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neils structure [75 articles]

Recent papers added to neils library classified by the tag structure. You can also see everyone's structure.
  • Revealing unique properties of the ribosome using a network based analysis
    Nucl. Acids Res. (14 July 2008), gkn433.
    by Hilda David-Eden, Yael Mandel-Gutfreund
    posted to structure ribosome network modelling analysis by neils on 2008-07-15 04:45:46 as **
  • Structural Relationships Among the Ribosomal Stalk Proteins from the Three Domains of Life.
    Journal of molecular evolution (9 July 2008)
    by Przemysław Grela, Pau Bernadó, Dmitri Svergun, Jan Kwiatowski, Dariusz Abramczyk, Nikodem Grankowski, Marek Tchórzewski
    posted to protein structure ribosome phylogeny evolution by neils on 2008-07-11 00:18:55 as **
  • The Crystal Structure of the Ran-Nup153ZnF2 Complex: a General Ran Docking Site at the Nuclear Pore Complex
    Structure, Vol. 16, No. 7. (9 July 2008), pp. 1116-1125.
    by Nils Schrader, Carolin Koerner, Katja Koessmeier, Jan-Amadé Bangert, Alfred Wittinghofer, Raphael Stoll, Ingrid R Vetter
    posted to structure ran nup nuclear npc complex by neils on 2008-07-10 04:38:13 as **
  • The Structure of an Archaeal Pilus.
    Journal of molecular biology (12 June 2008)
    by Ying A A Wang, Xiong Yu, Sandy Y M Y Ng, Ken F F Jarrell, Edward H H Egelman
    posted to electron-microscopy cryo-em structure pilus methanococcus archaea by neils on 2008-07-09 12:51:38 as **
  • Protein structure protection commits gene expression patterns
    Genome Biology, Vol. 9 (07 July 2008), R107.
    by Jianping Chen, Han Liang, Ariel Fernandez
    posted to structure protein gene expression disorder correlation by neils on 2008-07-08 01:55:18 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 complex structure quaternary protein-protein interaction evolution assembly by neils on 2008-06-26 03:53:59 as ** along with 7 people phoenixzxl marck faion psique zwang jwm paulschlesinger
  • The protein structure prediction problem could be solved using the current PDB library.
    Proc Natl Acad Sci U S A, Vol. 102, No. 4. (25 January 2005), pp. 1029-1034.
    by Y Zhang, J Skolnick
    posted to structure protein prediction pdb modelling homology casp by neils on 2008-06-12 07:42:10 as ** along with 9 people and 3 groups karbak iakes vavi marcius alexg j3xucite kracher schuylrp jfmuggs BioinfoCIPF Immunoinformatics SGU-CIPF
  • A general target selection method for crystallographic proteomics.
    Methods in molecular biology (Clifton, N.J.), Vol. 426 (2008), pp. 27-35.
    by G Robin, NP Cowieson, G Guncar, JK Forwood, P Listwan, DA Hume, B Kobe, JL Martin, T Huber
    posted to target structure selection proteomics crystallography by neils on 2008-06-12 01:02:41 as **
  • Overview of the pipeline for structural and functional characterization of macrophage proteins at the University of Queensland.
    Methods in molecular biology (Clifton, N.J.), Vol. 426 (2008), pp. 577-587.
    by W Meng, JK Forwood, G Guncar, G Robin, NP Cowieson, P Listwan, D Mouradov, G King, IL Ross, J Robinson, M Puri, JM Hill, S Kellie, T Huber, DA Hume, JL Martin, B Kobe
    posted to uq structure methods macrophage genomics crystallography by neils on 2008-06-12 01:01:30 as **
  • Structural Genomics of the Bacterial Mobile Metagenome: an Overview.
