Tag amino [136 articles] Export

Recent papers classified by the tag amino.

	Amino Acid Propensities are Position-dependent Throughout the Length of α-Helices☆ [My Copy] Journal of Molecular Biology, Vol. 337, No. 5. (09 April 2004), pp. 1195-1205. by Donald E. Engel, William F. DeGrado posted to structure secondary propensity mrna helix amino alpha acid by saunders on 2009-11-26 15:21:23 as
	Amino acid empirical contact energy definitions for fold recognition in the space of contact maps [My Copy] BMC Bioinformatics, Vol. 4, No. 1. (2003), 8. by Marco Berrera, Henriette Molinari, Federico Fogolari posted to structure secondary propensity mrna amino acid by saunders on 2009-11-26 15:20:14 as
	Suppression of toxin production in Clostridium difficile VPI 10463 by amino acids [My Copy] Microbiology, Vol. 145, No. 7. (1 July 1999), pp. 1683-1693. by Sture Karlsson, Lars G. Burman, Thomas Akerlund posted to toxin suppression starvation production difficile clostridium amino acids by Winzer on 2009-11-26 15:12:18 as
	Induction of toxins in Clostridium difficile is associated with dramatic changes of its metabolism [My Copy] Microbiology, Vol. 154, No. 11. (1 November 2008), pp. 3430-3436. by Sture Karlsson, Lars G. Burman, Thomas Akerlund posted to toxin metabolism difficile cysteine clostridium amino acids by Winzer on 2009-11-26 09:51:07 as
	Prediction of the surface-interior diagram of globular proteins by an empirical method. [My Copy] International journal of peptide and protein research, Vol. 16, No. 1. (July 1980), pp. 19-32. by K. Nishikawa, T. Ooi posted to protein ooi number measure burial amino acid by saunders on 2009-11-25 14:54:05 as
	Cis-Trans Imide Isomerization of the Proline Dipeptide [My Copy] Journal of the American Chemical Society, Vol. 116, No. 26. (1 December 1994), pp. 11931-11937. by Stefan Fischer, Roland L. Dunbrack, Martin Karplus posted to transition_path problems_fel_dof amino by Diego_Prada on 2009-11-23 17:09:55 as
	Role of backbone solvation and electrostatics in generating preferred peptide backbone conformations: Distributions of phi [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 100, No. 10. (13 May 2003), pp. 5742-5747. by Franc Avbelj, Robert L. Baldwin posted to short-peptides secondary_structure amino by Diego_Prada on 2009-11-18 16:36:07 as
	Conformational preferences of amino acids in globular proteins [My Copy] Biochemistry, Vol. 17, No. 20. (1 October 1978), pp. 4277-4285. by Michael Levitt posted to propensity amino alpha alanine acid by Vadikus on 2009-11-12 19:51:35 as
	Selection for efficient translation initiation biases codon usage at second amino acid position in secretory proteins [My Copy] Nucl. Acids Res., Vol. 35, No. 17. (27 September 2007), pp. 5748-5754. by Yaramah M. Zalucki, Peter M. Power, Michael P. Jennings posted to usage translation selection secretory second proteins position lysine initiation efficient codon biases amino acid by Winzer on 2009-11-10 13:13:18 as
	Characteristics of Helicobacter pylori growth in a defined medium and determination of its amino acid requirements [My Copy] Microbiology, Vol. 140, No. 10. (1 October 1994), pp. 2649-2656. by David J. Reynolds, Charles W. Penn posted to requirements pylori medium helicobacter growth defined amino acid by Winzer on 2009-11-04 13:44:11 as
	A genetically encoded fluorescent amino acid [My Copy] Proceedings of the National Academy of Sciences, Vol. 103, No. 26. (27 June 2006), pp. 9785-9789. by Daniel Summerer, Shuo Chen, Ning Wu, Alexander Deiters, Jason W. Chin, Peter G. Schultz posted to genetically fluorescent fluorescence encoded amino acid by Winzer on 2009-08-28 17:45:45 as
