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jwm's library [1455 articles]

最近录入 jwm's 文献库.
  • A Ni-Fe-Cu center in a bifunctional carbon monoxide dehydrogenase/acetyl-CoA synthase.
    Science (New York, N.Y.), Vol. 298, No. 5593. (18 October 2002), pp. 567-572.
    by TI Doukov, TM Iverson, J Seravalli, SW Ragsdale, CL Drennan
    posted to carbon_monoxide_dehydrogenase by jwm on 2008-07-06 18:34:06 as **
  • Access channels and methanol binding site to the CaMn4 cluster in Photosystem II based on solvent accessibility simulations, with implications for substrate water access.
    Biochimica et biophysica acta, Vol. 1777, No. 2. (February 2008), pp. 140-153.
    by FM Ho, S Styring
    posted to psii protein_channels by jwm on 2008-07-06 18:28:13 as **
  • Direct quantification of the four individual S states in Photosystem II using EPR spectroscopy.
    Biochimica et biophysica acta, Vol. 1777, No. 6. (June 2008), pp. 496-503.
    by G Han, FM Ho, KG Havelius, SF Morvaridi, F Mamedov, S Styring
    posted to psii epr by jwm on 2008-07-06 18:27:56 as **
  • Foldamers as versatile frameworks for the design and evolution of function.
    Nat Chem Biol, Vol. 3, No. 5. (May 2007), pp. 252-262.
    by CM Goodman, S Choi, S Shandler, WF DeGrado
    posted to foldamer by jwm on 2008-07-04 16:07:24 as ** along with 2 people apaydin chgjb
  • A field guide to foldamers.
    Chemical reviews, Vol. 101, No. 12. (December 2001), pp. 3893-4012.
    by DJ Hill, MJ Mio, RB Prince, TS Hughes, JS Moore
    posted to foldamer by jwm on 2008-07-04 16:06:44 as **
  • Why protein crystals favour some space-groups over others
    Nat Struct Mol Biol, Vol. 2, No. 12. (December 1995), pp. 1062-1067.
    by Stephanie W Wukovitz, Todd O Yeates
    posted to entropy crystallization by jwm on 2008-07-03 14:14:20 as **
  • Hydrogen ion buffers for biological research.
    Biochemistry, Vol. 5, No. 2. (February 1966), pp. 467-477.
    by NE Good, GD Winget, W Winter, TN Connolly, S Izawa, RM Singh
    posted to buffers by jwm on 2008-07-01 12:35:31 as **
  • Tryptophan-Accelerated Electron Flow Through Proteins
    Science, Vol. 320, No. 5884. (27 June 2008), pp. 1760-1762.
    by Crystal Shih, Anna K Museth, Malin Abrahamsson, Ana M Blanco-Rodriguez, Angel J Di Bilio, Jawahar Sudhamsu, Brian R Crane, Kate L Ronayne, Mike Towrie, Antonin Vlcek, John H Richards, Jay R Winkler, Harry B Gray
    posted to protein_design electron_tunneling azurin by jwm on 2008-06-27 08:20:00 as **
  • Assembly reflects evolution of protein complexes
    Nature (18 June 2008)
    by Emmanuel D Levy, Elisabetta B Erba, Carol V Robinson, Sarah A Teichmann
    posted to protein_oligomeric_state by jwm on 2008-06-26 18:23:39 as ** along with 5 people psique phoenixzxl zwang neils paulschlesinger
  • Theoretical Studies of O−O Bond Formation in Photosystem II
    Inorg. Chem., Vol. 47, No. 6. (17 March 2008), pp. 1779-1786.
    by Per E Siegbahn
    posted to psii dft by jwm on 2008-06-20 15:23:07 as **
  • Rationally designed mutations convert de novo amyloid-like fibrils into monomeric beta-sheet proteins.
