jteyra's library 65 articles Export

	PepX: a structural database of non-redundant protein-peptide complexes. [My Copy] Nucleic acids research (30 October 2009) by Peter Vanhee, Joke Reumers, Francois Stricher, et al.Lies Baeten, Luis Serrano, Joost Schymkowitz, Frederic Rousseau posted to scowlp peptide by jteyra on 2009-11-04 13:15:33 as
	On the Contribution of Water-Mediated Interactions to Protein-Complex Stability† [My Copy] Biochemistry, Vol. 47, No. 3. (1 January 2008), pp. 1051-1060. by Dana Reichmann, Yael Phillip, Asaf Carmi, Gideon Schreiber posted to water_bioexample by jteyra on 2009-08-27 10:39:44 as
	NMR evidence of charge-dependent interaction between various PND V3 and CCR5 N-terminal peptides. [My Copy] Biopolymers, Vol. 92, No. 2. (2009), pp. 94-109. by P. A. Galanakis, N. G. Kandias, A. K. Rizos, D. Morikis, E. Krambovitis, G. A. Spyroulias posted to ccr5 il16 terminal by jteyra on 2009-07-08 17:37:37 as
	Pattern and Temporal Sequence of Sulfation of CCR5 N-Terminal Peptides by Tyrosylprotein Sulfotransferase-2: An Assessment of the Effects of N-Terminal Residues [My Copy] Biochemistry, Vol. 48, No. 23. (16 June 2009), pp. 5332-5338. by Connie H. Jen, Kevin L. Moore, Julie A. Leary posted to ccr5 il16 terminal by jteyra on 2009-07-08 17:36:54 as
	Mechanism of coupled folding and binding of an intrinsically disordered protein [My Copy] Nature, Vol. 447, No. 7147. (23 May 2007), pp. 1021-1025. by Kenji Sugase, H. Jane Dyson, Peter E. Wright posted to disorder folding-binding by jteyra on 2009-04-01 11:49:07 as along with 8 people chemrahul82 ubcg08l ibuch cjeans allmensch amwands hsekiguc cactus
	Merging chemical and biological space: Structural mapping of enzyme binding pocket space [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 76, No. 2. (1 August 2009), pp. 317-330. by Nils Weskamp, Eyke Hüllermeier, Gerhard Klebe posted to scowlp_pbr by jteyra on 2009-02-23 13:48:42 as along with 3 people and 1 group nanonan sobolevnrm richardbickerton baker-group
	Intrinsically Disordered p53 Extreme C-Terminus Binds to S100B(ββ) through “Fly-Casting” [My Copy] Journal of the American Chemical Society, Vol. 131, No. 6. (18 February 2009), pp. 2088-2089. by Jianhan Chen posted to remd_cterm by jteyra on 2009-02-02 13:01:43 as along with 1 person chemrahul82
	Structurally Analogous Proteins Do Exist! [My Copy] Structure, Vol. 12, No. 7. (July 2004), pp. 1125-1127. by S. Krishna, N. Grishin posted to scowlp_pbr straln_nonseq by jteyra on 2009-01-20 18:21:02 as
	PocketMatch: A new algorithm to compare binding sites in protein structures [My Copy] BMC Bioinformatics, Vol. 9, No. 1. (2008), 543. by Kalidas Yeturu, Nagasuma Chandra posted to scowlp_pbr software by jteyra on 2009-01-08 10:09:01 as along with 9 people and 1 group cdsouthan nanonan pauldobson sobolevnrm kshameer reyez tny higueruelo druvus baker-group
	Peptide-mediated interactions in biological systems: new discoveries and applications. [My Copy] Current opinion in biotechnology (1 July 2008) by Evangelia Petsalaki, Robert B B. Russell posted to peptide scowlp_db by jteyra on 2008-10-19 11:43:24 as along with 2 people zdai chad_davis
	Computational analysis and prediction of the binding motif and protein interacting partners of the Abl SH3 domain. [My Copy] PLoS Comput Biol, Vol. 2, No. 1. (January 2006) by T. Hou, K. Chen, W. A. McLaughlin, B. Lu, W. Wang posted to example mm_pbsa by jteyra on 2008-08-28 14:38:48 as along with 4 people neils carlescorbi Evangelia biehl
	A structural perspective on protein-protein interactions. [My Copy] Curr Opin Struct Biol, Vol. 14, No. 3. (June 2004), pp. 313-324. by R. B. Russell, F. Alber, P. Aloy, et al.F. P. Davis, D. Korkin, M. Pichaud, M. Topf, A. Sali posted to ppi review by jteyra on 2008-08-28 11:13:12 as along with 13 people and 1 group baaden bicko anita chad_davis dgront sriram_s ruvido cjeans Evangelia Pao-Yang marti higueruelo timg structure-bii
