| Publication |
Sentence |
Publish Date |
Extraction Date |
Species |
| James M Kovacs, Colin T Mant, Robert S Hodge. Determination of intrinsic hydrophilicity/hydrophobicity of amino acid side chains in peptides in the absence of nearest-neighbor or conformational effects. Biopolymers. vol 84. issue 3. 2006-05-17. PMID:16315143. |
the results show that the intrinsic hydrophilicity/hydrophobicity of amino acid side chains in peptides (proteins) is independent of ph, buffer conditions, or whether c(8) or c(18) reversed-phase columns were used for 17 side chains (gly, ala, cys, pro, val, nval, leu, nleu, ile, met, tyr, phe, trp, ser, thr, asn, and gln) and dependent on ph and buffer conditions, including the type of salt or ion-pairing reagent for potentially charged side chains (orn, lys, his, arg, asp, and glu). |
2006-05-17 |
2023-08-12 |
Not clear |
| Vincent Zoete, Markus Meuwly, Martin Karplu. Study of the insulin dimerization: binding free energy calculations and per-residue free energy decomposition. Proteins. vol 61. issue 1. 2006-05-15. PMID:16080143. |
other residues situated at the interface between the 2 monomers were found to make favorable but smaller contributions to the dimerization: tyr b16, val b12, and pro b28, and to an even lesser extent, gly b23. |
2006-05-15 |
2023-08-12 |
Not clear |
| Adriano Mollica, Peg Davis, Shou-Wu Ma, Frank Porreca, Josephine Lai, Victor J Hrub. Synthesis and biological activity of the first cyclic biphalin analogues. Bioorganic & medicinal chemistry letters. vol 16. issue 2. 2006-03-02. PMID:16275086. |
its structure is based on two identical sequences derived from enkephalins joined c-terminal to c-terminal by an hydrazide bridge (tyr-d-ala-gly-phe-nh-nh<--phe<--gly<--d-ala<--tyr). |
2006-03-02 |
2023-08-12 |
Not clear |
| Ronald Jackups, Jie Lian. Interstrand pairing patterns in beta-barrel membrane proteins: the positive-outside rule, aromatic rescue, and strand registration prediction. Journal of molecular biology. vol 354. issue 4. 2006-02-03. PMID:16277990. |
in addition, we find that tyr and phe participate in aromatic rescue by shielding gly from polar environments. |
2006-02-03 |
2023-08-12 |
Not clear |
| Thomas A Anderson, Matthew H J Cordes, Robert T Saue. Sequence determinants of a conformational switch in a protein structure. Proceedings of the National Academy of Sciences of the United States of America. vol 102. issue 51. 2006-01-31. PMID:16344489. |
here, we study arc mutants in which position 11 is occupied by gly, ala, val, ile, leu, met, phe, or tyr. |
2006-01-31 |
2023-08-12 |
Not clear |
| Gabriela Bosio, Susana Criado, Walter Massad, Felipe J Rodríguez Nieto, Mónica C Gonzalez, Norman A García, Daniel O Mártir. Kinetics of the interaction of sulfate and hydrogen phosphate radicals with small peptides of glycine, alanine, tyrosine and tryptophan. Photochemical & photobiological sciences : Official journal of the European Photochemistry Association and the European Society for Photobiology. vol 4. issue 10. 2006-01-27. PMID:16189561. |
the kinetics and mechanism of the oxidation of glycine (gly), alanine (ala), tyrosine (tyr), tryptophan (trp) and some di-(gly-gly, ala-ala, gly-ala, gly-trp, trp-gly, gly-tyr, tyr-gly), tri-(gly-gly-gly, ala-gly-gly) and tetrapeptides (gly-gly-gly-gly) mediated by sulfate (so(4) (-)) and hydrogen phosphate (hpo(4) (-)) radicals was studied, employing the flash-photolysis technique. |
2006-01-27 |
2023-08-12 |
Not clear |
| Alison L Livingston, Sucharita Kundu, Michelle Henderson Pozzi, David W Anderson, Sheila S Davi. Insight into the roles of tyrosine 82 and glycine 253 in the Escherichia coli adenine glycosylase MutY. Biochemistry. vol 44. issue 43. 2006-01-27. PMID:16245934. |