    Proceedings of the National Academy of Sciences of the United States of America, Vol. 99, No. 5. (5 March 2002), pp. 2760-2765.
    by W Wang, MH Hecht
    posted to protein_engineering protein_design beta_solenoid beta_helix by jwm on 2008-06-20 13:31:03 as **
  • Natural beta-sheet proteins use negative design to avoid edge-to-edge aggregation.
    Proc Natl Acad Sci U S A, Vol. 99, No. 5. (5 March 2002), pp. 2754-2759.
    by JS Richardson, DC Richardson
    posted to beta_solenoid beta_propeller beta_helix by jwm on 2008-06-20 13:30:10 as ** along with 1 person martainn
  • When protein folding is simplified to protein coiling: the continuum of solenoid protein structures
    Trends in Biochemical Sciences, Vol. 25, No. 10. (1 October 2000), pp. 509-515.
    by Bostjan Kobe, Andrey V Kajava
    posted to beta_solenoid beta_helix by jwm on 2008-06-20 10:10:27 as **
  • Design and synthesis of alpha-helical peptides and mimetics.
    Org Biomol Chem, Vol. 5, No. 22. (21 November 2007), pp. 3577-3585.
    by J Garner, MM Harding
    posted to protein_engineering by jwm on 2008-06-19 17:32:40 as ** along with 1 person higueruelo
  • Two-dimensional surface display of functional groups on a beta-helical antifreeze protein scaffold.
    Protein engineering, design & selection : PEDS, Vol. 21, No. 2. (February 2008), pp. 107-114.
    by M Bar, T Scherf, D Fass
    posted to antifreeze_protein by jwm on 2008-06-19 17:31:20 as **
  • A Ca2+-dependent bacterial antifreeze protein domain has a novel beta-helical ice-binding fold.
    The Biochemical journal, Vol. 411, No. 1. (1 April 2008), pp. 171-180.
    by CP Garnham, JA Gilbert, CP Hartman, RL Campbell, J Laybourn-Parry, PL Davies
    posted to antifreeze_protein by jwm on 2008-06-19 17:27:11 as **
  • Crystal structure of beta-helical antifreeze protein points to a general ice binding model.
    Structure (London, England : 1993), Vol. 10, No. 5. (May 2002), pp. 619-627.
    by EK Leinala, PL Davies, Z Jia
    posted to beta_helix by jwm on 2008-06-17 14:11:12 as **
  • Mass-spectrometry assisted heavy-atom derivative screening of human Fc gamma RIII crystals.
    Acta crystallographica. Section D, Biological crystallography, Vol. 56, No. Pt 2. (February 2000), pp. 161-168.
    by PD Sun, CH Hammer
    posted to mass_spectrometry heavy_atom_derivatization by jwm on 2008-06-15 11:35:40 as **
  • Crystallization of Proliferating Cell Nuclear Antigen (PCNA) from Saccharomyces cerevisiae
    Journal of Molecular Biology, Vol. 241, No. 2. (11 August 1994), pp. 265-268.
    by Talluru S Krishna, David Fenyö, Xiang-Peng Kong, Sonja Gary, Brian T Chait, Peter Burgers, John Kuriyan
    posted to mass_spectrometry by jwm on 2008-06-15 11:34:34 as **
  • The nature of the di-iron site in the bacterioferritin from Desulfovibrio desulfuricans.
    Nature structural biology, Vol. 10, No. 4. (April 2003), pp. 285-290.
    by S Macedo, CV Romão, E Mitchell, PM Matias, MY Liu, AV Xavier, J LeGall, M Teixeira, P Lindley, MA Carrondo
    posted to bacterioferritin by jwm on 2008-06-10 10:06:50 as **
  • Crystallographic analysis of the intact metal centres [3Fe-4S](1+/0) and [4Fe-4S](2+/1+) in a Zn(2+) -containing ferredoxin.
