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Tag binding [746 articles]

Articoli recentemente classificati sotto il tag binding.
  • Kinetic evidence for a ligand-binding-induced conformational transition in the T cell receptor
    Proceedings of the National Academy of Sciences, Vol. 104, No. 42. (16 October 2007), pp. 16639-16644.
    by Dmitry M Gakamsky, Erwin Lewitzki, Ernst Grell, Xavier Saulquin, Bernard Malissen, Felix Montero-Julian, Marc Bonneville, Israel Pecht
    posted to binding protein purification structure by zwang on 2007-10-22 05:49:11 as *
  • A Nucleosome-Guided Map of Transcription Factor Binding Sites in Yeast
    PLoS Computational Biology, Vol. 3, No. 11. (1 November 2007), e215.
    by Leelavati Narlikar, Raluca Gordân, Alexander J Hartemink
    posted to binding site transcription yeast by zwang on 2007-12-10 04:30:58 as *** along with 5 people ihpark aalibes nklee maximilianh megraw
  • Specific binding of a Pop6/Pop7 heterodimer to the P3 stem of the yeast RNase MRP and RNase P RNAs
    RNA (23 August 2007), rna.654407.
    by Anna Perederina, Olga Esakova, Hasan Koc, Mark E Schmitt, Andrey S Krasilnikov
    posted to binding domain rna rnasep site yeast by zwang on 2007-09-02 07:31:22 as *****
  • Evolution of Function in the “Two Dinucleotide Binding Domains” Flavoproteins
    PLoS Computational Biology, Vol. 3, No. 7. (1 July 2007), e121.
    by Sunil Ojha, Elaine C Meng, Patricia C Babbitt
    posted to binding domain evolution interaction protein site by zwang on 2007-08-29 02:31:54 as *** along with 3 people and 2 groups barry Einat mdimon structural_bioinformatics Bioinformatics
  • High-throughput identification of Interacting Protein-Protein Binding Sites
    BMC Bioinformatics, Vol. 8 (27 June 2007), 223.
    by Jo-Lan Chung, Wei Wang, Philip E Bourne
    posted to binding interaction prediction protein site svm by zwang on 2007-08-27 08:57:42 as ***** along with 3 people and 1 group bicko grahamc Evangelia ParkinsonLab_at_MaRS
  • A threading-based method (FINDSITE) for ligand-binding site prediction and functional annotation
    Proceedings of the National Academy of Sciences (28 December 2007), 0707684105.
    by Michal Brylinski, Jeffrey Skolnick
    posted to annotation binding prediction site structure threading by zwang on 2008-01-10 01:30:18 as ** along with 1 person cjeans
  • The Modular Organization of Domain Structures: Insights into Protein–Protein Binding
    PLoS Computational Biology, Vol. 3, No. 12. (1 December 2007), e239.
    by Del, Pablo Carbonell
    posted to binding domain protein structure by zwang on 2007-12-08 08:54:46 as ** along with 9 people carlk bicko chad_davis choonpeng grahamc cjeans niallhaslam biehl marti
  • PDZ Domain Binding Selectivity Is Optimized Across the Mouse Proteome
    Science, Vol. 317, No. 5836. (20 July 2007), pp. 364-369.
    by Michael A Stiffler, Jiunn R Chen, Viara P Grantcharova, Ying Lei, Daniel Fuchs, John E Allen, Lioudmila A Zaslavskaia, Gavin Macbeath
    posted to binding domain genome interaction proteome by zwang on 2007-07-23 07:12:01 as **** along with 2 people phoenixzxl carlk
  • Frequent Gain and Loss of Functional Transcription Factor Binding Sites
    PLoS Computational Biology, Vol. 3, No. 5. (1 May 2007), e99.
    by Scott W Doniger, Justin C Fay
    posted to binding evolution site transcription by zwang on 2007-05-26 04:59:51 as **** along with 7 people and 2 groups emptyhb brant dpollard sebastien_vigneau maximilianh cisevol xili03 EisenLab cis-regulatory-evolution
  • Exploiting residue-level and profile-level interface propensities for usage in binding sites prediction of proteins
    BMC Bioinformatics, Vol. 8 (05 May 2007), 147.
