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Tag structure [973 articles]

Recent papers classified by the tag structure.
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  • A generative, probabilistic model of local protein structure
    Proceedings of the National Academy of Sciences, Vol. 105, No. 26. (1 July 2008), pp. 8932-8937.
    by Wouter Boomsma, Kanti V Mardia, Charles C Taylor, Jesper Ferkinghoff-Borg, Anders Krogh, Thomas Hamelryck
    posted to modeling protein structure by zwang on 2008-07-02 11:49:14 as * along with 5 people j3xucite bertelsen biehl apaydin mijam
  • Structure of Eukaryotic RNA Polymerases
    Annual Review of Biophysics, Vol. 37, No. 1. (2008), pp. 337-352.
    by P Cramer, KJ Armache, S Baumli, S Benkert, F Brueckner, C Buchen, GE Damsma, S Dengl, SR Geiger, AJ Jasiak, A Jawhari, S Jennebach, T Kamenski, H Kettenberger, CD Kuhn, E Lehmann, K Leike, JF Sydow, A Vannini
    posted to eukaryota rna structure by zwang on 2008-05-08 09:54:27 as **
  • Crystal structure of opsin in its G-protein-interacting conformation
    Nature, Vol. 455, No. 7212. (2008), pp. 497-502.
    by Patrick Scheerer, Jung H Park, Peter W Hildebrand, Yong J Kim, Norbert Krausz, Hui-Woog Choe, Klaus P Hofmann, Oliver P Ernst
    posted to structure protein by zwang on 2008-10-16 14:14:24 as ** along with 4 people and 1 group IrinaMoreira reyez stajich neils Berkeley Mycology
  • Structure of the Chloroplast Ribosome: Novel Domains for Translation Regulation
    PLoS Biology, Vol. 5, No. 8. (1 August 2007), e209.
    by Andrea L Manuell, Joel Quispe, Stephen P Mayfield
    posted to domain regulation structure translation by zwang on 2007-08-15 06:29:51 as *
  • Molecular Architecture of the "Stressosome," a Signal Integration and Transduction Hub
    Science, Vol. 322, No. 5898. (3 October 2008), pp. 92-96.
    by Jon Marles-Wright, Tim Grant, Olivier Delumeau, Gijs van Duinen, Susan J Firbank, Peter J Lewis, James W Murray, Joseph A Newman, Maureen B Quin, Paul R Race, Alexis Rohou, Willem Tichelaar, Marin van Heel, Richard J Lewis
    posted to structure protein em by zwang on 2008-10-15 08:55:40 as *** along with 2 people yuchi84119 dbikard
  • Structural basis for the selectivity of the external thioesterase of the surfactin synthetase
    Nature, Vol. 454, No. 7206., pp. 907-911.
    by Alexander Koglin, Frank Löhr, Frank Bernhard, Vladimir V Rogov, Dominique P Frueh, Eric R Strieter, Mohammad R Mofid, Peter Güntert, Gerhard Wagner, Christopher T Walsh, Mohamed A Marahiel, Volker Dötsch
    posted to protein structure by zwang on 2008-08-15 01:51:57 as **
  • Computational design of antibody-affinity improvement beyond in vivo maturation.
    Nat Biotechnol (23 September 2007)
    by Shaun M M Lippow, K Dane D Wittrup, Bruce Tidor
    posted to design interaction invivo structure by zwang on 2007-10-11 16:58:25 as *** along with 2 people and 1 group dfgreen hmk group
  • Bottleneck Genes and Community Structure in the Cell Cycle Network of S. pombe
    PLoS Computational Biology, Vol. 3, No. 6. (1 June 2007), e103.