    FEBS letters, Vol. 582, No. 5. (5 March 2008), pp. 763-767.
    by C Frazão, D Aragão, R Coelho, SS Leal, CM Gomes, M Teixeira, MA Carrondo
    posted to iron_sulfur_cluster by jwm on 2008-06-10 10:06:16 as **
  • Synthetic chemistry: Making a natural fuel cell
    Nature, Vol. 433, No. 7026. (10 February 2005), pp. 589-591.
    by Marcetta Y Darensbourg
    posted to protein_design hydrogenase by jwm on 2008-06-06 13:21:08 as **
  • Determination of nonligand amino acids critical to [4Fe-4S]2+/+ assembly in ferredoxin maquettes.
    Biochemistry, Vol. 38, No. 32. (10 August 1999), pp. 10442-10448.
    by SE Mulholland, BR Gibney, F Rabanal, PL Dutton
    posted to protein_engineering iron_sulfur_cluster by jwm on 2008-06-06 13:19:41 as **
  • Rational design of a mononuclear metal site into the archaeal Rieske-type protein scaffold.
    The Journal of biological chemistry, Vol. 280, No. 10. (11 March 2005), pp. 9129-9134.
    by T Iwasaki, A Kounosu, Y Tao, Z Li, JE Shokes, NJ Cosper, T Imai, A Urushiyama, RA Scott
    posted to protein_engineering by jwm on 2008-06-06 13:19:24 as **
  • Synthesis of the H-cluster framework of iron-only hydrogenase
    Nature, Vol. 433, No. 7026. (10 February 2005), pp. 610-613.
    by Cedric Tard, Xiaoming Liu, Saad K Ibrahim, Maurizio Bruschi, Luca D De Gioia, Sian C Davies, Xin Yang, Lai-Sheng Wang, Gary Sawers, Christopher J Pickett
    posted to protein_engineering by jwm on 2008-06-06 13:18:54 as **
  • Evolution of binding sites for zinc and calcium ions playing structural roles
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2007), NA.
    by James W Torrance, Malcolm W Macarthur, Janet M Thornton
    posted to structural_templates structural_bioinformatics by jwm on 2008-06-03 18:03:38 as ** along with 2 people tny grottenolm
  • The Chemistry of Protein Catalysis
    Journal of Molecular Biology, Vol. 372, No. 5. (5 October 2007), pp. 1261-1277.
    by Gemma L Holliday, Daniel E Almonacid, John B Mitchell, Janet M Thornton
    posted to structural_bioinformatics by jwm on 2008-06-03 18:03:01 as ** along with 6 people and 2 groups sim82 barry ucbcjbm cjeans zwang grottenolm structural_bioinformatics Bioinformatics
  • Molecular docking for substrate identification: the short-chain dehydrogenases/reductases.
    J Mol Biol, Vol. 375, No. 3. (18 January 2008), pp. 855-874.
    by AD Favia, I Nobeli, F Glaser, JM Thornton
    posted to structural_bioinformatics by jwm on 2008-06-03 17:57:30 as ** along with 1 person grottenolm
  • The geometry of interactions between catalytic residues and their substrates.
    J Mol Biol, Vol. 369, No. 4. (15 June 2007), pp. 1140-1152.
    by JW Torrance, GL Holliday, JB Mitchell, JM Thornton
    posted to structural_bioinformatics by jwm on 2008-06-03 13:02:47 as ** along with 1 person grottenolm
  • Shape Variation in Protein Binding Pockets and their Ligands.