    by Qiwen Dong, Xiaolong Wang, Lei Lin, Yi Guan
    posted to binding interface prediction profile protein residue by zwang on 2007-05-06 09:28:10 as **** along with 2 people marti bicko
  • 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 structure protein binding by zwang on 2008-08-14 07:25:41 as *
  • Rational design of a novel calcium-binding site adjacent to the ligand-binding site on CD2 increases its CD48 affinity
    Protein Sci, Vol. 17, No. 3. (1 March 2008), pp. 439-449.
    by Lisa M Jones, Wei Yang, Anna W Maniccia, Alice Harrison, Anton P van der Merwe, Jenny J Yang
    posted to binding design immunity site by zwang on 2008-02-22 12:51:20 as **
  • Divergence of Transcription Factor Binding Sites Across Related Yeast Species
    Science, Vol. 317, No. 5839. (10 August 2007), pp. 815-819.
    by Anthony R Borneman, Tara A Gianoulis, Zhengdong D Zhang, Haiyuan Yu, Joel Rozowsky, Michael R Seringhaus, Lu Y Wang, Mark Gerstein, Michael Snyder
    posted to binding divergence site transcription yeast by zwang on 2007-08-13 07:21:50 as *** along with 16 people and 2 groups anka nklee aalibes chad_davis dpollard djkt mikaelhuss lusk cjeans sujaikumar GustavoLacerda Jporci maximilianh cisevol njcitulike emptyhb EisenLab cis-regulatory-evolution
  • An Approach to Predict Transcription Factor DNA Binding Site Specificity Based upon Gene and Transcription Factor Functional Categorization
    Bioinformatics (10 July 2007), btm348.
    by Ziliang Qian, Lingyi Lu, Xiaojun Liu, Yu-Dong Cai, Yixue Li
    posted to binding dna gene prediction site transcription by zwang on 2007-08-15 03:43:07 as *** along with 1 person xili03
  • Binding Site Graphs: A New Graph Theoretical Framework for Prediction of Transcription Factor Binding Sites
    PLoS Computational Biology, Vol. 3, No. 5. (1 May 2007), e90.
    by Timothy E Reddy, Charles Delisi, Boris E Shakhnovich
    posted to binding prediction transcription by zwang on 2007-05-12 10:40:13 as *****
  • Conformation selectivity in the binding of diazepam and analogues to alpha1-acid glycoprotein.
    Bioorg Med Chem, Vol. 15, No. 14. (15 July 2007), pp. 4857-4862.
    by I Fitos, J Visy, F Zsila, G Mády, M Simonyi
    posted to alpha1-acid benzodiazepine binding circular conformation diazepam dichroism genetic glycoprotein induced protein variants by zsferi on 2008-03-01 00:36:37 as read
  • Information content of binding sites on nucleotide sequences.
    J Mol Biol, Vol. 188, No. 3. (5 April 1986), pp. 415-431.
    by TD Schneider, GD Stormo, L Gold, A Ehrenfeucht
    posted to information binding by zambujo on 2008-05-26 11:00:09 as *** along with 1 person evaf
  • Specificity, free energy and information content in protein-DNA interactions
    Trends in Biochemical Sciences, Vol. 23, No. 3. (1 March 1998), pp. 109-113.
    by Gary D Stormo, Dana S Fields
    posted to information binding by zambujo on 2008-05-26 10:53:20 as *** along with 1 person brant
  • notes The design of transcription-factor binding sites is affected by combinatorial regulation.
    Genome Biol, Vol. 6, No. 12. (2005)
    by Y Bilu, N Barkai
    posted to binding site by xili03 on 2008-01-18 13:02:51 as ** along with 7 people and 1 group chrn dpollard tabu samal adepace lewbin nklee EisenLab
  • Chromophore Channeling in the G-Protein Coupled Receptor Rhodopsin.
    J Am Chem Soc (15 May 2007)
    by Ting Wang, Yong Duan
    posted to activation agonist amber binding ligands md modeling rhodopsin by xdeupi on 2007-05-21 10:04:04 as ***** along with 1 group LabCompMed
  • Cation-pi interactions in chemistry and biology: a new view of benzene, Phe, Tyr, and Trp.
    Science, Vol. 271, No. 5246. (12 January 1996), pp. 163-168.
    by DA Dougherty
    posted to trp cation-pi binding by xdeupi on 2007-01-12 17:18:14 as ** along with 4 people and 1 group medic0747 netterpaladin superpyrin viktor21614 LabCompMed
  • Recruitment of beta-arrestin2 to the dopamine D2 receptor: Insights into anti-psychotic and anti-parkinsonian drug receptor signaling.