	Efficient incorporation of unnatural amino acids into proteins in Escherichia coli [My Copy] Nat Meth, Vol. 3, No. 4. (22 April 2006), pp. 263-265. by Youngha Ryu, Peter G. Schultz posted to unnatural proteins incorporation escherichia coli amino acids by Winzer on 2009-08-28 17:42:49 as
	Integrin ligands at a glance. [My Copy] Journal of cell science, Vol. 119, No. Pt 19. (1 October 2006), pp. 3901-3903. by Jonathan D. Humphries, Adam Byron, Martin J. Humphries posted to motifs molecular models ligands integrins evolution biological amino acid by adambyron on 2009-08-21 09:20:32 as
	Four Distances between Pairs of Amino Acids Provide a Precise Description of their Interaction [My Copy] PLoS Comput Biol, Vol. 5, No. 8. (14 August 2009), e1000470. by Mati Cohen, Vladimir Potapov, Gideon Schreiber posted to structure protein pdb amino acids by ericrpaquet on 2009-08-14 14:41:11 as along with 6 people nickolay klexa Diego_Prada zwang reyez TRHvidsten
	Visualizing and quantifying molecular goodness-of-fit: small-probe contact dots with explicit hydrogen atoms1 [My Copy] Journal of Molecular Biology, Vol. 285, No. 4. (29 January 1999), pp. 1711-1733. by Word, Simon C. Lovell, Thomas H. Labean, et al.Hope C. Taylor, Michael E. Zalis, Brent K. Presley, Jane S. Richardson, David C. Richardson posted to chapt_amino amino by Diego_Prada on 2009-08-12 12:21:51 as along with 4 people and 5 groups aqeel dgront barry joergkurtwegner structural_bioinformatics Bioinformatics Molecular-Modelling Drug-Design Cheminformatics
	A survey of left-handed polyproline II helices [My Copy] Protein Science, Vol. 8, No. 3. (1999), pp. 587-595. by Benjamin J. Stapley, Trevor P. Creamer posted to chapt_amino amino by Diego_Prada on 2009-08-07 20:58:59 as
	In Vivo Chemical Modification of Proteins (Post-Translational Modification) [My Copy] Annual Review of Biochemistry, Vol. 50, No. 1. (1981), pp. 783-814. by F. Wold posted to amino by Diego_Prada on 2009-08-07 17:51:47 as
	Posttranslational covalent modification of proteins [My Copy] Science, Vol. 198, No. 4320. (2 December 1977), pp. 890-896. by R. Uy, F. Wold posted to amino by Diego_Prada on 2009-08-07 17:47:47 as
	Conformation of Polypeptides and Proteins [My Copy] In Advances in Protein Chemistry Volume 23, Vol. 23 (1968), pp. 283-437. by G. N. Ramachandran, V. Sasisekharan posted to chapt_amino amino by Diego_Prada on 2009-08-07 12:47:38 as
	Stereochemical quality of protein structure coordinates [My Copy] Proteins: Structure, Function, and Genetics, Vol. 12, No. 4. (3 February 1992), pp. 345-364. by Anne L. Morris, Malcolm W. Macarthur, E. Gail Hutchinson, Janet M. Thornton posted to chapt_amino amino by Diego_Prada on 2009-08-07 12:32:21 as along with 2 people aqeel andreasauerwein
	The Protein Data Bank [My Copy] Nucl. Acids Res., Vol. 28, No. 1. (1 January 2000), pp. 235-242. by Helen M. Berman, John Westbrook, Zukang Feng, et al.Gary Gilliland, T. N. Bhat, Helge Weissig, Ilya N. Shindyalov, Philip E. Bourne posted to chapt_amino amino proteins by Diego_Prada on 2009-08-06 21:38:47 as along with 45 people and 5 groups trishul krapnik barmak7282 viktor21614 badi ucbcjbm TLVincent maria_hauser Martin8223 tomjad flbarroso Taguan oceanwind dsmueller fisherp semin MarcoAlvarez kumar_physics LamBras RamuAnandakrishnan nlapalu reyez nigham lillekatt thaliana dimka kuhn jwm vavi bicko itmeson dgront caporaso condon aengisch debatebob massivemayhem gisle girschick selrac tji higueruelo boris_aguilar sebk timg References for 3DSim paper Radiation_Damage Stressosome biomedical-nlp beta
