{"id":15505,"date":"2016-01-20T11:11:48","date_gmt":"2016-01-20T11:11:48","guid":{"rendered":"http:\/\/www.ch.imperial.ac.uk\/rzepa\/blog\/?p=15505"},"modified":"2023-09-17T07:24:19","modified_gmt":"2023-09-17T06:24:19","slug":"kinetic-isotope-effect-models-as-a-function-of-ring-substituent-for-indole-3-carboxylic-acids-and-indolin-2-ones","status":"publish","type":"post","link":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?p=15505","title":{"rendered":"Kinetic isotope effect models as a function of ring substituent for indole-3-carboxylic acids and indolin-2-ones."},"content":{"rendered":"<div class=\"kcite-section\" kcite-section-id=\"15505\">\n<p>    The original strategic objective of my PhD researches in 1972-74 was to explore how primary kinetic hydrogen isotope effects might be influenced by the underlying structures of the transition states involved. Earlier posts dealt with how&nbsp;one can&nbsp;construct <a href=\"http:\/\/wavefunction.fieldofscience.com\/2012\/03\/on-michael-dewar-robin-collingwood-and.html\" target=\"_blank\" rel=\"noopener\">quantum-chemical&nbsp;models of these transition states that fit the known properties<\/a> of the reactions. Now, one can reverse the strategy by computing the expected variation with structure to see if anything interesting might emerge, and then if it does, open up the prospect of further exploration&nbsp;by experiment. Here I will use the base-catalysed enolisation of 1,3-dimethylindolin-2-ones and the decarboxylation of 3-indole carboxylates to explore this aspect.<\/p>\n<p>    <a href=\"http:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/wp-content\/uploads\/2016\/01\/indolinone3.svg\"><img decoding=\"async\" alt=\"Indole diazocoupling\" class=\"aligncenter size-full wp-image-14967\" src=\"http:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/wp-content\/uploads\/2016\/01\/indolinone3.svg\" style=\"text-align: justify;\" width=\"440\" \/><\/a> <a href=\"http:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/wp-content\/uploads\/2016\/01\/indole-carboxylate2.svg\"><img decoding=\"async\" alt=\"Indole diazocoupling\" class=\"aligncenter size-full wp-image-14967\" src=\"http:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/wp-content\/uploads\/2016\/01\/indole-carboxylate2.svg\" style=\"text-align: justify;\" width=\"300\" \/><\/a><\/p>\n<p>    The systems and results are shown in the table below, summarised by the points:<\/p>\n<h3>\n    1,3-dimethyl-indolinones:<br \/>\n<\/h3>\n<ol>\n<li>\n        The free energy barriers are very low, but show&nbsp;an overall&nbsp;increase&nbsp;when changing the substituent from nitro to amino, with the 6-position being more sensitive than the 5. However, the increase is not consistent.\n    <\/li>\n<li>\n        The transition state mode changes regularly, the wavenumber more than doubling along the progression.\n    <\/li>\n<li>\n        The basic structure of the proton transfer evolves smoothly, from being an early transition state with 6-nitro to being a late one with 6-amino.\n    <\/li>\n<li>\n        The primary kinetic isotope effect shows less variation, but the trend is to increase as the transition state gets later, even beyond the point where the two bond lengths associated with the tranferring hydrogen are equal in length.\n    <\/li>\n<li>\n        As <a href=\"http:\/\/www.ch.imperial.ac.uk\/rzepa\/blog\/?p=14327#comment-166700\" target=\"_blank\" rel=\"noopener\">Dan Singleton has pointed&nbsp;out<\/a> on this blog, the observed KIE is a combination of effects based purely on the transition state structure and effects resulting from the <em>sharpness of the barrier <\/em>inducing <strong><span style=\"color: #ff0000;\">proton tunneling<\/span><\/strong> and this is itself related to the magnitude of&nbsp;&nu;<sub>i<\/sub>. The KIE ratios tabulated below&nbsp;derive purely from the former and do not take into account any such tunneling. We can see from the variation in&nbsp;&nu;<sub>i<\/sub>&nbsp;that such tunnelling contributions are likely&nbsp;to vary substantially across this range of substituents. As a result, deconvoluting the KIE due to the symmetry of the proton transfer from the contribution due to tunnelling is going to be difficult.\n    <\/li>\n<li>\n        There are other computational errors which might contribute, such as solvent reorganisations due to specific substituents,&nbsp;only partially taken into acount here. In effect the unsubstituted reaction geometry was used as the template for the others, followed of course by a re-optimisation which might not explore other more favourable orientations brought about by the substituents.\n    <\/li>\n<\/ol>\n<h3>\n    Indole-3-carboxylic acids:<br \/>\n<\/h3>\n<ol start=\"7\">\n<li>\n        The free energy barriers are now much higher than the indolinones, but&nbsp;show a consistent decrease along the series from 6-nitro to 6-amino. This matches with the idea that the indole is a base and the basicity is increased by electron donation and decreased by electron withdrawal.\n    <\/li>\n<li>\n        The transition state mode again changes regularly, increasing as the barrier decreases.