    Methods in molecular biology (Clifton, N.J.), Vol. 426 (2008), pp. 589-595.
    by Andrew Robinson, Amy P Guilfoyle, Visaahini Sureshan, Michael Howell, Stephen J Harrop, Yan Boucher, Hatch W Stokes, Paul M Curmi, Bridget C Mabbutt
    posted to structure mobile methods metagenomics genomics gene cassette by neils on 2008-06-12 01:00:22 as **
  • PROMALS3D web server for accurate multiple protein sequence and structure alignments
    Nucl. Acids Res. (24 May 2008), gkn322.
    by Jimin Pei, Ming Tang, Nick V Grishin
    posted to webserver structure sequence protein bioinformatics alignment by neils on 2008-05-29 04:29:21 as **
  • PBEQ-Solver for online visualization of electrostatic potential of biomolecules
    Nucl. Acids Res. (28 May 2008), gkn314.
    by Sunhwan Jo, Miklos Vargyas, Judit Vasko-Szedlar, Benoit Roux, Wonpil Im
    posted to webserver visualisation structure electrostatics by neils on 2008-05-29 02:59:37 as ** along with 1 person sobolevnrm
  • Crystal structure of squid rhodopsin
    Nature, Vol. 453, No. 7193., pp. 363-367.
    by Midori Murakami, Tsutomu Kouyama
    posted to structure squid rhodopsin crystallography by neils on 2008-05-23 08:57:28 as **
  • Cytochrome cd1 structure: unusual haem environments in a nitrite reductase and analysis of factors contributing to beta-propeller folds.
    Journal of molecular biology, Vol. 269, No. 3. (13 June 1997), pp. 440-455.
    by SC Baker, NF Saunders, AC Willis, SJ Ferguson, J Hajdu, V Fülöp
    posted to structure reductase protein nitrite haem cytochrome beta-propeller by neils on 2008-05-11 10:19:58 as **
  • Haem-ligand switching during catalysis in crystals of a nitrogen-cycle enzyme.
    Nature, Vol. 389, No. 6649. (25 September 1997), pp. 406-412.
    by PA Williams, V Fülöp, EF Garman, NF Saunders, SJ Ferguson, J Hajdu
    posted to structure reductase protein nitrite mechanism haem crystallography by neils on 2008-05-11 10:18:50 as **
  • notes Computational evidence for the catalytic mechanism of glutaminyl cyclase. A DFT investigation
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Matteo Calvaresi, Marco Garavelli, Andrea Bottoni
    posted to structure protein dft computational catalysis by neils on 2008-05-10 09:12:23 as **
  • Fast protein tertiary structure retrieval based on global surface shape similarity
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (xx 2008)
    by Lee Sael, Bin Li, David La, Yi Fang, Karthik Ramani, Raif Rustamov, Daisuke Kihara
    posted to structure retrieval protein prediction bioinformatics by neils on 2008-05-09 10:19:56 as **
  • Protein Disorder Is Positively Correlated with Gene Expression in Escherichia coli
    J. Proteome Res. (9 May 2008)
    by Oleg Paliy, Shawn M Gargac, Yugong Cheng, Vladimir N Uversky, Keith A Dunker
    posted to structure protein expression ecoli disorder by neils on 2008-05-09 07:51:04 as **
  • Crystal Structure of the FK506 Binding Domain of Plasmodium falciparum FKBP35 in Complex with FK506
    Biochemistry (9 May 2008)
    by Masayo Kotaka, Hong Ye, Reema Alag, Guangan Hu, Zbynek Bozdech, Peter R Preiser, Ho S Yoon, Julien Lescar
    posted to complex structure plasmodium ligand fkbp crystallography by neils on 2008-05-09 06:57:49 as ** along with 1 person becarmson
  • SCPRED: Accurate prediction of protein structural class for sequences of twilight-zone similarity with predicting sequences
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Lukasz Kurgan, Krzysztof Cios, Ke Chen
    posted to structure sequence protein prediction bioinformatics by neils on 2008-05-02 00:27:57 as **
  • Structural analysis of the essential self-cleaving type III secretion proteins EscU and SpaS
    Nature, Vol. 453, No. 7191., pp. 124-127.
