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Tag jcsg [42 articles]

Recent papers classified by the tag jcsg.
  • How do the x-ray structure and the NMR structure of FMN-binding protein differ?
    Acta Crystallogr D Biol Crystallogr, Vol. 56, No. Pt 3. (March 2000), pp. 368-371.
    by K Suto, K Kawagoe, N Shibata, Y Morimoto, Y Higuchi, M Kitamura, T Nakaya, N Yasuoka
    posted to split-barrel scop-b-45-1-1 pdb-1flm jcsg by ana to the group Bioinformatics on 2007-01-29 19:17:59 as ** along with 1 group structural_bioinformatics
  • Pathway of chymotrypsin evolution suggested by the structure of the FMN-binding protein from Desulfovibrio vulgaris (Miyazaki F)
    Nat Struct Biol, Vol. 4, No. 12. (December 1997), pp. 975-979.
    by E Liepinsh, M Kitamura, T Murakami, T Nakaya, G Otting
    posted to split-barrel scop-b-45-1-1 pdb-1axj jcsg by ana to the group Bioinformatics on 2007-01-18 17:35:47 as *** along with 1 group structural_bioinformatics
  • Gene duplications in the structural evolution of chymotrypsin.
    J Mol Biol, Vol. 128, No. 1. (15 February 1979), pp. 49-79.
    by AD McLachlan
    posted to jcsg barrel by ana to the group Bioinformatics on 2007-01-18 19:10:22 as **** along with 1 group structural_bioinformatics
  • Structure and mechanism of Escherichia coli pyridoxine 5'-phosphate oxidase.
    Biochim Biophys Acta, Vol. 1647, No. 1-2. (11 April 2003), pp. 76-82.
    by ML di Salvo, MK Safo, FN Musayev, F Bossa, V Schirch
    posted to split-barrel scop-b-45-1-1 pdb-1ci0 jcsg by ana to the group Bioinformatics on 2007-01-16 20:10:57 as **** along with 1 group structural_bioinformatics
  • Active site structure and stereospecificity of Escherichia coli pyridoxine-5'-phosphate oxidase.
    J Mol Biol, Vol. 315, No. 3. (18 January 2002), pp. 385-397.
    by ML di Salvo, TP Ko, FN Musayev, S Raboni, V Schirch, MK Safo
    posted to split-barrel scop-b-45-1-1 pdb-1jnw jcsg by ana to the group Bioinformatics on 2007-01-16 19:33:19 as *** along with 1 group structural_bioinformatics
  • The molecular structure of Rv2074, a probable pyridoxine 5′-phosphate oxidase from Mycobacterium tuberculosis, at 1.6 Å resolution
    Acta Crystallographica Section F: Structural Biology and Crystallization Communications, Vol. 62, No. 8. (August 2006), pp. 735-742.
    by Biswal, , Au, , Cherney, , Garen, , James,
    posted to split-barrel scop-b-45-1-1-pre pdb-2asf jcsg by ana to the group Bioinformatics on 2007-01-29 19:41:30 as ** along with 1 group structural_bioinformatics
  • Structural Evolution of the Protein Kinase-Like Superfamily.
    PLoS Comput Biol, Vol. 1, No. 5. (21 October 2005)
    by Eric D D Scheeff, Philip E E Bourne
    posted to protein_structure protein_sequence phylogenetics jcsg by ana to the group Bioinformatics on 2007-06-02 03:59:29 as **** along with 3 people and 1 group BragilMassoud anwazo renatomilani structural_bioinformatics
  • The crystal structure of CREG, a secreted glycoprotein involved in cellular growth and differentiation.
    Proc Natl Acad Sci U S A, Vol. 102, No. 51. (20 December 2005), pp. 18326-18331.
    by M Sacher, A Di Bacco, VV Lunin, Z Ye, J Wagner, G Gill, M Cygler
    posted to split-barrel scop-b-45-1-1-pre pdb-1xhn jcsg by ana to the group Bioinformatics on 2007-01-29 19:39:30 as ** along with 1 group structural_bioinformatics
  • Structure of Escherichia coli pyridoxine 5′-phosphate oxidase in a tetragonal crystal form: insights into the mechanistic pathway of the enzyme
    Acta Crystallographica Section D Biological Crystallography
    by Safo
    posted to split-barrel scop-b-45-1-1 pdb-1wv4 jcsg by ana to the group Bioinformatics on 2007-01-29 19:27:28 as ** along with 1 group structural_bioinformatics
  • Definitions of enzyme function for the structural genomics era.