	Rapid retrieval of protein structures from databases [My Copy] Drug Discovery Today, Vol. 12, No. 17-18. (September 2007), pp. 732-739. by Zeyar Aung, Kian-Lee Tan posted to review straln_sse by jteyra on 2008-08-28 11:05:21 as along with 2 people yuslinaz nigham
	Method for comparing the structures of protein ligand-binding sites and application for predicting protein-drug interactions [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA. by Ryoichi Minai, Yo Matsuo, Hiroyuki Onuki, Hiroshi Hirota posted to binding software straln_br by jteyra on 2008-08-22 16:23:21 as along with 6 people reyez ramensky tjimenez massivemayhem mingzhi higueruelo
	Chemokine:Receptor Structure, Interactions, and Antagonism [My Copy] Annual Review of Immunology, Vol. 25, No. 1. (2007), pp. 787-820. by Samantha J. Allen, Susan E. Crown, Tracy M. Handel posted to ccr5_tys tys by jteyra on 2008-08-22 13:52:07 as along with 1 person HugoMarcelo
	LINCS: A linear constraint solver for molecular simulations [My Copy] Journal of Computational Chemistry, Vol. 18, No. 12. (1997), pp. 1463-1472. by Berk Hess, Henk Bekker, Herman J. C. Berendsen, Johannes G. E. M. Fraaije posted to gromacs by jteyra on 2008-08-20 10:44:48 as along with 9 people kjell loison parnell r2s2 dsmueller mijam A_Coletta_Thesis tji ashaytan
	A smooth particle mesh Ewald method [My Copy] The Journal of Chemical Physics, Vol. 103, No. 19. (1995), pp. 8577-8593. by Ulrich Essmann, Lalith Perera, Max L. Berkowitz, Tom Darden, Hsing Lee, Lee G. Pedersen posted to gromacs by jteyra on 2008-08-20 10:44:22 as along with 15 people and 2 groups jmparks rpetrenko A_Coletta_Thesis r2s2 charris5 pavanghatty sobolevnrm choonpeng lillekatt and_ped10 easybakemuffin RamuAnandakrishnan ashaytan mikaellund 6rheology Structural Biology Group TorVergata baker-group
	Molecular dynamics with coupling to an external bath [My Copy] The Journal of Chemical Physics, Vol. 81, No. 8. (1984), pp. 3684-3690. by H. J. C. Berendsen, J. P. M. Postma, W. F. van Gunsteren, A. Dinola, J. R. Haak posted to gromacs by jteyra on 2008-08-20 10:43:44 as along with 12 people and 1 group georgwachter A_Coletta_Thesis rdf r2s2 dsmueller Lombardo_7 gsub lillekatt allmensch jwagoner tji choonpeng Structural Biology Group TorVergata
	Protein-protein recognition and interaction hot spots in an antigen-antibody complex: free energy decomposition identifies "efficient amino acids". [My Copy] Proteins, Vol. 67, No. 2. (1 May 2007), pp. 418-434. by Virginie Lafont, Michael Schaefer, Roland H. Stote, Danièle Altschuh, Annick Dejaegere posted to decomposition mm_pbsa by jteyra on 2008-08-19 09:30:49 as along with 2 people flbarroso higueruelo
	Can correlated mutations in protein domain families be used for protein design? [My Copy] Brief Bioinform, Vol. 2, No. 3. (1 January 2001), pp. 279-288. by Sylvia B. Nagl posted to correlated_mutations by jteyra on 2008-08-19 09:28:52 as along with 1 person Lombardo_7
	The prediction of protein contacts from multiple sequence alignments. [My Copy] Protein Eng, Vol. 9, No. 11. (November 1996), pp. 941-948. by D. J. Thomas, G. Casari, C. Sander posted to correlated_mutations by jteyra on 2008-08-19 09:23:36 as along with 1 person gbart
	Structural Basis of Human Triosephosphate Isomerase Deficiency: MUTATION E104D IS RELATED TO ALTERATIONS OF A CONSERVED WATER NETWORK AT THE DIMER INTERFACE [My Copy] J. Biol. Chem., Vol. 283, No. 34. (22 August 2008), pp. 23254-23263. by Claudia Rodriguez-Almazan, Rodrigo Arreola, David Rodriguez-Larrea, et al.Beatriz Aguirre-Lopez, Marietta T. de Gomez-Puyou, Ruy Perez-Montfort, Miguel Costas, Armando Gomez-Puyou, Alfredo Torres-Larios posted to water_bioexample water_interface by jteyra on 2008-08-15 15:29:46 as