    by Raz Zarivach, Wanyin Deng, Marija Vuckovic, Heather B Felise, Hai V Nguyen, Samuel I Miller, Brett B Finlay, Natalie CJ Strynadka
    posted to type-iii structure secretion cleavage bacteria by neils on 2008-05-01 02:25:46 as ** along with 1 person and 1 group sobolevnrm baker-group
  • Calcium-Dependent Heme Structure in the Reduced Forms of the Bacterial Cytochrome c Peroxidase from Paracoccus pantotrophus
    Biochemistry (29 April 2008)
    by Sofia R Pauleta, Yi Lu, Celia F Goodhew, Isabel Moura, Graham W Pettigrew, John A Shelnutt
    posted to structure peroxidase paracoccus haem cytochrome calcium by neils on 2008-04-29 09:21:09 as **
  • An evaluation of automated homology modelling methods at low target template sequence similarity
    Bioinformatics, Vol. 23, No. 15. (1 August 2007), pp. 1901-1908.
    by James A Dalton, Richard M Jackson
    posted to structure protein prediction modelling homology evaluation bioinformatics by neils on 2008-04-26 12:05:56 as ** along with 3 people pansapiens chad_davis biehl
  • Constructing templates for protein structure prediction by simulation of protein folding pathways
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Ilona Kifer, Ruth Nussinov, Haim J Wolfson
    posted to structure simulation protein prediction modelling folding by neils on 2008-04-25 01:52:40 as **
  • Scansite 2.0: Proteome-wide prediction of cell signaling interactions using short sequence motifs.
    Nucleic Acids Res, Vol. 31, No. 13. (1 July 2003), pp. 3635-3641.
    by JC Obenauer, LC Cantley, MB Yaffe
    posted to algorithm database amino-acid transduction structure software sites signal sequence proteome protein phosphorylation motifs internet binding article-predikin article-nar analysis by neils on 2008-04-24 16:16:06 as ** along with 2 people Evangelia mloewer
  • ROC analysis: applications to the classification of biological sequences and 3D structures
    Brief Bioinform (11 January 2008), bbm064.
    by Paolo Sonego, Andras Kocsor, Sandor Pongor
    posted to structure statistics sequence roc classification by neils on 2008-04-23 13:46:17 as ** along with 4 people nklee spsdigest girschick cjeans
  • The FoldX web server: an online force field.
    Nucleic Acids Res, Vol. 33, No. Web Server issue. (1 July 2005)
    by J Schymkowitz, J Borg, F Stricher, R Nys, F Rousseau, L Serrano
    posted to analysis foldx force-field structure webserver by neils on 2008-04-16 02:40:51 as ** along with 2 people aalibes chad_davis
  • Analyzing Protein Interaction Networks Using Structural Information
    Annual Review of Biochemistry, Vol. 77, No. 1. (2008)
    by Christina Kiel, Pedro Beltrao, Luis Serrano
    posted to bioinformatics interaction network protein-protein structure by neils on 2008-04-11 01:44:07 as ** along with 5 people zwang phoenixzxl paolomarcatili grahamc Evangelia
  • The solution structure of ZNF593 from Homo sapiens reveals a zinc finger in a predominately unstructured protein
    Protein Sci, Vol. 17, No. 3. (1 March 2008), pp. 571-576.
    by Paulette L Hayes, Betsy L Lytle, Brian F Volkman, Francis C Peterson
    posted to dna-binding human nmr protein structure znf by neils on 2008-04-10 00:01:30 as **
  • Structure of the Mammalian 80S Ribosome at 8.7 A Resolution
    Structure, Vol. 16, No. 4. (8 April 2008), pp. 535-548.
    by Preethi Chandramouli, Maya Topf, Jean-Francois Menetret, Narayanan Eswar, Jamie J Cannone, Robin R Gutell, Andrej Sali, Christopher W Akey
    posted to structure ribosome modelling electron-microscopy cryo-em by neils on 2008-04-09 23:57:38 as **
  • Crystal structure of GH13 alpha-glucosidase GSJ from one of the deepest sea bacteria
    by Tsuyoshi Shirai, Vo S Hung, Katsuhito Morinaka, Tohru Kobayashi, Susumu Ito
    posted to barophile crystallography glucosidase protein structure by neils on 2008-04-09 04:14:21 as **
  • Crystal structure of PAE0151 from <I>Pyrobaculum aerophilum</I>, a PIN-domain (VapC) protein from a toxin-antitoxin operon
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Richard D Bunker, Joanna L Mckenzie, Edward N Baker, Vickery L Arcus
    posted to antitoxin archaea crystallography protein pyrobaculum structure toxin by neils on 2008-04-09 04:13:35 as **
  • How to lose a kink and gain a helix: pH independent conformational changes of the fusion domains from influenza hemagglutinin in heterogeneous lipid bilayers
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Hyunbum Jang, Naveen Michaud-Agrawal, Jennifer M Johnston, Thomas B Woolf
    posted to fusion haemagglutinin influenza lipid protein simulation structure virus by neils on 2008-04-01 23:23:52 as ** along with 1 person sunhwan
  • Fast protein tertiary structure retrieval based on global surface shape similarity.
