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allmensch's library [354 articles]

Recent papers added to allmensch's library.
  • Site-specific relaxation kinetics of a tryptophan zipper hairpin peptide using temperature-jump IR spectroscopy and isotopic labeling.
    Journal of the American Chemical Society, Vol. 130, No. 10. (12 March 2008), pp. 2984-2992.
    by K Hauser, C Krejtschi, R Huang, L Wu, TA Keiderling
    posted to trpzip by allmensch on 2008-06-30 10:02:41 as **
  • Announcing the worldwide Protein Data Bank
    Nat Struct Mol Biol, Vol. 10, No. 12. (December 2003), pp. 980-980.
    by Helen Berman, Kim Henrick, Haruki Nakamura
    posted to usa pdb by allmensch on 2008-06-24 16:24:55 as ** along with 2 people reyez massivemayhem
  • Free energy landscape of A-DNA to B-DNA conversion in aqueous solution.
    Journal of the American Chemical Society, Vol. 127, No. 18. (11 May 2005), pp. 6866-6876.
    by NK Banavali, B Roux
    posted to usa pmf by allmensch on 2008-06-24 15:06:52 as **
  • The N-terminal end of the catalytic domain of SRC kinase hck is a conformational switch implicated in long-range allosteric regulation.
    Structure (Camb), Vol. 13, No. 11. (November 2005), pp. 1715-1723.
    by NK Banavali, B Roux
    posted to usa pmf by allmensch on 2008-06-24 15:04:42 as ** along with 1 person kentsis
  • THE weighted histogram analysis method for free-energy calculations on biomolecules. I. The method
    Journal of Computational Chemistry, Vol. 13, No. 8. (1992), pp. 1011-1021.
    by Shankar Kumar, John M Rosenberg, Djamal Bouzida, Robert H Swendsen, Peter A Kollman
    posted to wham usa fluorobases by allmensch on 2008-06-23 14:42:40 as ** along with 4 people bransfop dgront sikorski jwagoner
  • Efficient Monte Carlo methods for the computer simulation of biological molecules.
    Physical review. A, Vol. 45, No. 12. (15 June 1992), pp. 8894-8901.
    by D Bouzida, S Kumar, RH Swendsen
    posted to wham usa fluorobases by allmensch on 2008-06-23 14:42:02 as **
  • How Ras-related proteins talk to their effectors.
    Trends Biochem Sci, Vol. 21, No. 12. (December 1996), pp. 488-491.
    by A Wittinghofer, N Nassar
    posted to usa ras by allmensch on 2008-06-17 13:43:48 as ** along with 1 person laurabailey
  • Nonphysical sampling distributions in Monte Carlo free-energy estimation - Umbrella sampling
    Journal of Computational Physics, Vol. 23 (February 1977), pp. 187-199.
    by GM Torrie, JP Valleau
    posted to usa umbrellasampling fluorobases by allmensch on 2008-06-15 16:15:52 as **
  • Protein conformational transitions coupled to binding in molecular recognition of unstructured proteins: Hierarchy of structural loss from all-atom Monte Carlo simulations of p27Kip1 unfolding-unbinding and structural determinants of the binding mechanism
    Biopolymers, Vol. 75, No. 5. (October 2004), pp. 420-433.
    by GM Verkhivker
    posted to usa by allmensch on 2008-05-26 17:55:47 as **
  • Binding-Induced Folding of a Natively Unstructured Transcription Factor
    PLOS Computational Biology, Vol. 4, No. 4. (April 2008), e1000060.
    by AG Turjanski1, JS Gutkind1, RB Best, G Hummer
    posted to usa by allmensch on 2008-05-26 17:50:59 as **
  • Inherent flexibility and protein function: the open/closed conformational transition of the N-terminal domain of calmodulin
    (5 Nov 2007)
    by Swarnendu Tripathi, John J Portman
    posted to usa by allmensch on 2008-05-26 17:45:43 as **
  • Theory of protein folding.
    Curr Opin Struct Biol, Vol. 14, No. 1. (February 2004), pp. 70-75.
    by JN Onuchic, PG Wolynes
    posted to usa by allmensch on 2008-05-26 17:39:51 as ** along with 3 people dgront choonpeng rabio
  • The interplay between structure and function in intrinsically unstructured proteins.
    FEBS Lett, Vol. 579, No. 15. (13 June 2005), pp. 3346-3354.
    by P Tompa
    posted to usa by allmensch on 2008-05-26 17:39:15 as ** along with 1 person perrywoo
  • Preformed structural elements feature in partner recognition by intrinsically unstructured proteins.