    Neuropharmacology (8 April 2008)
    by Ib V V Klewe, Søren M M Nielsen, Louise Tarpø, Eneko Urizar, Concetta Dipace, Jonathan A A Javitch, Ulrik Gether, Jan Egebjerg, Kenneth V V Christensen
    posted to pharmacology internalization imaging fluorescence disease binding biased_agonism arrestin agonist active-state activation by xdeupi on 2008-05-13 16:24:49 as **
  • The first extracellular loop of the Saccharomyces cerevisiae GPCR STE2P undergoes a conformational change upon ligand binding.
    J Biol Chem (9 February 2007)
    by Melinda Hauser, Sarah Kauffman, Byung-Kwon K Lee, Fred Naider, Jeffrey M M Becker
    posted to activation binding gpcr loops by xdeupi on 2007-02-20 10:09:06 as ** along with 1 group LabCompMed
  • Structural models of class a g protein-coupled receptors as a tool for drug design: insights on transmembrane bundle plasticity.
    Curr Top Med Chem, Vol. 7, No. 10. (2007), pp. 999-1006.
    by X Deupi Nicole Dölker María Luz López-Rodríguez Mercedes Campillo Juan A Ballesteros And Leonardo Pardo, N Dölker, ML López-Rodríguez, M Campillo, JA Ballesteros, L Pardo
    posted to binding gpcr modeling plasticity structure by xdeupi on 2007-05-28 08:51:54 as ** along with 1 group LabCompMed
  • A chemogenomic analysis of the transmembrane binding cavity of human G-protein-coupled receptors.
    Proteins, Vol. 62, No. 2. (1 February 2006), pp. 509-538.
    by JS Surgand, J Rodrigo, E Kellenberger, D Rognan
    posted to binding gpcr ligands transmembrane by xdeupi on 2006-03-01 16:33:01 as ***** along with 1 group LabCompMed
  • Linking agonist binding to histamine H1 receptor activation
    Nat Chem Biol, Vol. 1, No. 2. (July 2005), pp. 98-103.
    by Aldo Jongejan, Martijn Bruysters, Juan A Ballesteros, Eric Haaksma, Remko A Bakker, Leonardo Pardo, Rob Leurs
    posted to activation agonist binding histamine n745 npxxy by xdeupi on 2005-11-01 01:19:58 as read along with 1 group LabCompMed
  • notes The forgotten serine. A critical role for Ser-2035.42 in ligand binding to and activation of the beta 2-adrenergic receptor.
    J Biol Chem, Vol. 275, No. 48. (1 December 2000), pp. 37779-37788.
    by G Liapakis, JA Ballesteros, S Papachristou, WC Chan, X Chen, JA Javitch
    posted to activation agonist b2ar binding s542 ser tm5 by xdeupi on 2005-11-01 01:02:07 as ** along with 1 group LabCompMed
  • The binding site of aminergic G protein-coupled receptors: the transmembrane segments and second extracellular loop.
    Annu Rev Pharmacol Toxicol, Vol. 42 (2002), pp. 437-467.
    by L Shi, JA Javitch
    posted to agonist binding ecl2 gpcr helix loops transmembrane by xdeupi on 2005-11-01 01:00:19 as ** along with 1 person and 1 group IrinaMoreira LabCompMed
  • notes Chloroethylclonidine and 2-aminoethyl methanethiosulfonate recognize two different conformations of the human alpha(2A)-adrenergic receptor.
    J Biol Chem, Vol. 274, No. 31. (30 July 1999), pp. 21867-21872.
    by A Marjamäki, H Frang, M Pihlavisto, AM Hoffrén, T Salminen, MS Johnson, J Kallio, JA Javitch, M Scheinin
    posted to activation binding cys_scanning drug ligands tm5 by xdeupi on 2008-03-07 15:14:37 as ** along with 1 group LabCompMed
  • GluVII:06--a highly conserved and selective anchor point for non-peptide ligands in chemokine receptors.
    Curr Top Med Chem, Vol. 6, No. 13. (2006), pp. 1319-1333.
    by MM Rosenkilde, TW Schwartz
    posted to modeling ligands ionic chemokine binding agonist by xdeupi on 2007-01-10 14:45:13 as ** along with 1 group LabCompMed
  • Sequential binding of agonists to the beta2 adrenoceptor. Kinetic evidence for intermediate conformational states.