to determine the extent with which tyr 82 and gly 253 contribute to catalysis of adenine removal by e. coli muty, we made a series of additional modifications in these residues, namely, y82f, y82l, and g253a. |
2006-01-27 |
2023-08-12 |
human |
| Alison L Livingston, Sucharita Kundu, Michelle Henderson Pozzi, David W Anderson, Sheila S Davi. Insight into the roles of tyrosine 82 and glycine 253 in the Escherichia coli adenine glycosylase MutY. Biochemistry. vol 44. issue 43. 2006-01-27. PMID:16245934. |
the results contained herein provide further insight regarding the intricate roles of tyr 82 and gly 253 in the og recognition and adenine excision functions of muty. |
2006-01-27 |
2023-08-12 |
human |
| Damien Boeglin, William D Lubel. Aza-amino acid scanning of secondary structure suited for solid-phase peptide synthesis with fmoc chemistry and aza-amino acids with heteroatomic side chains. Journal of combinatorial chemistry. vol 7. issue 6. 2006-01-23. PMID:16283795. |
this method has proven effective for introducing aza-amino acid residues with aliphatic (ala, leu, val, and gly) and aromatic (phe, tyr, and trp) side chains. |
2006-01-23 |
2023-08-12 |
human |
| Bing Ma, Leon H Lau, Monica M Palcic, Bart Hazes, Diane E Taylo. A single aromatic amino acid at the carboxyl terminus of Helicobacter pylori {alpha}1,3/4 fucosyltransferase determines substrate specificity. The Journal of biological chemistry. vol 280. issue 44. 2005-12-28. PMID:16150700. |
to elucidate how tyr(350) determines alpha1,4 specificity, mutants tyr(350) --> phe, tyr(350) --> trp, and tyr(350) --> gly were constructed in ua948fuct. |
2005-12-28 |
2023-08-12 |
human |
| Julie L Tubbs, John A Tainer, Elizabeth D Getzof. Crystallographic structures of Discosoma red fluorescent protein with immature and mature chromophores: linking peptide bond trans-cis isomerization and acylimine formation in chromophore maturation. Biochemistry. vol 44. issue 29. 2005-10-18. PMID:16026155. |
the mature dsred fluorophore (gln 66, tyr 67, and gly 68) differs from the gfp fluorophore by an acylimine that results in gln 66 calpha planar geometry and by a phe 65-gln 66 cis peptide bond. |
2005-10-18 |
2023-08-12 |
Not clear |
| Eiji Ohmae, Yukari Fukumizu, Masahiro Iwakura, Kunihiko Gekk. Effects of mutation at methionine-42 of Escherichia coli dihydrofolate reductase on stability and function: implication of hydrophobic interactions. Journal of biochemistry. vol 137. issue 5. 2005-09-26. PMID:15944418. |
methionine-42, distal to the active site of escherichia coli dihydrofolate reductase, was substituted by site-directed mutagenesis with 14 amino acids (ala, cys, glu, gln, gly, his, ile, leu, pro, ser, thr, trp, tyr, and val) to elucidate its role in the stability and function of this enzyme. |
2005-09-26 |
2023-08-12 |
Not clear |
| Slobodan Novokmet, Frank W Heinemann, Achim Zahl, Ralf Alsfasse. Aromatic interactions in unusual backbone nitrogen-coordinated zinc peptide complexes: a crystallographic and spectroscopic study. Inorganic chemistry. vol 44. issue 13. 2005-09-22. PMID:15962988. |
a series of zinc complexes with dipeptide ligands of the type dpg-xaa was synthesized, where dpg is dipicolylglycine and xaa is phenylalanine (phe), tyrosine (tyr), tryptophan (trp), 2-naphthylalanine (nal), or glycine (gly). |
2005-09-22 |
2023-08-12 |
Not clear |
| I L Byko. [Valproate-dependent changes in the spectrum of free amino acids in rats: l-carnitine effects]. Eksperimental'naia i klinicheskaia farmakologiia. vol 68. issue 2. 2005-08-02. PMID:15934365. |
the va treatment led to a decrease in the concentration of ser, gln, and ala in the blood plasma and of gln, cys, phe, and his in the liver, and to an increase in the level of tau, thr, gly, alpha-aba, ile, and tyr in the liver. |