    J Mol Biol, Vol. 338, No. 5. (14 May 2004), pp. 1015-1026.
    by M Fuxreiter, I Simon, P Friedrich, P Tompa
    posted to usa by allmensch on 2008-05-26 17:37:22 as ** along with 1 person chad_davis
  • The physics and bioinformatics of binding and folding-an energy landscape perspective.
    Biopolymers, Vol. 68, No. 3. (March 2003), pp. 333-349.
    by GA Papoian, PG Wolynes
    posted to usa by allmensch on 2008-05-26 17:36:55 as ** along with 1 person GermanErlenkamp
  • How common is the funnel-like energy landscape in protein-protein interactions?
    Protein science : a publication of the Protein Society, Vol. 10, No. 8. (August 2001), pp. 1572-1583.
    by A Tovchigrechko, IA Vakser
    posted to usa by allmensch on 2008-05-26 17:35:49 as **
  • The Many Faces of Protein–Protein Interactions: A Compendium of Interface Geometry
    PLoS Computational Biology, Vol. 2, No. 9. (1 September 2006), e124.
    by Wan K Kim, Andreas Henschel, Christof Winter, Michael Schroeder
    posted to usa by allmensch on 2008-05-26 16:00:11 as ** along with 7 people and 2 groups marck wilbur bicko chad_davis marcius choonpeng Evangelia BioinfoCIPF SGU-CIPF
  • Identification of transient hub proteins and the possible structural basis for their multiple interactions
    Protein Sci, Vol. 17, No. 1. (1 January 2008), pp. 72-78.
    by Miho Higurashi, Takashi Ishida, Kengo Kinoshita
    posted to usa by allmensch on 2008-05-26 15:58:45 as ** along with 4 people marti bicko chad_davis balicea
  • Insights into protein structure and function from disorder-complexity space.
    Proteins (16 October 2006)
    by Edward A A Weathers, Michael E E Paulaitis, Thomas B B Woolf, Jan H H Hoh
    posted to usa by allmensch on 2008-05-26 15:55:50 as ** along with 1 person aalibes
  • A mobile loop order-disorder transition modulates the speed of chaperonin cycling.
    Protein science : a publication of the Protein Society, Vol. 13, No. 8. (August 2004), pp. 2139-2148.
    by F Shewmaker, MJ Kerner, M Hayer-Hartl, G Klein, C Georgopoulos, SJ Landry
    posted to usa by allmensch on 2008-05-26 15:54:05 as **
  • Analysis of ordered and disordered protein complexes reveals structural features discriminating between stable and unstable monomers.
    J Mol Biol, Vol. 341, No. 5. (27 August 2004), pp. 1327-1341.
    by K Gunasekaran, CJ Tsai, R Nussinov
    posted to usa by allmensch on 2008-05-26 15:51:39 as ** along with 2 people marti chad_davis
  • Recent successes of the energy landscape theory of protein folding and function.
    Quarterly reviews of biophysics, Vol. 38, No. 4. (November 2005), pp. 405-410.
    by PG Wolynes
    posted to usa by allmensch on 2008-05-26 15:42:39 as **
  • Mechanism of coupled folding and binding of an intrinsically disordered protein
    Nature (23 May 2007)
    by Kenji Sugase, Jane H Dyson, Peter E Wright
    posted to usa by allmensch on 2008-05-26 15:40:29 as ** along with 3 people hsekiguc amwands cjeans
  • Simulating disorder-order transitions in molecular recognition of unstructured proteins: where folding meets binding.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 9. (29 April 2003), pp. 5148-5153.
    by GM Verkhivker, D Bouzida, DK Gehlhaar, PA Rejto, ST Freer, PW Rose
    posted to usa by allmensch on 2008-05-26 15:38:08 as **
  • 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 usa by allmensch on 2008-05-26 15:33:42 as ** along with 1 person and 1 group pdelosri EPFL_SB_ITP_LBS
  • Refined crystal structure of the triphosphate conformation of H-ras p21 at 1.35 A resolution: implications for the mechanism of GTP hydrolysis.
    EMBO J, Vol. 9, No. 8. (August 1990), pp. 2351-2359.
    by EF Pai, U Krengel, GA Petsko, RS Goody, W Kabsch, A Wittinghofer
    posted to xray usa ras gtpbound by allmensch on 2008-05-23 12:58:07 as ** along with 1 person laurabailey
  • Structural and mechanistic insights into ras association domains of phospholipase C epsilon.