    Curr Opin Chem Biol, Vol. 7, No. 2. (April 2003), pp. 230-237.
    by PC Babbitt
    posted to jcsg function_evolution by ana to the group Bioinformatics on 2007-03-28 04:12:07 as ***** along with 1 person and 1 group blackbart structural_bioinformatics
  • Structures of Mycobacterium tuberculosis pyridoxine 5′-phosphate oxidase and its complexes with flavin mononucleotide and pyridoxal 5′-phosphate
    Acta Crystallographica Section D Biological Crystallography
    by Biswal
    posted to split-barrel scop-b-45-1-1-pre scop-b-45-1-1 pdb-2aq6 pdb-1y30 pdb-1xxo jcsg by ana to the group Bioinformatics on 2007-01-29 19:36:39 as ** along with 1 group structural_bioinformatics
  • Crystal structure of a putative pyridoxine 5'-phosphate oxidase (Rv2607) from Mycobacterium tuberculosis.
    Proteins, Vol. 62, No. 3. (15 March 2006), pp. 563-569.
    by JD Pédelacq, BS Rho, CY Kim, GS Waldo, TP Lekin, BW Segelke, B Rupp, LW Hung, SI Kim, TC Terwilliger
    posted to split-barrel scop-b-45-1-1-pre pdb-2a2j jcsg by ana to the group Bioinformatics on 2007-01-29 19:29:55 as ** along with 1 group structural_bioinformatics
  • To be or not to be an oxidase: challenging the oxygen reactivity of flavoenzymes
    Trends in Biochemical Sciences, Vol. 31, No. 5. (May 2006), pp. 276-283.
    by Andrea Mattevi
    posted to jcsg flavoenzymes by ana to the group Bioinformatics on 2007-02-09 23:11:20 as ** along with 1 group structural_bioinformatics
  • Divergent Evolution Within Protein Superfolds Inferred from Profile-based Phylogenetics
    Journal of Molecular Biology, Vol. 354, No. 3. (2 December 2005), pp. 722-737.
    by Douglas L Theobald, Deborah S Wuttke
    posted to protein_structure protein_sequence phylogenetics jcsg by ana to the group Bioinformatics on 2007-06-02 03:54:22 as **** along with 3 people and 3 groups barry dlr caporaso structural_bioinformatics biomedical-nlp McCammon
  • Definitions of enzyme function for the structural genomics era
    Current Opinion in Chemical Biology, Vol. 7, No. 2. (April 2003), pp. 230-237.
    by Patricia C Babbitt
    posted to jcsg function_evolution by ana to the group Bioinformatics on 2007-03-28 03:42:41 as **** along with 2 people and 1 group eweaver tny structural_bioinformatics
  • Evolution of function in protein superfamilies, from a structural perspective
    Journal of Molecular Biology, Vol. 307, No. 4. (6 April 2001), pp. 1113-1143.
    by Annabel E Todd, Christine A Orengo, Janet M Thornton
    posted to jcsg function_evolution by ana to the group Bioinformatics on 2007-03-28 03:16:48 as **** along with 8 people and 1 group kuhn chad_davis tny sriram_s choonpeng cdallett uz_labu_laimi sim82 structural_bioinformatics
  • Structural Basis of 5-Nitroimidazole Antibiotic Resistance: THE CRYSTAL STRUCTURE OF NimA FROM DEINOCOCCUS RADIODURANS
    J. Biol. Chem., Vol. 279, No. 53. (31 December 2004), pp. 55840-55849.
    by Hanna-Kirsti S Leiros, Sigrid Kozielski-Stuhrmann, Ulrike Kapp, Laurent Terradot, Gordon A Leonard, Sean M Mcsweeney
    posted to split-barrel scop-b-45-1-1 pdb-1w3r pdb-1w3q pdb-1w3p pdb-1w3o jcsg by ana to the group Bioinformatics on 2007-01-29 19:31:31 as ** along with 1 group structural_bioinformatics
  • Crystal structures of a novel ferric reductase from the hyperthermophilic archaeon Archaeoglobus fulgidus and its complex with NADP+.