	Quantification of the effect of amino acids on an integrated mTOR and insulin signaling pathway [My Copy] Mol. BioSyst., Vol. 5, No. 10. (2009), pp. 1163-1173. by Palakkad K. Vinod, Kareenhalli V. Venkatesh posted to acids amino biology insulin irs mtor systems by davebridges on 2009-08-04 17:43:59 as along with 1 person karthikraman
	Thermodynamic functions of conformational changes: conformational network of glycine diamide folding, entropy lowering, and informational accumulation. [My Copy] The journal of physical chemistry. A, Vol. 110, No. 49. (14 December 2006), pp. 13325-13331. by Szilard N. Fejer, Imre G. Csizmadia, Bela Viskolcz posted to amino cmn glycine by Diego_Prada on 2009-08-04 11:17:45 as
	Stereochemical Criteria for Polypeptide and Protein Chain ConformationsII. Allowed Conformations for a Pair of Peptide Units [My Copy] Biophysical Journal, Vol. 5, No. 6. (1 November 1965), pp. 909-933. by C. Ramakrishnan, G. N. Ramachandran posted to amino by Diego_Prada on 2009-07-29 17:20:12 as along with 2 people allmensch aqeel
	Solvation free energies of amino acid side chain analogs for common molecular mechanics water models [My Copy] The Journal of Chemical Physics, Vol. 122, No. 13. (2005), 134508. by Michael R. Shirts, Vijay S. Pande posted to acid amino mm water by krapnik on 2009-07-27 11:35:13 as
	Comparison of a QM/MM force field and molecular mechanics force fields in simulations of alanine and glycine ldquodipeptidesrdquo (Ace-Ala-Nme and Ace-Gly-Nme) in water in relation to the problem of modeling the unfolded peptide backbone in solution [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 50, No. 3. (15 February 2003), pp. 451-463. by Hao Hu, Marcus Elstner, Jan Hermans posted to amino dialanine force-fields by Diego_Prada on 2009-07-26 16:12:40 as along with 3 people flbarroso paddydu allmensch
	Probing the role of the cation-pi interaction in the binding sites of GPCRs using unnatural amino acids. [My Copy] Proceedings of the National Academy of Sciences of the United States of America, Vol. 106, No. 29. (21 July 2009), pp. 11919-11924. by Michael M. Torrice, Kiowa S. Bower, Henry A. Lester, Dennis A. Dougherty posted to acids amino cation gpcr interaction pi torric09pdf unnatural by paulschlesinger on 2009-07-23 01:14:31 as along with 1 person xdeupi
	Glutamic Acid, the Main Dietary Amino Acid, and Blood Pressure: The INTERMAP Study (International Collaborative Study of Macronutrients, Micronutrients and Blood Pressure) [My Copy] Circulation, Vol. 120, No. 3. (21 July 2009), pp. 221-228. by Jeremiah Stamler, Ian J. Brown, Martha L. Daviglus, et al.Queenie Chan, Hugo Kesteloot, Hirotsugu Ueshima, Liancheng Zhao, Paul Elliott, For The Intermap Research Group posted to acid amino blood glutamate intermap pressure by EEsterling on 2009-07-21 23:23:45 as
	Coulombic interactions between partially charged main-chain atoms not hydrogen-bonded to each other influence the conformations of α-helices and antiparallel β-sheet. A new method for analysing the forces between hydrogen bonding groups in proteins includes all the Coulombic interactions [My Copy] Journal of Molecular Biology, Vol. 248, No. 2. (1995), pp. 361-373. by P. Maccallum, R. Poet, E. Jamesmilnerwhite posted to chapt_amino amino by Diego_Prada on 2009-07-20 17:35:08 as
	Coulombic attractions between partially chargedmain-chain atoms stabilise the right-handed twist found in most β-strands [My Copy] Journal of Molecular Biology, Vol. 248, No. 2. (1995), pp. 374-384. by P. Maccallum, R. Poet, E. Jamesmilnerwhite posted to amino by Diego_Prada on 2009-07-20 17:31:34 as