    by Cécile Caretta-Cartozo, De Los, Francesco Piazza, Pietro Liò
    posted to cellcycle network structure yeast by zwang on 2007-08-18 15:14:38 as * along with 5 people jfr rahulthadani toshiaki_katayama sianbeya Borelli
  • Structural basis for translation termination on the 70S ribosome
    Nature (02 July 2008)
    by Martin Laurberg, Haruichi Asahara, Andrei Korostelev, Jianyu Zhu, Sergei Trakhanov, Harry F Noller
    posted to complex protein structure by zwang on 2008-08-15 01:52:22 as **
  • Quantifying the Impact of Protein Tertiary Structure on Molecular Evolution
    Mol Biol Evol (23 May 2007), msm097.
    by Sang C Choi, Asger Hobolth, Douglas M Robinson, Hirohisa Kishino, Jeffrey L Thorne
    posted to evolution protein structure by zwang on 2007-08-09 02:54:20 as ** along with 1 person penka
  • Structure-Templated Predictions of Novel Protein Interactions from Sequence Information
    PLoS Computational Biology, Vol. 3, No. 9. (1 September 2007), e182.
    by Doron Betel, Kevin E Breitkreuz, Ruth Isserlin, Danielle Dewar-Darch, Mike Tyers, Christopher W Hogue
    posted to interaction prediction protein sequence structure by zwang on 2007-11-02 08:05:43 as *** along with 2 people bicko dquest
  • 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 folding structure by zwang on 2008-07-07 04:17:04 as **
  • Superfamily Assignments for the Yeast Proteome through Integration of Structure Prediction with the Gene Ontology
    PLoS Biology, Vol. 5, No. 4. (1 April 2007), e76.
    by Lars Malmström, Michael Riffle, Charlie E Strauss, Dylan Chivian, Trisha N Davis, Richard Bonneau, David Baker
    posted to gene prediction structure yeast by zwang on 2007-04-19 15:17:08 as *
  • Structure-based activity prediction for an enzyme of unknown function
    Nature (01 July 2007)
    by Johannes C Hermann, Ricardo Marti-Arbona, Alexander A Fedorov, Elena Fedorov, Steven C Almo, Brian K Shoichet, Frank M Raushel
    posted to function prediction protein structure by zwang on 2007-08-18 08:45:55 as *** along with 9 people operon tny ucbcjbm aheilbut tjimenez daevans pkolb kimicc ivke
  • Predicting novel RNA-RNA interactions.
    Current opinion in structural biology (14 May 2008)
    by Irmtraud M M Meyer
    posted to interaction prediction rna structure by zwang on 2008-06-16 03:49:12 as ***** along with 2 people and 1 group Hosna marck beta
  • Predicting protein folding pathways at the mesoscopic level based on native interactions between secondary structure elements
    BMC Bioinformatics, Vol. 9 (23 July 2008), 320.
    by Qingwu Yang, Sing-Hoi Sze
    posted to folding interaction prediction protein structure by zwang on 2008-07-26 10:43:26 as *
  • Direct observation of fast protein conformational switching
    Proceedings of the National Academy of Sciences, Vol. 105, No. 25. (24 June 2008), pp. 8619-8624.
    by Haruto Ishikawa, Kyungwon Kwak, Jean K Chung, Seongheun Kim, Michael D Fayer
    posted to protein structure by zwang on 2008-06-25 05:44:14 as **
  • Structure-Templated Predictions of Novel Protein Interactions from Sequence Information
    PLoS Computational Biology, Vol. 3, No. 9. (1 September 2007), e182.
    by Doron Betel, Kevin E Breitkreuz, Ruth Isserlin, Danielle Dewar-Darch, Mike Tyers, Christopher W Hogue
    posted to interaction prediction protein sequence structure by zwang on 2007-10-22 05:11:20 as **** along with 3 people agustinarce cjeans winterschlaefer
  • Computational studies of the structure, dynamics and native content of amyloid-like fibrils of ribonuclease A
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2007), NA.