    Structure, Vol. 9, No. 4. (4 April 2001), pp. 311-319.
    by HJ Chiu, E Johnson, I Schröder, DC Rees
    posted to split-barrel scop-b-45-1-2 pdb-1i0s pdb-1i0r jcsg by ana to the group Bioinformatics on 2007-01-22 20:36:04 as ** along with 1 group structural_bioinformatics
  • X-ray structure of Escherichia coli pyridoxine 5'-phosphate oxidase complexed with pyridoxal 5'-phosphate at 2.0 A resolution.
    J Mol Biol, Vol. 310, No. 4. (20 July 2001), pp. 817-826.
    by MK Safo, FN Musayev, ML di Salvo, V Schirch
    posted to split-barrel scop-b-45-1-1 pdb-1g79 pdb-1g78 pdb-1g77 pdb-1g76 jcsg by ana to the group Bioinformatics on 2007-01-29 19:25:10 as ** along with 1 group structural_bioinformatics
  • Myriads of protein families, and still counting
    Genome Biology, Vol. 4, No. 2. (2003)
    by Victor Kunin, Ildefonso Cases, Anton Enright, Victor de Lorenzo, Christos Ouzounis
    posted to jcsg family-size by ana to the group Bioinformatics on 2007-05-21 23:43:57 as read along with 1 group structural_bioinformatics
  • Crystal structure of the conserved hypothetical protein Rv1155 from Mycobacterium tuberculosis.
    FEBS Lett, Vol. 579, No. 1. (3 January 2005), pp. 215-221.
    by S Canaan, G Sulzenbacher, V Roig-Zamboni, L Scappuccini-Calvo, F Frassinetti, D Maurin, C Cambillau, Y Bourne
    posted to split-barrel scop-b-45-1-1 pdb-1w9a jcsg by ana to the group Bioinformatics on 2007-01-29 19:34:31 as ** along with 1 group structural_bioinformatics
  • Structural and Chemical Profiling of the Human Cytosolic Sulfotransferases
    PLoS Biology, Vol. 5, No. 5. (1 May 2007), e97.
    by Abdellah Allali-Hassani, Patricia W Pan, Ludmila Dombrovski, Rafael Najmanovich, Wolfram Tempel, Aiping Dong, Peter Loppnau, Fernando Martin, Janet Thonton, Aled M Edwards, Alexey Bochkarev, Alexander N Plotnikov, Masoud Vedadi, Cheryl H Arrowsmith
    posted to structural_genomics jcsg family_analysis by ana to the group Bioinformatics on 2007-04-10 19:37:51 as ***** along with 1 group structural_bioinformatics
  • Protein families and TRIBES in genome sequence space.
    Nucleic Acids Res, Vol. 31, No. 15. (1 August 2003), pp. 4632-4638.
    by AJ Enright, V Kunin, CA Ouzounis
    posted to jcsg family-size by ana to the group Bioinformatics on 2007-05-22 01:51:20 as ** along with 1 person and 1 group tmmurali structural_bioinformatics
  • Structure of the phenazine biosynthesis enzyme PhzG
    Acta Crystallographica Section D: Biological Crystallography, Vol. 60, No. 11. (01 November 2004), pp. 2110-2113.
    by Parsons, , Calabrese, , Eisenstein, , Ladner,
    posted to split-barrel scop-b-45-1-1 pdb-1ty9 pdb-1t9m jcsg by ana to the group Bioinformatics on 2007-01-29 19:28:04 as ** along with 1 group structural_bioinformatics
  • Principles determining the structure of beta-sheet barrels in proteins. II. The observed structures.
