.
    Phys Rev E Stat Nonlin Soft Matter Phys, Vol. 65, No. 5 Pt 2. (May 2002)
    by LA Braunstein, SV Buldyrev, S Havlin, HE Stanley
    posted to disorder saw by pdelosri on 2006-11-23 14:41:35 as ** along with 1 person and 1 group Scis0000002 EPFL_SB_ITP_LBS
  • Kinetics of sickle hemoglobin polymerization. II. A double nucleation mechanism.
    J Mol Biol, Vol. 183, No. 4. (25 June 1985), pp. 611-631.
    by FA Ferrone, J Hofrichter, WA Eaton
    posted to nucleation protein-aggregation by pdelosri on 2006-11-21 14:40:28 as ** along with 1 group EPFL_SB_ITP_LBS
  • Huntington's disease age-of-onset linked to polyglutamine aggregation nucleation.
    Proc Natl Acad Sci U S A, Vol. 99, No. 18. (3 September 2002), pp. 11884-11889.
    by S Chen, FA Ferrone, R Wetzel
    posted to agggregation nucleus polyq by pdelosri on 2006-11-21 11:35:46 as ** along with 1 group EPFL_SB_ITP_LBS
  • Finding instabilities in the community structure of complex networks.
    Physical Review E, Vol. 72, No. 5 Pt 2. (November 2005), 056135.
    by D Gfeller, JC Chappelier, De Los
    posted to clustering communities instabilities networks by pdelosri on 2006-11-20 23:20:59 as ** along with 1 group EPFL_SB_ITP_LBS
  • Physical realizability of small-world networks.
    Phys Rev E, Vol. 73, No. 2 Pt 2. (February 2006), 026114.
    by T Petermann, De Los
    posted to networks small-world by pdelosri on 2006-11-20 23:19:25 as ** along with 1 group EPFL_SB_ITP_LBS
  • Multistep mechanism of substrate binding determines chaperone activity of Hsp70.
    Nat Struct Biol, Vol. 7, No. 7. (July 2000), pp. 586-593.
    by MP Mayer, H Schröder, S Rüdiger, K Paal, T Laufen, B Bukau
    posted to dnak hsp70 substrate-binding by pdelosri on 2006-11-19 14:23:04 as ** along with 1 group EPFL_SB_ITP_LBS
  • Molecular basis for interactions of the DnaK chaperone with substrates.
    Biol Chem, Vol. 381, No. 9-10. (t 2000), pp. 877-885.
    by MP Mayer, S Rüdiger, B Bukau
    posted to dnak hsp70 by pdelosri on 2006-11-19 14:16:56 as ** along with 1 group EPFL_SB_ITP_LBS
  • Interaction of Hsp70 chaperones with substrates.
    Nat Struct Biol, Vol. 4, No. 5. (May 1997), pp. 342-349.
    by S Rüdiger, A Buchberger, B Bukau
    posted to hsp70 substrates by pdelosri on 2006-11-19 14:00:11 as ** along with 1 group EPFL_SB_ITP_LBS
  • Substrate specificity of the DnaK chaperone determined by screening cellulose-bound peptide libraries.
    EMBO J, Vol. 16, No. 7. (1 April 1997), pp. 1501-1507.
    by S Rüdiger, L Germeroth, J Schneider-Mergener, B Bukau
    posted to affinity dnak hsp70 by pdelosri on 2006-11-19 13:58:21 as ** along with 1 group EPFL_SB_ITP_LBS
  • A closed binding pocket and global destabilization modify the binding properties of an alternatively spliced form of the second PDZ domain of PTP-BL.
    Structure, Vol. 12, No. 1. (January 2004), pp. 11-20.
    by T Walma, J Aelen, SB Nabuurs, M Oostendorp, L van den Berk, W Hendriks, GW Vuister
    posted to pdz by pdelosri on 2006-11-13 18:19:41 as ** along with 1 group EPFL_SB_ITP_LBS
  • Unexpected modes of PDZ domain scaffolding revealed by structure of nNOS-syntrophin complex.