    Proteins (24 March 2008)
    by Lee Sael, Bin Li, David La, Yi Fang, Karthik Ramani, Raif Rustamov, Daisuke Kihara
    posted to bioinformatics protein search structure surface by neils on 2008-03-26 23:34:48 as ** along with 1 person CameronNeylon
  • X-ray structure of a prokaryotic pentameric ligand-gated ion channel
    Nature (05 March 2008)
    by Ricarda JC Hilf, Raimund Dutzler
    posted to crystallography ion-channel ligand-gated prokaryotic structure by neils on 2008-03-20 02:28:51 as ** along with 2 people and 2 groups barry jmccammon McCammon structural_bioinformatics
  • Evolutionary Patterns in the Sequence and Structure of Transfer RNA: Early Origins of Archaea and Viruses
    PLoS Comput Biol, Vol. 4, No. 3. (Mar 2008)
    by Feng J Sun, Gustavo C Anollés
    posted to virus archaea bioinformatics evolution phylogeny sequence structure trna by neils on 2008-03-12 02:45:33 as **
  • Structure-based prediction of transcription factor binding sites using a protein-DNA docking approach
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Zhijie Liu, Jun-Tao Guo, Ting Li, Ying Xu
    posted to factors binding bioinformatics docking prediction structure transcription by neils on 2008-03-05 01:15:12 as ** along with 1 person aalibes
  • Scan2S: Increasing the precision of PROSITE pattern motifs using secondary structure constraints
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Lucy Skrabanek, Masha Y Niv
    posted to bioinformatics motifs prosite secondary structure by neils on 2008-03-05 01:14:34 as **
  • Protein production and purification.
    Nat Methods, Vol. 5, No. 2. (February 2008), pp. 135-146.
    by S Gräslund, P Nordlund, J Weigelt, J Bray, O Gileadi, S Knapp, U Oppermann, C Arrowsmith, R Hui, J Ming, S Dhe-Paganon, HW Park, A Savchenko, A Yee, A Edwards, R Vincentelli, C Cambillau, R Kim, SH Kim, Z Rao, Y Shi, TC Terwilliger, CY Kim, LW Hung, GS Waldo, Y Peleg, S Albeck, T Unger, O Dym, J Prilusky, JL Sussman, RC Stevens, SA Lesley, IA Wilson, A Joachimiak, F Collart, I Dementieva, MI Donnelly, WH Eschenfeldt, Y Kim, L Stols, R Wu, M Zhou, SK Burley, JS Emtage, JM Sauder, D Thompson, K Bain, J Luz, T Gheyi, F Zhang, S Atwell, SC Almo, JB Bonanno, A Fiser, S Swaminathan, FW Studier, MR Chance, A Sali, TB Acton, R Xiao, L Zhao, LC Ma, JF Hunt, L Tong, K Cunningham, M Inouye, S Anderson, H Janjua, R Shastry, CK Ho, D Wang, H Wang, M Jiang, GT Montelione, DI Stuart, RJ Owens, S Daenke, A Schütz, U Heinemann, S Yokoyama, K Büssow, KC Gunsalus
    posted to structural-genomics protein expression genomics purification structure by neils on 2008-02-01 14:58:52 as ** along with 4 people hchmani Yanno jyuh dchughes
  • Structural adaptation of enzymes to low temperatures
    Protein Eng., Vol. 14, No. 3. (1 March 2001), pp. 141-148.