    J Mol Biol, Vol. 236, No. 5. (11 March 1994), pp. 1382-1400.
    by AG Murzin, AM Lesk, C Chothia
    posted to protein_structure jcsg barrel by ana to the group Bioinformatics on 2007-01-18 20:28:59 as **** along with 1 group structural_bioinformatics
  • Structure and properties of recombinant human pyridoxine 5'-phosphate oxidase.
    Protein Sci, Vol. 12, No. 7. (July 2003), pp. 1455-1463.
    by FN Musayev, ML Di Salvo, TP Ko, V Schirch, MK Safo
    posted to split-barrel scop-b-45-1-1 pdb-1nrg jcsg by ana to the group Bioinformatics on 2007-01-17 02:47:09 as *** along with 1 group structural_bioinformatics
  • X-ray structure of Escherichia coli pyridoxine 5'-phosphate oxidase complexed with FMN at 1.8 A resolution.
    Structure, Vol. 8, No. 7. (15 July 2000), pp. 751-762.
    by MK Safo, I Mathews, FN Musayev, ML di Salvo, DJ Thiel, DJ Abraham, V Schirch
    posted to split-barrel scop-b-45-1-1 pdb-1dnl jcsg by ana to the group Bioinformatics on 2007-01-29 19:24:41 as ** along with 1 group structural_bioinformatics
  • NMR structure and binding studies confirm that PA4608 from Pseudomonas aeruginosa is a PilZ domain and a c-di-GMP binding protein.
    Proteins, Vol. 66, No. 2. (1 February 2007), pp. 266-271.
    by TA Ramelot, A Yee, JR Cort, A Semesi, CH Arrowsmith, MA Kennedy
    posted to split-barrel scop-b-45-2 pdb-1ywu jcsg by ana to the group Bioinformatics on 2007-01-29 18:34:09 as ** along with 1 person and 1 group martainn structural_bioinformatics
  • Structural proteomics of an archaeon.
    Nat Struct Biol, Vol. 7, No. 10. (October 2000), pp. 903-909.
    by D Christendat, A Yee, A Dharamsi, Y Kluger, A Savchenko, JR Cort, V Booth, CD Mackereth, V Saridakis, I Ekiel, G Kozlov, KL Maxwell, N Wu, LP McIntosh, K Gehring, MA Kennedy, AR Davidson, EF Pai, M Gerstein, AM Edwards, CH Arrowsmith
    posted to split-barrel scop-b-45-1-2 pdb-1eje jcsg by ana to the group Bioinformatics on 2007-01-22 20:38:18 as ** along with 1 person and 1 group rph structural_bioinformatics
  • Structural studies on flavin reductase PheA2 reveal binding of NAD in an unusual folded conformation and support novel mechanism of action.
    J Biol Chem, Vol. 279, No. 13. (26 March 2004), pp. 12860-12867.
    by RH van den Heuvel, AH Westphal, AJ Heck, MA Walsh, S Rovida, WJ van Berkel, A Mattevi
    posted to split-barrel scop-b-45-1-2 pdb-1rz1 pdb-1rz0 jcsg by ana to the group Bioinformatics on 2007-01-22 20:39:59 as ** along with 1 group structural_bioinformatics
  • On the origin of enzymatic species
    Trends in Biochemical Sciences, Vol. 18, No. 10. (October 1993), pp. 372-376.
    by Gregory A Petsko, George L Kenyon, John A Gerlt, Dagmar Ringe, John W Kozarich
    posted to jcsg function_evolution by ana to the group Bioinformatics on 2007-03-28 03:42:24 as **** along with 1 group structural_bioinformatics
  • Structural classification of thioredoxin-like fold proteins.
    Proteins, Vol. 58, No. 2. (1 February 2005), pp. 376-388.
    by Y Qi, NV Grishin
    posted to jcsg by ana to the group Bioinformatics on 2007-01-23 02:55:22 as **** along with 1 group structural_bioinformatics
  • MAMMOTH (Matching molecular models obtained from theory): An automated method for model comparison
    Protein Sci, Vol. 11, No. 11. (1 November 2002), pp. 2606-2621.
    by Angel R Ortiz, Charlie E Strauss, Osvaldo Olmea
    posted to structure_comparison structure_alignment protein_structure jcsg by ana to the group Bioinformatics on 2007-01-16 01:12:02 as **** along with 6 people and 1 group iakes dimka jwm analogAI sebk tjimenez structural_bioinformatics
  • Divergent evolution of enzymatic function: mechanistically diverse superfamilies and functionally distinct suprafamilies.
