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neils protein [96 articles]

Recent papers added to neils library classified by the tag protein. You can also see everyone's protein.
  • A Mitochondrial Protein Compendium Elucidates Complex I Disease Biology
    Cell, Vol. 134, No. 1. (11 July 2008), pp. 112-123.
    by David J Pagliarini, Sarah E Calvo, Betty Chang, Sunil A Sheth, Scott B Vafai, Shao-En Ong, Geoffrey A Walford, Canny Sugiana, Avihu Boneh, William K Chen, David E Hill, Marc Vidal, James G Evans, David R Thorburn, Steven A Carr, Vamsi K Mootha
    posted to scl protein mitochondria localisation disease complex-i bioinformatics by neils on 2008-07-11 00:27:50 as ** along with 1 person ptrobajo
  • 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 **
  • 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 **
  • A protein functional leap: how a single mutation reverses the function of the transcription regulator TetR
    Nucl. Acids Res. (28 June 2008), gkn400.
    by Marcus Resch, Harald Striegl, Eva M Henssler, Madhumati Sevvana, Claudia Egerer-Sieber, Emile Schiltz, Wolfgang Hillen, Yves A Muller
    posted to tet structure-activity repressor protein mutation by neils on 2008-06-29 04:43:08 as **
  • PURE: a webserver for the prediction of domains in unassigned regions in proteins
    BMC Bioinformatics, Vol. 9 (14 June 2008), 281.
    by Chilamakuri CS Reddy, Shameer Khader, Bernard O Offmann, Ramanthan Sowdhamini
    posted to region webserver protein prediction domain bioinformatics by neils on 2008-06-15 10:50:02 as ** along with 1 person niallhaslam
  • 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
  • AMYPdb: a database dedicated to amyloid precursor proteins
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Sandrine Pawlicki, Antony Le Bechec, Christian Delamarche
    posted to webserver protein folding database amyloid by neils on 2008-06-10 12:58:59 as **
  • Single-molecule imaging of full protein synthesis by immobilized ribosomes
    Nucl. Acids Res. (29 May 2008), gkn338.
    by Sotaro Uemura, Ryo Iizuka, Taro Ueno, Yoshihiro Shimizu, Hideki Taguchi, Takuya Ueda, Joseph D Puglisi, Takashi Funatsu
    posted to visualisation synthesis ribosome protein immobilisation by neils on 2008-05-30 04:15:14 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 **
  • Calling on a million minds for community annotation in WikiProteins
    Genome Biology, Vol. 9, No. 5. (2008)
    by Barend Mons, Michael Ashburner, Christine Chichester, Erik van Mulligen, Marc Weeber, Johan den Dunnen, Gert J van Ommen, Mark Musen, Matthew Cockerill, Henning Hermjakob, Albert Mons, Abel Packer, Roberto Pacheco, Suzanna Lewis, Alfred Berkeley, William Melton, Nickolas Barris, Jimmy Wales, Gerard Meijssen, Erik Moeller, Peter Roes, Katy Borner, Amos Bairoch
    posted to wiki protein function community annotation by neils on 2008-05-28 11:59:00 as ** along with 12 people and 1 group ChrisEvelo sjc fpattyn Katje jamselem chad_davis yas renatomilani dullhunk tharris thomaskelder AlexanderPico microbiology_nijmegen
  • Terminal proteins of Streptomyces chromosome can target DNA into eukaryotic nuclei
    Nucl. Acids Res. (14 May 2008), gkm1170.
    by Hsiu-Hui Tsai, Chih-Hung Huang, Alan M Lin, Carton W Chen
    posted to protein targeting streptomyces scl nucleus eukaryotic by neils on 2008-05-15 04:29:13 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 **
  • Predicted roles for hypothetical proteins in the low-temperature expressed proteome of the Antarctic archaeon Methanococcoides burtonii.
    Journal of proteome research, Vol. 4, No. 2. (r 2005), pp. 464-472.
    by NF Saunders, A Goodchild, M Raftery, M Guilhaus, PM Curmi, R Cavicchioli
    posted to protein psychrophily prediction methanococcoides function bioinformatics archaea antarctic by neils on 2008-05-11 10:09:25 as **
  • Improved success of sparse matrix protein crystallization screening with heterogeneous nucleating agents.