    Molecular cell, Vol. 21, No. 4. (17 February 2006), pp. 495-507.
    by TD Bunney, R Harris, NL Gandarillas, MB Josephs, SM Roe, SC Sorli, HF Paterson, F Rodrigues-Lima, D Esposito, CP Ponting, P Gierschik, LH Pearl, PC Driscoll, M Katan
    posted to xray usa ras complex by allmensch on 2008-05-23 12:55:10 as **
  • Tumour prevention by a single antibody domain targeting the interaction of signal transduction proteins with RAS
    The EMBO Journal, Vol. aop, No. current. (14 June 2007)
    by Tomoyuki Tanaka, Roger L Williams, Terence H Rabbitts
    posted to xray usa ras complex by allmensch on 2008-05-22 12:54:18 as **
  • Structural evidence for feedback activation by Ras.GTP of the Ras-specific nucleotide exchange factor SOS.
    Cell, Vol. 112, No. 5. (7 March 2003), pp. 685-695.
    by SM Margarit, H Sondermann, BE Hall, B Nagar, A Hoelz, M Pirruccello, D Bar-Sagi, J Kuriyan
    posted to xray usa ras complex by allmensch on 2008-05-22 12:47:02 as **
  • The structural basis of the activation of Ras by Sos.
    Nature, Vol. 394, No. 6691. (23 July 1998), pp. 337-343.
    by PA Boriack-Sjodin, SM Margarit, D Bar-Sagi, J Kuriyan
    posted to xray usa ras complex by allmensch on 2008-05-22 10:13:04 as ** along with 1 person barry
  • Crystal structure and functional analysis of Ras binding to its effector phosphoinositide 3-kinase gamma.
    Cell, Vol. 103, No. 6. (8 December 2000), pp. 931-943.
    by ME Pacold, S Suire, O Perisic, S Lara-Gonzalez, CT Davis, EH Walker, PT Hawkins, L Stephens, JF Eccleston, RL Williams
    posted to xray usa ras complex by allmensch on 2008-05-22 09:47:43 as **
  • The Ras-RasGAP complex: structural basis for GTPase activation and its loss in oncogenic Ras mutants.
    Science (New York, N.Y.), Vol. 277, No. 5324. (18 July 1997), pp. 333-338.
    by K Scheffzek, MR Ahmadian, W Kabsch, L Wiesmüller, A Lautwein, F Schmitz, A Wittinghofer
    posted to xray usa ras complex by allmensch on 2008-05-22 09:45:20 as **
  • The Ras-Byr2RBD complex: structural basis for Ras effector recognition in yeast.
    Structure (London, England : 1993), Vol. 9, No. 11. (November 2001), pp. 1043-1050.
    by K Scheffzek, P Grünewald, S Wohlgemuth, W Kabsch, H Tu, M Wigler, A Wittinghofer, C Herrmann
    posted to xray usa ras complex by allmensch on 2008-05-22 09:28:27 as **
  • In vitro inhibition of Ras-Raf association by short peptides.
    Biochemical and biophysical research communications, Vol. 247, No. 1. (9 June 1998), pp. 176-180.
    by D Barnard, H Sun, L Baker, MS Marshall
    posted to usa ras by allmensch on 2008-05-15 11:26:12 as **
  • Identification of the sites of interaction between c-Raf-1 and Ras-GTP.
    Oncogene, Vol. 10, No. 7. (6 April 1995), pp. 1283-1290.
    by D Barnard, B Diaz, L Hettich, E Chuang, XF Zhang, J Avruch, M Marshall
    posted to usa ras by allmensch on 2008-05-15 11:25:00 as **
  • Multiple Ras functions can contribute to mammalian cell transformation.
    Cell, Vol. 80, No. 4. (24 February 1995), pp. 533-541.
    by MA White, C Nicolette, A Minden, A Polverino, L Van Aelst, M Karin, MH Wigler
    posted to usa by allmensch on 2008-05-15 10:20:38 as **
  • Signal-transduction therapy. A novel approach to disease management.
    European journal of biochemistry / FEBS, Vol. 226, No. 1. (15 November 1994), pp. 1-13.
    by A Levitzki
    posted to usa by allmensch on 2008-05-15 10:14:32 as **
  • Targeting signal transduction for disease therapy.