    Annu Rev Biochem, Vol. 70 (2001), pp. 209-246.
    by JA Gerlt, PC Babbitt
    posted to jcsg function_evolution by ana to the group Bioinformatics on 2007-03-28 03:45:13 as **** along with 2 people and 1 group tny robert structural_bioinformatics
  • The three-dimensional structure of flavodoxin reductase from Escherichia coli at 1.7 a resolution
    Journal of Molecular Biology, Vol. 268, No. 1. (25 April 1997), pp. 147-157.
    by Margareta Ingelman, Vera Bianchi, Hans Eklund
    posted to scop-b-43-4 pdb-1qtj jcsg ferrodoxin-reductase-fad-binding by ana to the group Bioinformatics on 2007-02-08 04:10:14 as ** along with 1 group structural_bioinformatics
  • Protein structure and evolutionary history determine sequence space topology.
    Genome Res, Vol. 15, No. 3. (March 2005), pp. 385-392.
    by BE Shakhnovich, E Deeds, C Delisi, E Shakhnovich
    posted to jcsg family-size by ana to the group Bioinformatics on 2007-05-21 23:56:45 as ** along with 1 person and 1 group bpb structural_bioinformatics
  • Microbial ferric iron reductases.
    FEMS Microbiol Rev, Vol. 27, No. 2-3. (June 2003), pp. 427-447.
    by I Schröder, E Johnson, S de Vries
    posted to split-barrel jcsg by ana to the group Bioinformatics on 2007-01-23 02:52:52 as **** along with 1 group structural_bioinformatics
  • Scaling law in sizes of protein sequence families: from super-families to orphan genes.
    Proteins, Vol. 51, No. 4. (1 June 2003), pp. 569-576.
    by R Unger, S Uliel, S Havlin
    posted to jcsg family-size by ana to the group Bioinformatics on 2007-05-22 01:26:14 as read along with 1 group structural_bioinformatics
  • Probable circular permutation in the flavin-binding domain.
    Nat Struct Biol, Vol. 5, No. 2. (February 1998)
    by AG Murzin
    posted to split-barrel scop-b-45 scop-b-43-4 jcsg ferredoxin-reductase-fad-binding by ana to the group Bioinformatics on 2007-01-17 00:30:52 as *** along with 1 group structural_bioinformatics
  • Disseminating structural genomics data to the public: from a data dump to an animated story.
    Trends Biochem Sci (4 January 2006)
    by Ruben Abagyan, Wen Hwa H Lee, Eugene Raush, Levon Budagyan, Maxim Totrov, Michael Sundstrom, Brian D D Marsden
    posted to visualization structural_genomics jcsg by ana to the group Bioinformatics on 2007-04-05 03:30:16 as *** along with 1 person and 3 groups jwm structural_bioinformatics Radiation_Damage Stressosome
  • Principles determining the structure of beta-sheet barrels in proteins. I. A theoretical analysis.
    J Mol Biol, Vol. 236, No. 5. (11 March 1994), pp. 1369-1381.
    by AG Murzin, AM Lesk, C Chothia
    posted to protein_structure jcsg barrel by ana to the group Bioinformatics on 2007-01-18 19:10:07 as **** along with 1 group structural_bioinformatics
  • The challenge of protein structure determination lessons from structural genomics
    Protein Sci, Vol. 16, No. 11. (1 November 2007), pp. 2472-2482.
    by Lukasz Slabinski, Lukasz Jaroszewski, Ana P Rodrigues, Leszek Rychlewski, Ian A Wilson, Scott A Lesley, Adam Godzik
    posted to jcsg structural_genomics target_selection by ana on 2007-11-05 18:39:24 as read along with 2 people jwm rph
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