	The anatomy and taxonomy of protein structure. [My Copy] Advances in protein chemistry, Vol. 34 (1981), pp. 167-339. by J. S. Richardson posted to chapt_amino amino protein_folding proteins by Diego_Prada on 2009-07-18 18:21:51 as along with 1 person nikkiwithers
	Revisiting the Ramachandran plot: hard-sphere repulsion, electrostatics, and H-bonding in the alpha-helix. [My Copy] Protein Sci, Vol. 12, No. 11. (November 2003), pp. 2508-2522. by B. K. Ho, A. Thomas, R. Brasseur posted to chapt_amino amino by Diego_Prada on 2009-07-18 18:06:17 as along with 3 people and 1 group aqeel allmensch Einat structural_bioinformatics
	Phi/Psi-chology: Ramachandran revisited [My Copy] Structure, Vol. 4, No. 12. (15 December 1996), pp. 1395-1400. by G. Kleywegt, T. Jones posted to chapt_amino amino glycine by Diego_Prada on 2009-07-08 22:34:43 as
	Structure validation by Cα geometry: Φ,Ψ and Cβ deviation [My Copy] Proteins: Structure, Function, and Genetics, Vol. 50, No. 3. (15 February 2003), pp. 437-450. by Simon C. Lovell, Ian W. Davis, W. Bryan Arendall, et al.Paul I. W. de Bakker, J. Michael Word, Michael G. Prisant, Jane S. Richardson, David C. Richardson posted to chapt_amino amino glycine by Diego_Prada on 2009-07-08 22:26:32 as along with 9 people and 2 groups bmduggan aqeel jwm robert dgront xiaobeizhao martainn mijam pavanghatty Radiation_Damage Stressosome
	Conformation of amino acid side-chains in proteins. [My Copy] Journal of molecular biology, Vol. 125, No. 3. (5 November 1978), pp. 357-386. by J. Janin, S. Wodak, M. Levitt, B. Maigret posted to amino by Diego_Prada on 2009-07-08 20:34:20 as
	Pseudo-structures for the 20 common amino acids for use in studies of protein conformations by measurements of intramolecular proton-proton distance constraints with nuclear magnetic resonance. [My Copy] Journal of molecular biology, Vol. 169, No. 4. (5 October 1983), pp. 949-961. by K. Wüthrich, M. Billeter, W. Braun posted to amino by Diego_Prada on 2009-07-08 20:32:52 as
	Force Field Modeling of Amino Acid Conformational Energies [My Copy] Journal of Chemical Theory and Computation, Vol. 3, No. 5. (1 September 2007), pp. 1774-1788. by Jakub Kaminsky, Frank Jensen posted to amino by Diego_Prada on 2009-07-08 20:26:03 as along with 3 people kubikuk paulschlesinger middledomain
	Conformations of amino acids in proteins [My Copy] Acta Crystallographica Section D, Vol. 58, No. 5. (May 2002), pp. 768-776. by Sven Hovmöller, Tuping Zhou, Tomas Ohlson posted to chapt_amino amino by Diego_Prada on 2009-07-08 20:20:50 as along with 1 person middledomain
	Probing Protein Folding Using Site-Specifically Encoded Unnatural Amino Acids as FRET Donors with Tryptophan [My Copy] Biochemistry, Vol. 0, No. 0. (0000) by Shigeki J. Miyake-Stoner, Andrew M. Miller, Jared T. Hammill, et al.Jennifer C. Peeler, Kenneth R. Hess, Ryan A. Mehl, Scott H. Brewer posted to acid amino fret miyak09pdf site-specif tryptophan unatural by paulschlesinger on 2009-06-08 02:14:55 as
	Ulla: a program for calculating environment-specific amino acid substitution tables [My Copy] Bioinformatics (5 May 2009), btp300. by Semin Lee, Tom L. Blundell posted to acid amino mutation protein substitution by medic0747 on 2009-06-01 11:42:12 as along with 1 person operon
	Molecular dynamics guided study of salt bridge length dependence in both fluorinated and non-fluorinated parallel dimeric coiled-coils [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 9999, No. 9999. (2008), NA. by Scott S. Pendley, Yihua B. Yu, Thomas E. Cheatham posted to alpha amino ff99sb helix helix-coil long_run molecular simulation water_solution by Vadikus on 2009-05-18 17:22:21 as along with 2 people and 1 group oteri Lombardo_7 LOX-1 Receptor