    PLoS ONE, Vol. 2, No. 10. (2007)
    by AS Thakur, G Robin, G Guncar, NF Saunders, J Newman, JL Martin, B Kobe
    posted to screen protein nucleation crystallography by neils on 2008-05-11 10:06:39 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 **
  • The Leucine-Rich Repeat Domain of Internalin B Folds along a Polarized N-Terminal Pathway
    Structure, Vol. 16 (May 2008), pp. 705-714.
    by Naomi Courtemanche, Doug Barrick
    posted to repeat protein pathway lrr leucine folding by neils on 2008-05-07 02:37:18 as **
  • Vertebrate Genomes Code Excess Proteins with Charge Periodicity of 28 Residues
    J Biochem, Vol. 143, No. 5. (1 May 2008), pp. 661-665.
    by Runcong Ke, Noriyuki Sakiyama, Ryusuke Sawada, Masashi Sonoyama, Shigeki Mitaku
    posted to sequence vertebrate protein periodicity nuclear genomics charge by neils on 2008-05-06 14:13:37 as **
  • 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 **
  • 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
  • Site-Specific Phosphorylation Profiling of Arabidopsis Proteins by Mass Spectrometry and Peptide Chip Analysis
    J. Proteome Res. (24 April 2008)
    by Sergio de la Fuente van Bentem, Dorothea Anrather, Ilse Dohnal, Elisabeth Roitinger, Edina Csaszar, Jos Joore, Joshua Buijnink, Alessandro Carreri, Celine Forzani, Zdravko J Lorkovic, Andrea Barta, David Lecourieux, Andreas Verhounig, Claudia Jonak, Heribert Hirt
    posted to protein mass-spec plant phosphorylation peptide chip arabidopsis by neils on 2008-04-24 06:46:05 as ** along with 2 people brianb cjhall
  • Pfam 10 years on: 10 000 families and still growing.
    Brief Bioinform (15 March 2008)
    by Stephen John J Sammut, Robert D D Finn, Alex Bateman
    posted to protein pfam hmm family classification by neils on 2008-04-23 13:49:11 as ** along with 2 people renatomilani dullhunk
  • Genome-wide subcellular localization of putative outer membrane and extracellular proteins in Leptospira interrogans serovar Lai genome using bioinformatics approaches
    BMC Genomics, Vol. 9, No. 1. (2008)
    by Wasna Viratyosin, Supawadee Ingsriswang, Eakasit Pacharawongsakda, Prasit Palittapongarnpim
    posted to bacteria bioinformatics genomics leptospira localisation membrane pathogen prediction protein scl secretion by neils on 2008-04-21 05:05:55 as ** along with 1 person sitake
  • Identification of Proteins Secreted by Malaria Parasite into Erythrocyte using SVM and PSSM profiles
    BMC Bioinformatics, Vol. 9, No. 1. (2008)
    by Ruchi Verma, Ajit Tiwari, Sukhwinder Kaur, Grish Varshney, Gajendra Raghava
    posted to protein bioinformatics erythrocyte machine-learning malaria prediction pssm secretion svm by neils on 2008-04-17 00:31:17 as ** along with 1 person arNQ
  • 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 **
  • 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 **
  • High-Throughput, Combinatorial Engineering of Initial Codons for Tunable Expression of Recombinant Proteins
    J. Proteome Res. (4 April 2008)
    by Jin-Ho Ahn, Jung-Won Keum, Dong-Myung Kim
    posted to protein codon expression recombinant usage by neils on 2008-04-04 07:14:07 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
  • ParCrys: a Parzen window density estimation approach to protein crystallization propensity prediction
    Bioinformatics, Vol. 24, No. 7. (1 April 2008), pp. 901-907.
    by Ian M Overton, Gianandrea Padovani, Mark A Girolami, Geoffrey J Barton
    posted to structural-genomics bioinformatics crystallography prediction propensity protein by neils on 2008-03-26 23:39:33 as **
  • 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
  • Biological roles of specific peptides in enzymes
    Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA.
    by Yasmine Meroz, David Horn
    posted to peptide bioinformatics enzyme function protein by neils on 2008-02-28 23:51:36 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
  • Amino acid composition of genomes, lifestyles of organisms, and evolutionary trends: a global picture with correspondence analysis
    Gene, Vol. 297, No. 1-2. (4 September 2002), pp. 51-60.