2005-08-02 |
2023-08-12 |
rat |
| Seung-Ju Yang, Eun Hee Cho, Myung-Min Choi, Hyun-Ju Lee, Jae-Wan Huh, Soo Young Choi, Sung-Woo Ch. Critical role of the cysteine 323 residue in the catalytic activity of human glutamate dehydrogenase isozymes. Molecules and cells. vol 19. issue 1. 2005-07-28. PMID:15750346. |
the role of residue c323 in catalysis by human glutamate dehydrogenase isozymes (hgdh1 and hgdh2) was examined by substituting arg, gly, leu, met, or tyr at c323 by cassette mutagenesis using synthetic human gdh isozyme genes. |
2005-07-28 |
2023-08-12 |
human |
| Laurent Berrou, Yolaine Dodier, Alexandra Raybaud, Audrey Tousignant, Omar Dafi, Joelle N Pelletier, Lucie Paren. The C-terminal residues in the alpha-interacting domain (AID) helix anchor CaV beta subunit interaction and modulation of CaV2.3 channels. The Journal of biological chemistry. vol 280. issue 1. 2005-07-21. PMID:15507442. |
the recently solved crystal structures of the aid-ca(v)beta complex in ca(v)1.1/1.2 have revealed that this interaction occurs through a set of six mostly invariant residues glu/asp(6), leu(7), gly(9), tyr(10), trp(13), and ile(14) (where the superscript refers to the position of the residue starting with the qq signature doublet) distributed among three alpha-helical turns in the proximal section of the i-ii linker. |
2005-07-21 |
2023-08-12 |
Not clear |
| Luis Fabián Canosa, Suraj Unniappan, Richard Ector Pete. Periprandial changes in growth hormone release in goldfish: role of somatostatin, ghrelin, and gastrin-releasing peptide. American journal of physiology. Regulatory, integrative and comparative physiology. vol 289. issue 1. 2005-07-13. PMID:15746304. |
three cdnas encoding pre-pro-srif (pss) have been previously cloned from goldfish brain: pss-i, which encodes srif-14; pss-ii, which is potentially processed into gsrif-28 that has [glu(1),tyr(7)(,)gly(10)]srif-14 at the cooh terminus; and pss-iii, which encodes [pro(2)]srif-14 at its cooh terminus. |
2005-07-13 |
2023-08-12 |
Not clear |
| M J Przydzial, I D Pogozheva, K E Bosse, S M Andrews, T A Tharp, J R Traynor, H I Mosber. Roles of residues 3 and 4 in cyclic tetrapeptide ligand recognition by the kappa-opioid receptor. The journal of peptide research : official journal of the American Peptide Society. vol 65. issue 3. 2005-06-23. PMID:15787963. |
accordingly, tetrapeptides were synthesized with phe(3) replaced by aliphatic (gly, ala, aib, cha), basic (lys, arg, homo-arg), or aromatic sides chains (trp, tyr, p-nh(2)phe), and with d-pen(4) replaced by d-cys(4), and binding affinities to stably expressed mu-, delta-, and kappa-receptors were determined. |
2005-06-23 |
2023-08-12 |
Not clear |
| Chomin Cunchillos, Guillaume Lecointr. Integrating the universal metabolism into a phylogenetic analysis. Molecular biology and evolution. vol 22. issue 1. 2005-05-19. PMID:15356277. |
catabolism precedes anabolism for asn, gln, arg, trp, his, tyr, and phe, and anabolism precedes catabolism for pro, ala, leu, val, ile, cys, gly, ser, and thr. |
2005-05-19 |
2023-08-12 |
Not clear |
| Gayle R Pelman, Charlotte J Morrison, Christopher M Overal. Pivotal molecular determinants of peptidic and collagen triple helicase activities reside in the S3' subsite of matrix metalloproteinase 8 (MMP-8): the role of hydrogen bonding potential of ASN188 and TYR189 and the connecting cis bond. The Journal of biological chemistry. vol 280. issue 3. 2005-04-13. PMID:15533938. |
in mmp-8, the neutrophil collagenase, a conserved gly at the s(3)' substrate specificity subsite is replaced by asn(188) that forms a highly unusual cis bond with tyr(189), a conserved active site residue in the collagenases. |
2005-04-13 |
2023-08-12 |
Not clear |