    by Giorgio Colombo, Massimiliano Meli, Alfonso De Simone
    posted to dynamics protein structure by zwang on 2007-10-12 07:36:37 as ** along with 2 people RamuAnandakrishnan fullofgrace88
  • I-TASSER server for protein 3D structure prediction
    BMC Bioinformatics, Vol. 9 (23 January 2008), 40.
    by Yang Zhang
    posted to prediction protein structure by zwang on 2008-02-24 13:43:46 as ** along with 4 people chad_davis mkurc rabio mclarenv
  • Structural motifs of biomolecules
    Proceedings of the National Academy of Sciences, Vol. 104, No. 44. (30 October 2007), pp. 17283-17286.
    by Jayanth R Banavar, Trinh X Hoang, John H Maddocks, Amos Maritan, Chiara Poletto, Andrzej Stasiak, Antonio Trovato
    posted to motif structure by zwang on 2007-11-01 02:15:29 as ** along with 3 people and 1 group sobolevnrm afenley hpaces baker-group
  • Molecular Engineering of Viral Gene Delivery Vehicles
    Annual Review of Biomedical Engineering, Vol. 10, No. 1. (2008), pp. 169-194.
    by David V Schaffer, James T Koerber, Kwang I Lim
    posted to gene structure virus by zwang on 2008-07-23 07:11:52 as **
  • Prediction of the structure of symmetrical protein assemblies
    Proceedings of the National Academy of Sciences (31 October 2007), 0702626104.
    by Ingemar Andre, Philip Bradley, Chu Wang, David Baker
    posted to prediction protein structure by zwang on 2007-11-07 07:44:46 as * along with 4 people and 2 groups jwm jmrivort cjeans sobolevnrm Supramolecular baker-group
  • 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
  • Construction of effective free energy landscape from single-molecule time series
    Proceedings of the National Academy of Sciences, Vol. 104, No. 49. (4 December 2007), pp. 19297-19302.
    by Akinori Baba, Tamiki Komatsuzaki
    posted to structure by zwang on 2007-12-05 11:06:54 as * along with 6 people and 1 group hmk cactus sobolevnrm Diego_Prada arnaudriegert hsekiguc baker-group
  • Accuracy of structure-based sequence alignments of automatic methods
    BMC Bioinformatics, Vol. 8 (20 September 2007), 355.
    by Changhoon Kim, Byungkook Lee
    posted to accuracy algorithm alignment sequence structure by zwang on 2007-11-01 07:29:02 as *** along with 2 people dimka rabio
  • Implications for kinetochore-microtubule attachment from the structure of an engineered Ndc80 complex.
    Cell, Vol. 133, No. 3. (2 May 2008), pp. 427-439.
    by C Ciferri, S Pasqualato, E Screpanti, G Varetti, S Santaguida, G Dos Reis, A Maiolica, J Polka, JG De Luca, P De Wulf, M Salek, J Rappsilber, CA Moores, ED Salmon, A Musacchio
    posted to complex structure by zwang on 2008-07-10 09:23:58 as **
  • Quaternary Structure Constraints on Evolutionary Sequence Divergence
    Molecular Biology and Evolution, Vol. 24, No. 2. (February 2007), pp. 349-351.
    by Fornasari, Maria Silvina, Parisi, Gustavo, Echave, Julian
    posted to divergence evolution structure by zwang on 2007-04-12 13:19:48 as ** along with 1 person Garamonfok
  • Detecting evolutionary relationships across existing fold space, using sequence order-independent profile-profile alignments
    Proceedings of the National Academy of Sciences, Vol. 105, No. 14. (8 April 2008), pp. 5441-5446.
    by Lei Xie, Philip E Bourne
    posted to alignment evolution profile sequence structure by zwang on 2008-04-09 03:58:23 as ** along with 1 person and 1 group sobolevnrm baker-group
  • Structure and Functional Role of Dynein's Microtubule-Binding Domain
    Science, Vol. 322, No. 5908. (12 December 2008), pp. 1691-1695.