    J Mol Biol, Vol. 368, No. 1. (20 April 2007), pp. 283-301.
    by A Kahraman, RJ Morris, RA Laskowski, JM Thornton
    posted to structural_bioinformatics ligand_sites by jwm on 2008-06-03 13:02:23 as ** along with 3 people tjimenez martainn grottenolm
  • Towards Fully Automated Structure-based Function Prediction in Structural Genomics: A Case Study
    Journal of Molecular Biology, Vol. 367, No. 5. (13 April 2007), pp. 1511-1522.
    by James D Watson, Steve Sanderson, Alexandra Ezersky, Alexei Savchenko, Aled Edwards, Christine Orengo, Andrzej Joachimiak, Roman A Laskowski, Janet M Thornton
    posted to structural_genomics structural_bioinformatics by jwm on 2008-06-03 13:02:06 as ** along with 4 people and 2 groups ana tjimenez nickolay grottenolm structural_bioinformatics Bioinformatics
  • MACiE (Mechanism, Annotation and Classification in Enzymes): novel tools for searching catalytic mechanisms.
    Nucleic Acids Res, Vol. 35, No. Database issue. (January 2007)
    by GL Holliday, DE Almonacid, GJ Bartlett, NM O'Boyle, JW Torrance, P Murray-Rust, JB Mitchell, JM Thornton
    posted to structural_bioinformatics by jwm on 2008-06-03 13:01:39 as ** along with 2 people dullhunk grottenolm
  • Protein Superfamily Evolution and the Last Universal Common Ancestor (LUCA)
    Journal of Molecular Evolution
    by Juan AG Ranea, Antonio Sillero, Janet M Thornton, Christine A Orengo
    posted to structural_bioinformatics luca by jwm on 2008-06-03 13:01:22 as ** along with 4 people and 2 groups ana barry tny grottenolm structural_bioinformatics Bioinformatics
  • Microeconomic principles explain an optimal genome size in bacteria.
    Trends Genet, Vol. 21, No. 1. (January 2005), pp. 21-25.
    by JA Ranea, A Grant, JM Thornton, CA Orengo
    posted to bioinformatics by jwm on 2008-06-03 13:01:09 as ** along with 1 person and 2 groups ana structural_bioinformatics Bioinformatics
  • Understanding the molecular machinery of genetics through 3D structures.
    Nat Rev Genet (27 December 2007)
    by Roman A A Laskowski, Janet M M Thornton
    posted to structural_bioinformatics by jwm on 2008-06-03 12:59:47 as ** along with 3 people higueruelo sebastien_vigneau grottenolm
  • A practical and robust sequence search strategy for structural genomics target selection.
    Bioinformatics (Oxford, England), Vol. 20, No. 14. (22 September 2004), pp. 2288-2295.
    by JE Bray, RL Marsden, SC Rison, A Savchenko, AM Edwards, JM Thornton, CA Orengo
    posted to structural_genomics structural_bioinformatics by jwm on 2008-06-03 12:58:12 as **
  • Inactive Enzyme-homologues Find New Function in Regulatory Processes
    Journal of Molecular Biology, Vol. 340, No. 3. (9 July 2004), pp. 399-404.
    by Birgit Pils, Jorg Schultz
    posted to structural_bioinformatics by jwm on 2008-06-03 12:48:30 as ** along with 2 people Jporci tny
  • Catalysing new reactions during evolution: economy of residues and mechanism.
    J Mol Biol, Vol. 331, No. 4. (22 August 2003), pp. 829-860.
    by GJ Bartlett, N Borkakoti, JM Thornton
    posted to structural_bioinformatics by jwm on 2008-06-03 12:48:14 as ** along with 2 people gbart nickolay
  • Searching for functional sites in protein structures
    Current Opinion in Chemical Biology, Vol. 8, No. 1. (February 2004), pp. 3-7.
    by Susan Jones, Janet M Thornton
    posted to structural_templates structural_bioinformatics by jwm on 2008-06-03 12:47:20 as ** along with 6 people and 1 group nickolay BragilMassoud LeightonP chrn Einat proteasome structural_bioinformatics
  • Using a library of structural templates to recognise catalytic sites and explore their evolution in homologous families.
    J Mol Biol, Vol. 347, No. 3. (1 April 2005), pp. 565-581.
    by JW Torrance, GJ Bartlett, CT Porter, JM Thornton
    posted to structural_templates structural_bioinformatics by jwm on 2008-06-03 12:46:47 as ** along with 4 people and 1 group chrn Einat alexg gbart structural_bioinformatics
  • Progress of structural genomics initiatives: an analysis of solved target structures.