    J Biol Chem, Vol. 279, No. 1. (2 January 2004), pp. 686-691.
    by G Swaminath, Y Xiang, TW Lee, J Steenhuis, C Parnot, BK Kobilka
    posted to activation agonist b2ar binding ligands tm6 by xdeupi on 2005-12-16 10:19:18 as read along with 1 person and 1 group jddowney LabCompMed
  • Identification of an agonist-induced conformational change occurring adjacent to the ligand-binding pocket of the M(3) muscarinic acetylcholine receptor.
    J Biol Chem, Vol. 280, No. 41. (14 October 2005), pp. 34849-34858.
    by SJ Han, FF Hamdan, SK Kim, KA Jacobson, LM Bloodworth, B Li, J Wess
    posted to ligands cation-pi binding agonist by xdeupi on 2007-01-15 16:08:15 as ** along with 1 group LabCompMed
  • Critical role for the second extracellular loop in the binding of both orthosteric and allosteric G protein-coupled receptor ligands.
    J Biol Chem (25 June 2007)
    by Vimesh A A Avlani, Karen J J Gregory, Craig J J Morton, Michael W W Parker, Patrick M M Sexton, Arthur Christopoulos
    posted to activation binding ecl2 ligands loops structure by xdeupi on 2007-06-29 21:12:42 as ** along with 1 group LabCompMed
  • Principal pathway coupling agonist binding to channel gating in nicotinic receptors
    Nature, Vol. 438, No. 7065. (10 November 2005), pp. 243-247.
    by Won Y Lee, Steven M Sine
    posted to activation agonist binding channel ser by xdeupi on 2006-01-27 12:32:01 as ** along with 1 person and 3 groups barry structural_bioinformatics Bioinformatics LabCompMed
  • Multiple residues in the second extracellular loop are critical for M3 muscarinic acetylcholine receptor activation.
    J Biol Chem, Vol. 282, No. 10. (9 March 2007), pp. 7385-7396.
    by M Scarselli, B Li, SK Kim, J Wess
    posted to activation amine binding ecl2 loops mutation by xdeupi on 2007-04-23 10:28:29 as **** along with 1 person and 1 group IrinaMoreira LabCompMed
  • The Cationminus signpi Interaction.
    Chem Rev, Vol. 97, No. 5. (5 August 1997), pp. 1303-1324.
    by Jennifer C Ma, Dennis A Dougherty
    posted to trp ligands histamine cation-pi binding b2ar by xdeupi on 2007-01-11 14:28:54 as ** along with 1 group LabCompMed
  • Evolutionary trace of G protein-coupled receptors reveals clusters of residues that determine global and class-specific functions.
    J Biol Chem, Vol. 279, No. 9. (27 February 2004), pp. 8126-8132.
    by S Madabushi, AK Gross, A Philippi, EC Meng, TG Wensel, O Lichtarge
    posted to activation binding gpcr sequence switch by xdeupi on 2005-11-01 20:03:29 as read along with 2 people and 1 group gbart sriram_s LabCompMed
  • Possible role of the 11-cis-retinyl conformation in controlling the dual decay processes of excited rhodopsin.
    Proc Natl Acad Sci U S A, Vol. 102, No. 31. (2 August 2005), pp. 10783-10787.
    by RS Liu, GS Hammond, T Mirzadegan
    posted to activation binding gpcr rhodopsin by xdeupi on 2005-11-01 19:48:57 as *** along with 1 group LabCompMed
  • Novel mutants of the human beta1-adrenergic receptor reveal amino acids relevant for receptor activation.
    J Biol Chem, Vol. 281, No. 26. (30 June 2006), pp. 18120-18125.
    by B Behr, C Hoffmann, G Ottolina, KN Klotz
    posted to activation agonist b2ar binding drug ligands modeling mutation pharmacology structure by xdeupi on 2006-09-05 11:05:20 as *** along with 1 group LabCompMed
  • Molecular evolution of adrenoceptors and dopamine receptors: implications for the binding of catecholamines.
    J Med Chem, Vol. 49, No. 5. (9 March 2006), pp. 1706-1719.
    by H Xhaard, VV Rantanen, T Nyrönen, MS Johnson
    posted to agonist b2ar binding gpcr ligands modeling by xdeupi on 2006-03-06 10:11:30 as **** along with 1 group LabCompMed
  • Agonist binding: a multistep process.