	Recognition of a CXCR4 Sulfotyrosine by the Chemokine Stromal Cell-derived Factor-1[alpha] (SDF-1[alpha]/CXCL12) [My Copy] Journal of Molecular Biology, Vol. 359, No. 5. (23 June 2006), pp. 1400-1409. by Christopher T. Veldkamp, Christoph Seibert, Francis C. Peterson, Thomas P. Sakmar, Brian F. Volkman posted to cxcr4 tys by jteyra on 2008-08-15 11:42:01 as
	CXCR4-CCR5: A couple modulating T cell functions. [My Copy] Proceedings of the National Academy of Sciences of the United States of America (15 July 2008) by Rita Lucia L. Contento, Barbara Molon, Cedric Boularan, et al.Tullio Pozzan, Santos Manes, Stefano Marullo, Antonella Viola posted to ccr5_cxcr4_binding by jteyra on 2008-08-15 10:36:00 as along with 1 person shimi002
	Identification of protein interaction partners and protein-protein interaction sites [My Copy] Journal of Molecular Biology, Vol. In Press, Accepted Manuscript by Sophie Sacquin-Mora, Alessandra Carbone, Richard Lavery posted to ppi_homology ppi_quaternary software by jteyra on 2008-08-12 08:41:38 as along with 2 people guhjy kluck
	Peptide Folding: When Simulation Meets Experiment [My Copy] Angewandte Chemie International Edition, Vol. 38, No. 1-2. (1999), pp. 236-240. by Xavier Daura, Karl Gademann, Bernhard Jaun, Dieter Seebach, Wilfred F. van Gunsteren, Alan E. Mark posted to remd_dauraalg by jteyra on 2008-08-08 10:55:19 as along with 2 people dsmueller Diego_Prada
	Crystal structure of GRIP1 PDZ6-peptide complex reveals the structural basis for class II PDZ target recognition and PDZ domain-mediated multimerization. [My Copy] The Journal of biological chemistry, Vol. 278, No. 10. (7 March 2003), pp. 8501-8507. by Y. J. Im, S. H. Park, S. H. Rho, et al.J. H. Lee, G. B. Kang, M. Sheng, E. Kim, S. H. Eom posted to pdz_dimer pdz_peptide by jteyra on 2008-08-06 16:52:38 as
	DiMoVo: a Voronoi tessellation-based method for discriminating crystallographic and biological protein-protein interactions. [My Copy] Bioinformatics (Oxford, England), Vol. 24, No. 5. (1 March 2008), pp. 652-658. by Julie Bernauer, Ranjit Prasad P. Bahadur, Francis Rodier, Joël Janin, Anne Poupon posted to packing ppi software by jteyra on 2008-08-06 10:19:40 as along with 3 people kintoki higueruelo bicko
	MolProbity: all-atom contacts and structure validation for proteins and nucleic acids. [My Copy] Nucleic Acids Res, Vol. 35, No. Web Server issue. (1 July 2007) by I. W. Davis, A. Leaver-Fay, V. B. Chen, et al.J. N. Block, G. J. Kapral, X. Wang, L. W. Murray, W. B. Arendall, J. Snoeyink, J. S. Richardson, D. C. Richardson posted to modeling_check noncovalent_bonds by jteyra on 2008-08-06 09:43:04 as along with 1 person jwm
	Integration of small angle X-ray scattering data into structural modeling of proteins and their assemblies [My Copy] Journal of Molecular Biology, Vol. In Press, Accepted Manuscript by Friedrich Förster, Benjamin Webb, Kristin A. Krukenberg, Hiro Tsuruta, David A. Agard, Andrej Sali posted to ppi_quaternary by jteyra on 2008-08-05 14:38:00 as along with 1 person noraziz
	NOXclass: prediction of protein-protein interaction types. [My Copy] BMC Bioinformatics, Vol. 7 (2006) by H. Zhu, F. S. Domingues, I. Sommer, T. Lengauer posted to packing ppi software by jteyra on 2008-08-04 11:04:40 as along with 4 people bicko chad_davis conkymacro marti
	Improving accuracy and efficiency of blind protein-ligand docking by focusing on predicted binding sites [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA. by Dario Ghersi, Roberto Sanchez posted to docking_scowlp by jteyra on 2008-08-04 10:12:10 as