    by Giulio Gianese, Patrick Argos, Stefano Pascarella
    posted to enzyme adaptation for-thuber psychrophily structure thermal by neils on 2008-01-25 06:43:28 as **
  • Structural adaptation to low temperatures - analysis of the subunit interface of oligomeric psychrophilic enzymes
    FEBS Journal, Vol. 274, No. 17. (September 2007), pp. 4595-4608.
    by Tronelli, Daniele, Maugini, Elisa, Bossa, Francesco, Pascarella, Stefano
    posted to enzyme oligomeric psychrophily structure by neils on 2008-01-25 06:36:19 as **
  • Comparative structural analysis of psychrophilic and meso- and thermophilic enzymes.
    Proteins, Vol. 47, No. 2. (1 May 2002), pp. 236-249.
    by G Gianese, F Bossa, S Pascarella
    posted to enzyme protein for-thuber mesophily psychrophily structure thermal thermophily by neils on 2008-01-25 06:33:18 as **
  • Structural and genomic correlates of hyperthermostability.
    J Biol Chem, Vol. 275, No. 42. (20 October 2000), pp. 32383-32386.
    by C Cambillau, JM Claverie
    posted to for-thuber genomics hyperthermophily structure thermal by neils on 2008-01-25 06:20:01 as **
  • Genomic correlates of hyperthermostability, an update.
    J Biol Chem, Vol. 278, No. 19. (9 May 2003), pp. 17198-17202.
    by K Suhre, JM Claverie
    posted to for-thuber genomics hyperthermophily protein structure by neils on 2008-01-25 06:11:08 as ** along with 1 person aalibes
  • Accurate structural correlations from maximum likelihood superpositions
    PLoS Computational Biology, Vol. preprint, No. 2008. (1 January 2008), e43.eor.
    by Douglas L Theobald, Deborah S Wuttke
    posted to md nmr pca prediction structure by neils on 2008-01-17 23:48:31 as **
  • Conformational Switching upon Phosphorylation: A Predictive Framework Based on Energy Landscape Principles
    Biochemistry (17 January 2008)
    by J Latzer, T Shen, PG Wolynes
    posted to energy phosphorylation prediction structure by neils on 2008-01-17 23:36:50 as ** along with 2 people and 1 group sobolevnrm paulschlesinger baker-group
  • PDBML: the representation of archival macromolecular structure data in XML
    Bioinformatics, Vol. 21, No. 7. (01 April 2005), pp. 988-992.
    by Westbrook John, Ito Nobutoshi, Nakamura Haruki, Henrick Kim, M Berman
    posted to bioinformatics pdbml software structure wwpdb xml by neils on 2008-01-15 01:30:08 as ** along with 1 person and 1 group sobolevnrm baker-group
  • Prediction of enzyme function based on 3D templates of evolutionarily important amino acids
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by David Kristensen, Matthew R Ward, Andreas M Lisewski, Serkan Erdin, Brian Chen, Viacheslav Fofanov, Marek Kimmel, Lydia Kavraki, Olivier Lichtarge
    posted to enzyme bioinformatics function prediction structure by neils on 2008-01-12 01:38:13 as ** along with 1 person and 1 group sobolevnrm baker-group
  • Structure of the Human Protein Kinase MPSK1 Reveals an Atypical Activation Loop Architecture.
    Structure, Vol. 16, No. 1. (January 2008), pp. 115-124.
    by J Eswaran, A Bernad, JM Ligos, B Guinea, JE Debreczeni, F Sobott, SA Parker, R Najmanovich, BE Turk, S Knapp
    posted to activation activity kinase loop mpsk1 specificity structure by neils on 2008-01-12 01:37:14 as **
  • Autophosphorylation of Archaeoglobus fulgidus Rio2 and crystal structures of its nucleotide-metal ion complexes.
    FEBS J, Vol. 272, No. 11. (June 2005), pp. 2800-2810.
    by N LaRonde-LeBlanc, T Guszczynski, T Copeland, A Wlodawer
    posted to archaea kinase phosphorylation rio structure by neils on 2008-01-04 07:02:04 as **
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