    by Fredj Tekaia, Edouard Yeramian, Bernard Dujon
    posted to sequence protein analysis composition correspondence evolution for-thuber genomics global thermophily by neils on 2008-01-25 06:51:06 as ** along with 1 person nagendranow
  • 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 **
  • 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
  • Comprehensive analysis of co-occurring domain sets in yeast proteins
    BMC Genomics, Vol. 8 (11 June 2007), 161.
    by Inbar Cohen-Gihon, Ruth Nussinov, Roded Sharan
    posted to protein domain co-occurrence interaction yeast by neils on 2008-01-10 05:32:08 as **
  • Statistical analysis of domains in interacting protein pairs
    Bioinformatics, Vol. 21, No. 7. (01 April 2005), pp. 993-1001.
    by MW Nye, Berzuini Carlo, R Gilks, Babu M Madan, A Teichmann
    posted to domain interaction protein statistics by neils on 2008-01-10 05:27:14 as ** along with 5 people and 1 group lfriedl chad_davis wnpx iris_2001 phoenixzxl kdl
  • Enhanced Membrane Protein Topology Prediction Using a Hierarchical Classification Method and a New Scoring Function
    J. Proteome Res. (15 December 2007)
    by Allan Lo, Hua-Sheng Chiu, Ting-Yi Sung, Ping-Chiang Lyu, Wen-Lian Hsu
    posted to protein bioinformatics membrane prediction svm by neils on 2007-12-15 07:22:26 as **
  • Statistical analysis of the physical properties of the 20 naturally occurring amino acids
    Journal of Protein Chemistry, Vol. 4, No. 1. (1 February 1985), pp. 23-55.
    by Akinori Kidera, Yasuo Konishi, Masahito Oka, Tatsuo Ooi, Harold A Scheraga
    posted to sequence protein amino-acid statistics by neils on 2007-12-11 06:54:52 as **
  • Predicting gene ontology functions from protein's regional surface structures
    BMC Bioinformatics, Vol. 8, No. 1. (2007)
    by Zhi P Liu, Ling Y Wu, Yong Wang, Luonan Chen, Xiang S Zhang
    posted to protein function ontology prediction structure by neils on 2007-12-11 06:25:59 as ** along with 2 people carlk tjimenez
  • Analyzing protein function on a genomic scale: the importance of gold-standard positives and negatives for network prediction.
    Curr Opin Microbiol, Vol. 7, No. 5. (October 2004), pp. 535-545.
    by R Jansen, M Gerstein
    posted to network protein bioinformatics prediction by neils on 2007-12-10 00:09:13 as ** along with 5 people and 2 groups carlk okarsligil lfriedl wnpx grahamc kdl Bioinformatics
  • Computational methods for protein-protein interaction and their application.
    Curr Protein Pept Sci, Vol. 6, No. 5. (October 2005), pp. 443-449.
    by TL Shi, YX Li, YD Cai, KC Chou
    posted to network protein bioinformatics interaction prediction by neils on 2007-12-10 00:07:11 as ** along with 1 person bicko
  • Refining Protein Subcellular Localization
    PLoS Computational Biology, Vol. 1, No. 6. (1 November 2005), e66.
    by Michelle S Scott, Sara J Calafell, David Y Thomas, Michael T Hallett
    posted to protein bioinformatics localisation prediction subcellular by neils on 2007-12-07 08:36:11 as ** along with 2 people and 1 group dolhuis grahamc SNE
  • A new computational approach to analyze human protein complexes and predict novel protein interactions
    Genome Biology, Vol. 8, No. 12. (2007)
    by Sara Zanivan, Ilaria Cascone, Chiara Peyron, Ivan Molineris, Serena Marchio, Michele Caselle, Federico Bussolino
    posted to bioinformatics interaction kinase p21-activated prediction protein by neils on 2007-12-05 01:24:31 as ** along with 2 people grahamc barriot
  • Protein kinase specificity. A strategic collaboration between kinase peptide specificity and substrate recruitment.
    Cell Cycle, Vol. 4, No. 1. (Jan 2005), pp. 52-56.
    by Guozhi Zhu, Yin Liu, Stephen Shaw
    posted to human kinase amino-acid activation article-predikin enzyme fragments interaction mapping peptide phosphorylation protein sequence signal specificity substrate transduction by neils on 2007-12-04 03:22:14 as **
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