	PROSITE: A documented database using patterns and profiles as motif descriptors [My Copy] Brief Bioinform, Vol. 3, No. 3. (1 January 2002), pp. 265-274. by Christian J. A. Sigrist, Lorenzo Cerutti, Nicolas Hulo, et al.Alexandre Gattiker, Laurent Falquet, Marco Pagni, Amos Bairoch, Philipp Bucher posted to prosite protein_domains by jteyra on 2008-07-30 08:25:03 as along with 4 people nlapalu jwm siebertm shung
	CDD: a curated Entrez database of conserved domain alignments. [My Copy] Nucleic Acids Res, Vol. 31, No. 1. (1 January 2003), pp. 383-387. by A. Marchler-Bauer, J. B. Anderson, C. DeWeese-Scott, et al.N. D. Fedorova, L. Y. Geer, S. He, D. I. Hurwitz, J. D. Jackson, A. R. Jacobs, C. J. Lanczycki, C. A. Liebert, C. Liu, T. Madej, G. H. Marchler, R. Mazumder, A. N. Nikolskaya, A. R. Panchenko, B. S. Rao, B. A. Shoemaker, V. Simonyan, J. S. Song, P. A. Thiessen, S. Vasudevan, Y. Wang, R. A. Yamashita, J. J. Yin, S. H. Bryant posted to cdd protein_domains by jteyra on 2008-07-30 08:24:47 as along with 4 people balajis maryee cjeans gulkur
	Pfam: multiple sequence alignments and HMM-profiles of protein domains [My Copy] Nucl. Acids Res., Vol. 26, No. 1. (1 January 1998), pp. 320-322. by E. L. Sonnhammer, S. R. Eddy, E. Birney, A. Bateman, R. Durbin posted to pfam protein_domains by jteyra on 2008-07-30 08:23:27 as along with 5 people and 1 group thegoose2 tharris cjeans antonkratz gulkur C. elegans / WormBase
	SMART, a simple modular architecture research tool: Identification of signaling domains [My Copy] Proceedings of the National Academy of Sciences, Vol. 95, No. 11. (26 May 1998), pp. 5857-5864. by Jorg Schultz, Frank Milpetz, Peer Bork, Chris P. Ponting posted to protein_domains smart by jteyra on 2008-07-30 08:22:17 as along with 3 people hplatero bicko Evangelia
	CATH--a hierarchic classification of protein domain structures. [My Copy] Structure (London, England : 1993), Vol. 5, No. 8. (15 August 1997), pp. 1093-1108. by C. A. Orengo, A. D. Michie, S. Jones, D. T. Jones, M. B. Swindells, J. M. Thornton posted to cath fold_classification by jteyra on 2008-07-30 08:17:48 as along with 14 people and 4 groups ucbcjbm flbarroso kumar_physics semin sebk tjimenez dimka jwm chad_davis Einat caporaso massivemayhem sim82 gulkur structural_bioinformatics Radiation_Damage Stressosome biomedical-nlp
	Dali/FSSP classification of three-dimensional protein folds. [My Copy] Nucleic acids research, Vol. 25, No. 1. (1 January 1997), pp. 231-234. by L. Holm, C. Sander posted to fold_classification fssp by jteyra on 2008-07-30 08:14:56 as
	The Universal Protein Resource (UniProt) [My Copy] Nucl. Acids Res., Vol. 36, No. suppl_1. (11 January 2008), pp. D190-195. by The UniProt Consortium posted to database swissprot uniprot by jteyra on 2008-07-30 08:05:18 as along with 12 people lawraga saket diamantis semin thegoose allysonlister BioNica fbristow guhjy renatomilani kintoki janasont
	Structural insight into the pH-induced conformational changes within the native human transthyretin tetramer [My Copy] Journal of Molecular Biology, Vol. In Press, Accepted Manuscript by Satheesh K. Palaninathan, Mohamed, William C. Snee, Jeffery W. Kelly, James C. Sacchettini posted to il16_oligomer by jteyra on 2008-07-24 09:46:34 as
	Novel protein folds and their nonsequential structural analogs [My Copy] Protein Sci (26 June 2008), ps.035469.108. by Aysam Guerler, Ernst-Walter Knapp posted to straln_nonseq by jteyra on 2008-07-15 08:55:45 as along with 1 person reyez
	The immunoglobulin fold. Structural classification, sequence patterns and common core. [My Copy] Journal of molecular biology, Vol. 242, No. 4. (30 September 1994), pp. 309-320. by P. Bork, L. Holm, C. Sander posted to fold_ig by jteyra on 2008-07-14 18:06:04 as