    Current opinion in cell biology, Vol. 8, No. 2. (April 1996), pp. 239-244.
    by A Levitzki
    posted to usa by allmensch on 2008-05-15 10:12:45 as **
  • Ras - A Molecular Switch Involved in Tumor Formation
    Angew. Chem. Int. Ed., Vol. 39, No. 23. (2000), pp. 4192-4214.
    by A Wittinghofer, H Waldmann
    posted to usa ras by allmensch on 2008-05-15 10:07:03 as **
  • Ras regulation of DNA-methylation and cancer.
    Experimental cell research, Vol. 314, No. 6. (1 April 2008), pp. 1193-1201.
    by SK Patra
    posted to usa ras by allmensch on 2008-05-15 09:56:41 as **
  • Rho GTPases in cell biology
    Nature, Vol. 420, No. 6916. (12 December 2002), pp. 629-635.
    by Sandrine Etienne-Manneville, Alan Hall
    posted to usa ras by allmensch on 2008-05-15 09:47:50 as ** along with 2 people tsjipko zebkhan
  • The GTPase superfamily: conserved structure and molecular mechanism.
    Nature, Vol. 349, No. 6305. (10 January 1991), pp. 117-127.
    by HR Bourne, DA Sanders, F McCormick
    posted to usa ras by allmensch on 2008-05-15 09:34:56 as ** along with 2 people laurabailey gloria
  • Strategies to search and design stabilizers of protein-protein interactions: A feasibility study.
    Proteins (28 March 2007)
    by Peter Block, Nils Weskamp, Alexander Wolf, Gerhard Klebe
    posted to usa by allmensch on 2008-05-14 18:05:29 as ** along with 3 people higueruelo bicko willpitt
  • Targeting protein-protein interactions with small molecules: challenges and perspectives for computational binding epitope detection and ligand finding.
    Current medicinal chemistry, Vol. 13, No. 22. (2006), pp. 2607-2625.
    by D González-Ruiz, H Gohlke
    posted to usa by allmensch on 2008-05-14 18:03:02 as **
  • Sulindac sulfide inhibits Ras signaling.
    Oncogene, Vol. 17, No. 14. (8 October 1998), pp. 1769-1776.
    by C Herrmann, C Block, C Geisen, K Haas, C Weber, G Winde, T Möröy, O Müller
    posted to usa by allmensch on 2008-05-14 17:53:18 as **
  • Identification of a Small Molecule Inhibitor of the IL-2/IL-2R Receptor Interaction Which Binds to IL-2
    J. Am. Chem. Soc., Vol. 119, No. 32. (1997), pp. 7589-7590.
    by JW Tilley, L Chen, DC Fry, SD Emerson, GD Powers, D Biondi, T Varnell, R Trilles, R Guthrie, F Mennona, G Kaplan, RA Lemahieu, M Carson, RJ Han, CM Liu, R Palermo, G Ju
    posted to usa by allmensch on 2008-05-14 17:46:55 as **
  • Selective inhibition of Ras interaction with its particular effector by synthetic peptides corresponding to the Ras effector region.
    The Journal of biological chemistry, Vol. 273, No. 17. (24 April 1998), pp. 10210-10215.
    by M Ohnishi, Y Yamawaki-Kataoka, K Kariya, M Tamada, CD Hu, T Kataoka
    posted to usa by allmensch on 2008-05-14 17:37:09 as **
  • Design of inhibitors of Ras--Raf interaction using a computational combinatorial algorithm.
    Protein engineering, Vol. 14, No. 1. (January 2001), pp. 39-45.
    by J Zeng, T Nheu, A Zorzet, B Catimel, E Nice, H Maruta, AW Burgess, HR Treutlein
    posted to usa by allmensch on 2008-05-14 17:36:59 as **
  • Mini-review: computational structure-based design of inhibitors that target protein surfaces.
    Combinatorial chemistry & high throughput screening, Vol. 3, No. 5. (October 2000), pp. 355-362.
    by J Zeng
    posted to usa by allmensch on 2008-05-14 17:36:49 as **
  • A computer screening approach to immunoglobulin superfamily structures and interactions: discovery of small non-peptidic CD4 inhibitors as novel immunotherapeutics.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 94, No. 1. (7 January 1997), pp. 73-78.
    by S Li, J Gao, T Satoh, TM Friedman, AE Edling, U Koch, S Choksi, X Han, R Korngold, Z Huang
    posted to usa by allmensch on 2008-05-14 17:36:03 as **
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