	The role of lipid composition for insertion and stabilization of amino acids in membranes [My Copy] The Journal of Chemical Physics, Vol. 130, No. 18. (2009), 185101. by Anna C. V. Johansson, Erik Lindahl posted to acids amino interaction johans09pdf membrane stabilization by paulschlesinger on 2009-05-12 02:09:15 as along with 2 people and 1 group agrossfield sobolevnrm baker-group
	Evaluation of coarse grained models for hydrogen bonds in proteins. [My Copy] J Comput Chem (13 February 2007) by David De Sancho, Antonio Rey posted to acid amino cv hbond method statistics by Vadikus on 2009-05-08 13:00:34 as along with 3 people dgront choonpeng mijam
	The helix-coil transition in heterogeneous peptides with specific side-chain interactions: Theory and comparison with CD spectral data [My Copy] Biopolymers, Vol. 31, No. 13. (1991), pp. 1605-1614. by Paul J. Gans, Pingchiang C. Lyu, Mark C. Manning, Robert W. Woody, Neville R. Kallenbach posted to acid alpha amino helix-coil position by Vadikus on 2009-05-07 20:00:13 as
	Amino acid pairing at the N- and C-termini of helical segments in proteins [My Copy] Proteins: Structure, Function, and Bioinformatics, Vol. 70, No. 1. (2008), pp. 188-196. by Nuno A. Fonseca, Rui Camacho, A. L. Magalhães posted to 3_10 acid amino propensity by Vadikus on 2009-05-07 04:56:06 as
	A 310-helix single turn enforced by crosslinking of lysines with 1,1′-ferrocenedicarboxylic acid [My Copy] Journal of Organometallic Chemistry, Vol. 694, No. 6. (15 March 2009), pp. 902-907. by Timothy P. Curran, Emma L. Handy posted to 3_10 acid amino experiment by Vadikus on 2009-05-07 03:40:17 as
	Conformational Changes and Slow Dynamics through Microsecond Polarized Atomistic Molecular Simulation of an Integral Kv1.2 Ion Channel [My Copy] PLoS Comput Biol, Vol. 5, No. 2. (20 February 2009), e1000289. by Pär Bjelkmar, Perttu S. Niemelä, Ilpo Vattulainen, Erik Lindahl posted to 3_10 acid alpha amino gromass long_run simulation by Vadikus on 2009-05-07 03:29:54 as along with 2 people dimka blasco_morozzo
	Chapter 1 Stability and Design of α-Helical Peptides [My Copy] In Molecular Biology of Protein Folding, Part A, Vol. 83 (2008), pp. 1-52. by A. Doig posted to 3_10 acid alanine alpha amino dihedrals helix by Vadikus on 2009-05-06 16:52:12 as
	A thermodynamic basis for prebiotic amino acid synthesis and the nature of the first genetic code [My Copy] (2 Apr 2009) by Paul G. Higgs, Ralph E. Pudritz posted to acids amino and astrophysics biochemical biomolecules dna earth evolution life meteorite of origin planetary prebiotic rna solar stellar synthesis by docv on 2009-05-01 14:02:46 as along with 3 people alexknight operon rsuhada
	Evaluation of four Amaranthus species through protein electrophoretic patterns and their amino acid composition [My Copy] Journal of Agricultural and Food Chemistry, Vol. 39, No. 5. (1 May 1991), pp. 851-854. by Shela Gorinstein, Ruth Moshe, Luis J. Greene, Paulo Arruda posted to acids amaranthus amino electrophoresis protein by dasajan on 2009-04-28 10:01:27 as along with 1 person dzunkova

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acid	79
acids	36
protein	21
chapt_amino	12
sequence	12
composition	11
proteins	10
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unnatural	7
alpha	6
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starvation	2
state	2
suppression	2
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taurine	2
water	2

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