    J Mol Biol, Vol. 348, No. 5. (20 May 2005), pp. 1235-1260.
    by AE Todd, RL Marsden, JM Thornton, CA Orengo
    posted to structural_bioinformatics by jwm on 2008-06-03 12:46:26 as ** along with 2 people and 2 groups bicko marcius BioinfoCIPF SGU-CIPF
  • The complement of enzymatic sets in different species.
    J Mol Biol, Vol. 349, No. 4. (17 June 2005), pp. 745-763.
    by S Freilich, RV Spriggs, RA George, B Al-Lazikani, M Swindells, JM Thornton
    posted to structural_bioinformatics by jwm on 2008-06-03 12:45:50 as ** along with 2 people gbart tny
  • Predicting protein function from sequence and structural data.
    Curr Opin Struct Biol, Vol. 15, No. 3. (June 2005), pp. 275-284.
    by JD Watson, RA Laskowski, JM Thornton
    posted to structural_bioinformatics by jwm on 2008-06-03 12:45:15 as ** along with 2 people tjimenez kuhn
  • Protein Function Prediction Using Local 3D Templates.
    J Mol Biol (11 July 2005)
    by Roman A A Laskowski, James D D Watson, Janet M M Thornton
    posted to structural_templates structural_bioinformatics by jwm on 2008-06-03 12:44:58 as ** along with 7 people mdimmic shadowman chrn gbart MaggieYe siebertm yoonk
  • A method for localizing ligand binding pockets in protein structures.
    Proteins, Vol. 62, No. 2. (1 February 2006), pp. 479-488.
    by F Glaser, RJ Morris, RJ Najmanovich, RA Laskowski, JM Thornton
    posted to structural_bioinformatics ligand_sites by jwm on 2008-06-03 12:44:33 as ** along with 4 people tjimenez nickolay sriram_s bilab
  • Introduction. Bioinformatics: from molecules to systems.
    Philosophical transactions of the Royal Society of London. Series B, Biological sciences, Vol. 361, No. 1467. (29 March 2006), pp. 389-391.
    by DT Jones, MJ Sternberg, JM Thornton
    posted to structural_bioinformatics bioinformatics by jwm on 2008-06-03 12:44:07 as **
  • One fold with many functions: the evolutionary relationships between TIM barrel families based on their sequences, structures and functions.
    J Mol Biol, Vol. 321, No. 5. (30 August 2002), pp. 741-765.
    by N Nagano, CA Orengo, JM Thornton
    posted to tim_barrel structural_bioinformatics by jwm on 2008-06-03 12:42:44 as ** along with 1 person tjimenez
  • Conservation helps to identify biologically relevant crystal contacts.
    J Mol Biol, Vol. 313, No. 2. (19 October 2001), pp. 399-416.
    by WS Valdar, JM Thornton
    posted to structural_bioinformatics crystal_contacts by jwm on 2008-06-03 12:42:01 as ** along with 3 people bicko cjeans Evangelia
  • A database and tools for 3-D protein structure comparison and alignment using the Combinatorial Extension (CE) algorithm.
    Nucleic acids research, Vol. 29, No. 1. (1 January 2001), pp. 228-229.
    by IN Shindyalov, PE Bourne
    posted to structural_bioinformatics by jwm on 2008-06-02 10:11:56 as **
  • Backbone-dependent Rotamer Library for Proteins Application to Side-chain Prediction
    Journal of Molecular Biology, Vol. 230, No. 2. (20 March 1993), pp. 543-574.
    by Jr Dunbrack, Martin Karplus
    posted to rotamers by jwm on 2008-06-01 17:04:13 as ** along with 2 people and 1 group nknii dgront TCR_Signaling
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