	Classification of Water Molecules in Protein Binding Sites [My Copy] J. Am. Chem. Soc., Vol. 129, No. 9. (7 March 2007), pp. 2577-2587. by C. Barillari, J. Taylor, R. Viner, J. W. Essex posted to water_interface by jteyra on 2008-07-14 18:04:32 as along with 3 people daevans dmobley LamBras
	On itinerant water molecules and detectability of protein-protein interfaces through comparative analysis of homologues. [My Copy] J Mol Biol, Vol. 369, No. 2. (1 June 2007), pp. 584-595. by I. Mihalek, I. Res, O. Lichtarge posted to water_bioexample water_interface by jteyra on 2008-07-14 18:03:00 as along with 1 person marti
	MHC-peptide binding is assisted by bound water molecules. [My Copy] J Mol Biol, Vol. 338, No. 2. (23 April 2004), pp. 419-435. by P. M. Petrone, A. E. Garcia posted to water_bioexample by jteyra on 2008-07-14 18:00:24 as along with 3 people and 2 groups sobolevnrm ssomani fjc1 baker-group structure-bii
	Solvent mobility and the protein 'glass' transition. [My Copy] Nat Struct Biol, Vol. 7, No. 1. (January 2000), pp. 34-38. by D. Vitkup, D. Ringe, G. A. Petsko, M. Karplus posted to water by jteyra on 2008-07-14 16:18:56 as along with 4 people abovell saravan naitsabes onufriev
	Structural systems biology: modelling protein interactions. [My Copy] Nature reviews. Molecular cell biology, Vol. 7, No. 3. (March 2006), pp. 188-197. by Patrick Aloy, Robert B. Russell posted to ppi_homology review by jteyra on 2008-07-11 14:40:51 as along with 23 people and 3 groups timg chica Scis0000002 ubcg08l ana aalibes bicko xico dgront drastic choonpeng henschel ruvido massivemayhem cat_worth fishtank iris_2001 gvuister lpfernandes Evangelia andreas_foersch higueruelo chad_davis structural_bioinformatics Bioinformatics WetBiology
	Hydrophobic patches on protein subunit interfaces: Characteristics and prediction [My Copy] Proteins: Structure, Function, and Genetics, Vol. 28, No. 3. (1997), pp. 333-343. by Philip Lijnzaad, Patrick Argos posted to ppi_analysis by jteyra on 2008-07-11 10:22:31 as
	Computational redesign of protein-protein interaction specificity [My Copy] Nat Struct Mol Biol, Vol. 11, No. 4. (April 2004), pp. 371-379. by Tanja Kortemme, Lukasz A. Joachimiak, Alex N. Bullock, Aaron D. Schuler, Barry L. Stoddard, David Baker posted to ppi_design ppi_homology rosetta by jteyra on 2008-07-11 09:59:58 as along with 7 people bmduggan lna jwm bicko ruvido cjeans tale
	SH3-SPOT: An Algorithm to Predict Preferred Ligands to Different Members of the SH3 Gene Family [My Copy] Journal of Molecular Biology (April 2000), pp. 313-328. by B. Brannetti, A. Via, G. Cestra, G. Cesareni, M. H. Citterich posted to algorithm ppii scoring sh3_specificity by jteyra on 2008-07-11 09:50:45 as

Note: You may cite this page as: http://www.citeulike.org/user/jteyra

Result page: 1 2 Next

water_bioexample	6
review	5
scowlp_pbr	5
software	5
ppi	4
ppi_homology	4
protein_domains	4
scowlp_db	4
ccr5	3
correlated_mutations	3
gromacs	3
packing	3
water	3
water_interface	3
clustering	2
fold_classification	2
il16	2
mm_pbsa	2
peptide	2
ppi_design	2
ppi_quaternary	2
rosetta	2
straln_nonseq	2
terminal	2
tys	2
algorithm	1
binding	1
cath	1
ccr5_cxcr4_binding	1
ccr5_tys	1
cd4	1
cdd	1
cxcr4	1
database	1
dd	1
decomposition	1
disorder	1
docking_flexible	1
docking_scowlp	1
docking_water	1
electrostatics	1
example	1
fold_ig	1
folding-binding	1
fssp	1
hiv	1
il16_disease	1
il16_oligomer	1
modeling_check	1
noncovalent_bonds	1
oligomerization	1
pdz_dimer	1
pdz_peptide	1
pfam	1
ppi_analysis	1
ppii	1
prosite	1
protein_flexibility	1
remd_cterm	1
remd_dauraalg	1
scoring	1
scowlp	1
sh3_specificity	1
smart	1
straln_br	1
straln_sse	1
swissprot	1
uniprot	1
water_surface	1

jteyra's library 65 articles Export

jteyra's tags