    Mol Pharmacol, Vol. 65, No. 5. (May 2004), pp. 1060-1062.
    by B Kobilka
    posted to activation agonist b2ar binding gpcr by xdeupi on 2005-11-02 22:50:37 as ** along with 1 group LabCompMed
  • Role of the retinal hydrogen bond network in rhodopsin Schiff base stability and hydrolysis.
    J Biol Chem, Vol. 279, No. 53. (31 December 2004), pp. 55886-55894.
    by JM Janz, DL Farrens
    posted to activation binding rhodopsin by xdeupi on 2006-05-29 11:58:42 as **** along with 1 group LabCompMed
  • Systematic analysis of the entire second extracellular loop of the V1a vasopressin receptor: Key residues, conserved throughout a G-protein-coupled receptor family, identified.
    J Biol Chem (2 April 2007)
    by Matthew Conner, Stuart R R Hawtin, John Simms, Denise L L Wootten, Zoe Lawson, Alex C C Conner, Rosemary A A Parslow, Mark Wheatley
    posted to activation amine binding ecl2 gpcr loops by xdeupi on 2007-04-10 18:59:06 as ***** along with 1 group LabCompMed
  • Identification of the Binding Sites of the SR49059 Nonpeptide Antagonist into the V1a Vasopressin Receptor Using Sulfydryl-reactive Ligands and Cysteine Mutants as Chemical Sensors
    J. Biol. Chem., Vol. 278, No. 41. (10 October 2003), pp. 40010-40019.
    by Chouaib Tahtaoui, Marie-Noelle Balestre, Philippe Klotz, Didier Rognan, Claude Barberis, Bernard Mouillac, Marcel Hibert
    posted to binding cys_scanning peptide vasopressin by xdeupi on 2008-02-28 16:16:02 as **
  • Chemogenomic approaches to rational drug design
    Br J Pharmacol, Vol. 152, No. 1. (29 May 2007), pp. 38-52.
    by D Rognan
    posted to agonist binding drug ligands pharmacology priviledged_structures by xdeupi on 2008-03-28 15:54:47 as ** along with 4 people and 3 groups tjimenez jyuh jmrivort jerome_ucsf_slb LabCompMed G-quadruplex Supramolecular
  • Modeling and active site refinement for G protein-coupled receptors: application to the beta-2 adrenergic receptor.
    J Comput Aided Mol Des (13 October 2006)
    by Stanley R Krystek, S R Kimura, Andrew J Tebben
    posted to b2ar binding drug ligands modeling pharmacology by xdeupi on 2006-10-27 09:43:03 as ** along with 1 person and 1 group daevans LabCompMed
  • Changes in interhelical hydrogen bonding upon rhodopsin activation.
    J Mol Biol, Vol. 347, No. 4. (8 April 2005), pp. 803-812.
    by AB Patel, E Crocker, PJ Reeves, EV Getmanova, M Eilers, HG Khorana, SO Smith
    posted to activation b2ar binding hbond helix ligands nmr pro-kink rhodopsin ser structure switch tm5 tm6 toggle by xdeupi on 2006-06-01 13:51:11 as read along with 1 group LabCompMed
  • Data-Driven Analysis in Drug Discovery
    Journal of Receptors and Signal Transduction, Vol. 26, No. 4. (August 2006), pp. 299-327.
    by Terry Kenakin
    posted to agonist binding drug ligands pharmacology by xdeupi on 2006-07-17 16:28:05 as **** along with 1 group LabCompMed
  • Integrated Assessment and Prediction of Transcription Factor Binding
    PLoS Computational Biology, Vol. 2, No. 6. (1 June 2006), e70.
    by Andreas Beyer, Christopher Workman, Jens Hollunder, Dörte Radke, Ulrich Möller, Thomas Wilhelm, Trey Ideker
    posted to binding bioinformatics factor probabilistic transcription by wnpx on 2006-11-07 06:02:42 as ** along with 6 people and 1 group jfr balajis emilyhare samal reidy Ao_Li2007 EisenLab
  • Cellular actions of the insulin-like growth factor binding proteins.
    Endocr Rev, Vol. 23, No. 6. (December 2002), pp. 824-854.
    by SM Firth, RC Baxter
    posted to binding factor growth igfbp insulin-like proteins by wirawan on 2008-03-14 15:10:03 as ** along with 1 person afroze
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