Literature DB >> 6394065

Stereoelectronic control in peptide bond formation. Ab initio calculations and speculations on the mechanism of action of serine proteases.

D G Gorenstein, K Taira.   

Abstract

Ab initio molecular orbital calculations have been performed on the reaction profile for the addition/elimination reaction between ammonia and n class="Chemical">formic acid, proceeding via a tetrahedral intermediate: NH3 + HCO2H----H2NCH(OH)2----NH2CHO + H2O. Calculated transition state energies for the first addition step of the reaction revealed that a lone pair on the oxygen of the OH group, which is antiperiplanar to the attacking nitrogen, stabilized the transition state by 3.9 kcal/mol, thus supporting the hypothesis of stereoelectronic control for this reaction. In addition, a secondary, counterbalancing stereoelectronic effect stabilizes the second step, water elimination, transition state by 3.1 kcal/mol if the lone pair on the leaving water oxygen is not antiperiplanar to the C-N bond. The best conformation for the transition states was thus one with a lone pair antiperiplanar to the adjacent scissile bond and also one without a lone-pair orbital on the scissile bond oxygen or nitrogen antiperiplanar to the adjacent polar bond. The significance of these stereoelectronic effects for the mechanism of action of serine proteases is discussed.

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Year:  1984        PMID: 6394065      PMCID: PMC1435099          DOI: 10.1016/S0006-3495(84)84073-4

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  22 in total

1.  Molecular structure of the alpha-lytic protease from Myxobacter 495 at 2.8 Angstroms resolution.

Authors:  G D Brayer; L T Delbaere; M N James
Journal:  J Mol Biol       Date:  1979-07-15       Impact factor: 5.469

2.  Protein structure refinement: Streptomyces griseus serine protease A at 1.8 A resolution.

Authors:  A R Sielecki; W A Hendrickson; C G Broughton; L T Delbaere; G D Brayer; M N James
Journal:  J Mol Biol       Date:  1979-11-15       Impact factor: 5.469

3.  Molecular orbital studies of enzyme activity: I: Charge relay system and tetrahedral intermediate in acylation of serine proteinases.

Authors:  S Scheiner; D A Kleier; W N Lipscomb
Journal:  Proc Natl Acad Sci U S A       Date:  1975-07       Impact factor: 11.205

4.  Enzymatic catalysis and the transition state theory of reaction rates: transition state analogs.

Authors:  G E Lienhard; I I Secemski; K A Koehler; R N Lindquist
Journal:  Cold Spring Harb Symp Quant Biol       Date:  1972

5.  Structure of the complex formed by bovine trypsin and bovine pancreatic trypsin inhibitor. Crystal structure determination and stereochemistry of the contact region.

Authors:  A Rühlmann; D Kukla; P Schwager; K Bartels; R Huber
Journal:  J Mol Biol       Date:  1973-07-05       Impact factor: 5.469

6.  Asymmetrical changes in the tertiary structure of alpha-chymotrypsin with change in pH.

Authors:  A Mavridis; A Tulinsky; M N Liebman
Journal:  Biochemistry       Date:  1974-08-27       Impact factor: 3.162

7.  Stereoelectronic properties and reactivity of the tetrahedral intermediate in amide hydrolysis. Nonempirical study of aminodihydroxymethane and relation to enzyme catalysis.

Authors:  J M Lehn; G Wipff
Journal:  J Am Chem Soc       Date:  1974-06-12       Impact factor: 15.419

8.  A molecular orbital study on the enzymic reaction mechanism of alpha-chymotrypsin.

Authors:  H Umeyama; A Imamura; C Nagata
Journal:  J Theor Biol       Date:  1973-10       Impact factor: 2.691

9.  Structure of crystalline -chymotrypsin. V. The atomic structure of tosyl- -chymotrypsin at 2 A resolution.

Authors:  J J Birktoft; D M Blow
Journal:  J Mol Biol       Date:  1972-07-21       Impact factor: 5.469

10.  Direct determination of the protonation states of aspartic acid-102 and histidine-57 in the tetrahedral intermediate of the serine proteases: neutron structure of trypsin.

Authors:  A A Kossiakoff; S A Spencer
Journal:  Biochemistry       Date:  1981-10-27       Impact factor: 3.162

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  2 in total

1.  The probable conformation of substrates recognized by dipeptidyl-peptidase IV and some aspects of the catalytic mechanism derived from theoretical investigations.

Authors:  W Brandt; T Lehmann; T Hofmann; R L Schowen; A Barth
Journal:  J Comput Aided Mol Des       Date:  1992-04       Impact factor: 3.686

2.  Hyperconjugation-mediated solvent effects in phosphoanhydride bonds.

Authors:  Jean C Summerton; Jeffrey D Evanseck; Michael S Chapman
Journal:  J Phys Chem A       Date:  2012-10-09       Impact factor: 2.781

  2 in total

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