    by Andrew P Carter, Joan E Garbarino, Elizabeth M Wilson-Kubalek, Wesley E Shipley, Carol Cho, Ronald A Milligan, Ronald D Vale, IR Gibbons
    posted to structure domain binding by zwang on 2009-01-09 08:57:15 as ** along with 2 people hsekiguc kshundyak
  • In Search of the Biological Significance of Modular Structures in Protein Networks
    PLoS Computational Biology, Vol. 3, No. 6. (1 June 2007), e107.
    by Zhi Wang, Jianzhi Zhang
    posted to network protein structure by zwang on 2007-08-18 15:17:14 as *** along with 6 people and 2 groups jfr grahamc massivemayhem cjeans cabbagezs pinney Bioinformatics ParkinsonLab_at_MaRS
  • The MC-Fold and MC-Sym pipeline infers RNA structure from sequence data
    Nature, Vol. 452, No. 7183., pp. 51-55.
    by Marc Parisien, François Major
    posted to prediction rna sequence structure by zwang on 2008-03-07 02:48:26 as *** along with 4 people puranjoy_b austin elfar reyez
  • Designed Protein-Protein Association
    Science, Vol. 319, No. 5860. (11 January 2008), pp. 206-209.
    by Dirk Grueninger, Nora Treiber, Mathias O Ziegler, Jochen W Koetter, Monika-Sarah Schulze, Georg E Schulz
    posted to interaction protein structure by zwang on 2008-01-17 04:23:36 as ** along with 5 people and 1 group cjeans cactus biomcgary sobolevnrm higueruelo baker-group
  • Structure of a complex of the ATPase SecA and the protein-translocation channel
    Nature, Vol. 455, No. 7215., pp. 936-943.
    by Jochen Zimmer, Yunsun Nam, Tom A Rapoport
    posted to structure protein complex by zwang on 2008-10-17 04:09:48 as *** along with 4 people lukzky lpierce cactus neils
  • Accurate prediction of stability changes in protein mutants by combining machine learning with structure based computational mutagenesis
    Bioinformatics, Vol. 24, No. 18. (15 September 2008), pp. 2002-2009.
    by Majid Masso, Iosif I Vaisman
    posted to svm structure stability protein prediction by zwang on 2008-10-09 08:57:06 as ** along with 2 people kluck afon
  • Coevolution at protein complex interfaces can be detected by the complementarity trace with important impact for predictive docking.
    Proceedings of the National Academy of Sciences of the United States of America (29 May 2008)
    by Hocine Madaoui, Raphaël Guerois
    posted to co-evolution interaction interface prediction structure by zwang on 2008-08-06 07:42:22 as *** along with 4 people orr cabbagesofdoom phoenixzxl bicko
  • PKA Type IIalpha Holoenzyme Reveals a Combinatorial Strategy for Isoform Diversity
    Science, Vol. 318, No. 5848. (12 October 2007), pp. 274-279.
    by Jian Wu, Simon H Brown, Sventja von Daake, Susan S Taylor
    posted to diversity structure by zwang on 2007-10-22 13:25:05 as *
  • RNA Structure: Reading the Ribosome
    Science, Vol. 309, No. 5740. (02 September 2005), pp. 1508-1514.
    by Harry F Noller
    posted to structure secondary rna by zwang on 2008-10-09 05:09:34 as **** along with 3 people and 2 groups dayjm marcius jarasch BioinfoCIPF SGU-CIPF
  • SimulFold: Simultaneously Inferring RNA Structures Including Pseudoknots, Alignments, and Trees Using a Bayesian MCMC Framework
    PLoS Computational Biology, Vol. 3, No. 8. (1 August 2007), e149.
    by Irmtraud M Meyer, István Miklós
    posted to alignment bayesian phylogeny rna structure by zwang on 2007-09-13 17:47:28 as **** along with 3 people raylim cabbagezs bertelsen
  • 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 folding protein structure by zwang on 2008-05-08 09:59:05 as **
  • Importin-[beta]: Structural and Dynamic Determinants of a Molecular Spring
    Structure, Vol. 16, No. 6. (11 June 2008), pp. 906-915.