    Science, Vol. 284, No. 5415. (30 April 1999), pp. 812-815.
    by BJ Hillier, KS Christopherson, KE Prehoda, DS Bredt, WA Lim
    posted to pdz by pdelosri on 2006-11-13 10:13:12 as ** along with 1 group EPFL_SB_ITP_LBS
  • Functional Dynamics of PDZ Binding Domains: A Normal-Mode Analysis
    Biophys. J., Vol. 89, No. 1. (1 July 2005), pp. 14-21.
    by De Los, Fabio Cecconi, Anna Pretre, Giovanni Dietler, Olivier Michielin, Francesco Piazza, Brice Juanico
    posted to normal-modes pdz by pdelosri on 2006-11-13 10:09:49 as ** along with 1 person and 1 group SMC EPFL_SB_ITP_LBS
  • Ligand-dependent dynamics and intramolecular signaling in a PDZ domain.
    J Mol Biol, Vol. 335, No. 4. (23 January 2004), pp. 1105-1115.
    by EJ Fuentes, CJ Der, AL Lee
    posted to pdz by pdelosri on 2006-11-13 10:06:45 as ** along with 2 people and 1 group lna choonpeng EPFL_SB_ITP_LBS
  • PDZ domains: More than just a glue.
    Proc Natl Acad Sci U S A, Vol. 98, No. 3. (30 January 2001), pp. 787-789.
    by I Bezprozvanny, A Maximov
    posted to pdz by pdelosri on 2006-11-13 08:58:43 as ** along with 1 group EPFL_SB_ITP_LBS
  • Classification of PDZ domains.
    FEBS Lett, Vol. 509, No. 3. (14 December 2001), pp. 457-462.
    by I Bezprozvanny, A Maximov
    posted to pdz by pdelosri on 2006-11-13 08:58:27 as ** along with 1 group EPFL_SB_ITP_LBS
  • Cloning and characterization of MUPP1, a novel PDZ domain protein.
    FEBS Lett, Vol. 424, No. 1-2. (6 March 1998), pp. 63-68.
    by C Ullmer, K Schmuck, A Figge, H Lübbert
    posted to pdz by pdelosri on 2006-11-12 22:46:24 as ** along with 1 group EPFL_SB_ITP_LBS
  • ZASP: a new Z-band alternatively spliced PDZ-motif protein.
    J Cell Biol, Vol. 146, No. 2. (26 July 1999), pp. 465-475.
    by G Faulkner, A Pallavicini, E Formentin, A Comelli, C Ievolella, S Trevisan, G Bortoletto, P Scannapieco, M Salamon, V Mouly, G Valle, G Lanfranchi
    posted to pdz by pdelosri on 2006-11-12 22:37:37 as ** along with 1 group EPFL_SB_ITP_LBS
  • PDZ domains: structural modules for protein complex assembly.
    J Biol Chem, Vol. 277, No. 8. (22 February 2002), pp. 5699-5702.
    by AY Hung, M Sheng
    posted to pdz by pdelosri on 2006-11-12 22:33:25 as ** along with 1 person and 1 group tkershaw EPFL_SB_ITP_LBS
  • Signaling through scaffold, anchoring, and adaptor proteins.
    Science, Vol. 278, No. 5346. (19 December 1997), pp. 2075-2080.
    by T Pawson, JD Scott
    posted to pdz signalling by pdelosri on 2006-11-12 19:19:05 as ** along with 1 person and 1 group Evangelia EPFL_SB_ITP_LBS
  • Volume-exclusion effects in tethered-particle experiments: bead size matters.
    Phys Rev Lett, Vol. 96, No. 8. (3 March 2006)
    by DE Segall, PC Nelson, R Phillips
    posted to entropic-pulling by pdelosri on 2006-11-11 18:53:19 as ** along with 1 group EPFL_SB_ITP_LBS
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