    by Ulrich Zachariae, Helmut Grubmüller
    posted to structure by zwang on 2008-07-07 04:14:27 as * along with 1 person choonpeng
  • Evaluating and Learning from RNA Pseudotorsional Space: Quantitative Validation of a Reduced Representation for RNA Structure
    Journal of Molecular Biology, Vol. 372, No. 4. (28 September 2007), pp. 942-957.
    by Leven M Wadley, Kevin S Keating, Carlos M Duarte, Anna M Pyle
    posted to prediction rna structure by zwang on 2007-11-01 07:34:03 as ** along with 1 person reyez
  • Optimal Design of Thermally Stable Proteins
    Bioinformatics (22 August 2008), btn450.
    by Vanitha Suresh, Ryan M Bannen, George N Phillips, Stephen J Wright, Julie C Mitchell
    posted to design prediction protein structure by zwang on 2008-08-27 07:30:16 as ** along with 2 people friendpine phoenixzxl
  • Structural biology by NMR: structure, dynamics, and interactions.
    PLoS computational biology, Vol. 4, No. 9. (September 2008)
    by PR Markwick, T Malliavin, M Nilges
    posted to structure protein nmr interaction by zwang on 2008-10-07 11:18:32 as ** along with 7 people and 1 group betainverse bmduggan pengchy raik ruvido laurabailey barry structural_bioinformatics
  • Dynamic energy landscape view of coupled binding and protein conformational change: Induced-fit versus population-shift mechanisms
    Proceedings of the National Academy of Sciences, Vol. 105, No. 32. (2008), pp. 11182-11187.
    by Kei-Ichi Okazaki, Shoji Takada
    posted to binding protein structure by zwang on 2008-08-14 07:25:41 as * along with 3 people and 2 groups raik ruvido barry structural_bioinformatics McCammon
  • Correlated substitution analysis and the prediction of amino acid structural contacts
    Brief Bioinform (13 November 2007), bbm052.
    by David S Horner, Walter Pirovano, Graziano Pesole
    posted to co-evolution contact prediction structure substitution by zwang on 2008-03-20 13:25:08 as *** along with 3 people and 3 groups barry sobolevnrm Lombardo_7 structural_bioinformatics Bioinformatics baker-group
  • Modeling of protein binary complexes using structural mass spectrometry data
    Protein Sci, Vol. 17, No. 1. (1 January 2008), pp. 79-94.
    by Amisha JK Kamal, Mark R Chance
    posted to complex massspectrometry protein structure by zwang on 2007-12-22 03:02:36 as ****
  • A fast structural multiple alignment method for long RNA sequences
    BMC Bioinformatics, Vol. 9 (23 January 2008), 33.
    by Yasuo Tabei, Hisanori Kiryu, Taishin Kin, Kiyoshi Asai
    posted to alignment rna sequence structure by zwang on 2008-02-24 13:44:59 as ***** along with 2 people Md_2007 mtagaya
  • Structure of influenza hemagglutinin in complex with an inhibitor of membrane fusion
    Proceedings of the National Academy of Sciences, Vol. 105, No. 46. (18 November 2008), pp. 17736-17741.
    by Rupert J Russell, Philip S Kerry, David J Stevens, David A Steinhauer, Stephen R Martin, Steven J Gamblin, John J Skehel
    posted to structure influenza complex by zwang on 2008-12-19 08:11:05 as ****
  • Reuse of structural domain-domain interactions in protein networks
    BMC Bioinformatics, Vol. 8 (18 July 2007), 259.
    by Benjamin Schuster-Bockler, Alex Bateman
    posted to domain interaction network protein structure by zwang on 2007-08-15 03:32:04 as ** along with 2 people carlk saket
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