\n    <\/li>\n<li>\n        For 5-H, the computed free energy barrier matches that measured remarkably well.\n    <\/li>\n<li>\n        The calculated KIE increase regularly along the series 6-nitro to 6-amino.\n    <\/li>\n<li>\n        The calculated KIE for 5-H matches that measured very well, but that for the 5-chloro does not. One might safely conclude that the outlier is probably the experimental value. The KIE are not obtained by direct measurement of the rate of reaction, but inferred from solving the relatively complex rate equation with inclusion&nbsp;of some approximations and assumptions. Perhaps one of these approximations is not valid for this substituent, or possibly an experimental error has encroached. Were this work to ever be repeated, this entry should be prioritised.\n    <\/li>\n<li>\n        The overall variation in KIE is in fact quite small, but if the KIE can be measured very accurately, then they should be useful for comparison with such calculations.\n    <\/li>\n<li>\n        We cannot really conclude whether the magnitude of the KIE closely reflects the symmetry of the transition state. For all the examples below, the C-H bond is always shorter than the H-O bond. More extreme and probably multiple substituents on the ring (5,6-dinitro? 5,6-diamino?) might have to be used to probe a wider variation in transition state symmetry. For example, the maximum value for proton transfer from a hydronium ion was stated a long time ago to be around&nbsp;3.6,&nbsp;<span id=\"cite_ITEM-15505-0\" name=\"citation\"><a href=\"#ITEM-15505-0\">[1]<\/a><\/span> and it would be of interest to see if that value is attained when the proton transfer becomes fully symmetry.\n    <\/li>\n<\/ol>\n<table border=\"1\">\n<tbody>\n<tr>\n<th colspan=\"6\">\n                1,3-dimethylindolin-2-ones<span id=\"cite_ITEM-15505-1\" name=\"citation\"><a href=\"#ITEM-15505-1\">[2]<\/a><\/span>\n            <\/th>\n<\/tr>\n<tr>\n<th>\n                Model\n            <\/th>\n<th>\n                &Delta;G<sup>&Dagger;<\/sup><sub>298<\/sub> (&Delta;H<sup>&Dagger;<\/sup><sub>298<\/sub>)\n            <\/th>\n<th>\n                k<sup>H<\/sup>\/k<sup>D<\/sup> (298K)\n            <\/th>\n<th>\n                r<sub>C-H<\/sub>, r<sub>H-O<\/sub>\n            <\/th>\n<th>\n                &nu;<sub>i<\/sub>\n            <\/th>\n<th>\n                DataDOIs\n            <\/th>\n<\/tr>\n<tr>\n<td>\n                6-nitro\n            <\/td>\n<td>\n                1.94\n            <\/td>\n<td>\n                3.22\n            <\/td>\n<td>\n                1.256, 1.417\n            <\/td>\n<td>\n                611\n            <\/td>\n<td>\n                <span id=\"cite_ITEM-15505-2\" name=\"citation\"><a href=\"#ITEM-15505-2\">[3]<\/a><\/span>,<span id=\"cite_ITEM-15505-3\" name=\"citation\"><a href=\"#ITEM-15505-3\">[4]<\/a><\/span>\n            <\/td>\n<\/tr>\n<tr>\n<td>\n                5-nitro\n            <\/td>\n<td>\n                1.82\n            <\/td>\n<td>\n                3.65\n            <\/td>\n<td>\n                1.289, 1.364\n            <\/td>\n<td>\n                895\n            <\/td>\n<td>\n                <span id=\"cite_ITEM-15505-4\" name=\"citation\"><a href=\"#ITEM-15505-4\">[5]<\/a><\/span>,<span id=\"cite_ITEM-15505-5\" name=\"citation\"><a href=\"#ITEM-15505-5\">[6]<\/a><\/span>\n            <\/td>\n<\/tr>\n<tr>\n<td>\n                H\n            <\/td>\n<td>\n                2.48\n            <\/td>\n<td>\n                4.40\n            <\/td>\n<td>\n                1.326, 1.316\n            <\/td>\n<td>\n                1130\n            <\/td>\n<td>\n                <span id=\"cite_ITEM-15505-6\" name=\"citation\"><a href=\"#ITEM-15505-6\">[7]<\/a><\/span>,<span id=\"cite_ITEM-15505-7\" name=\"citation\"><a href=\"#ITEM-15505-7\">[8]<\/a><\/span>\n            <\/td>\n<\/tr>\n<tr>\n<td>\n                5-amino\n            <\/td>\n<td>\n                6.73\n            <\/td>\n<td>\n                3.86\n            <\/td>\n<td>\n                1.337, 1.304\n            <\/td>\n<td>\n                1182\n            <\/td>\n<td>\n                <span id=\"cite_ITEM-15505-8\" name=\"citation\"><a href=\"#ITEM-15505-8\">[9]<\/a><\/span>,<span id=\"cite_ITEM-15505-9\" name=\"citation\"><a href=\"#ITEM-15505-9\">[10]<\/a><\/span>\n            <\/td>\n<\/tr>\n<tr>\n<td>\n                6-amino\n            <\/td>\n<td>\n                3.19\n            <\/td>\n<td>\n                4.43\n            <\/td>\n<td>\n                1.349, 1.291\n            <\/td>\n<td>\n                1226\n            <\/td>\n<td>\n                <span id=\"cite_ITEM-15505-10\" name=\"citation\"><a href=\"#ITEM-15505-10\">[11]<\/a><\/span>,<span id=\"cite_ITEM-15505-11\" name=\"citation\"><a href=\"#ITEM-15505-11\">[12]<\/a><\/span>\n            <\/td>\n<\/tr>\n<tr>\n<th colspan=\"6\">\n                Indole-3-carboxylic acids<span id=\"cite_ITEM-15505-12\" name=\"citation\"><a href=\"#ITEM-15505-12\">[13]<\/a><\/span>\n            <\/th>\n<\/tr>\n<tr>\n<td>\n                6-nitro\n            <\/td>\n<td>\n<p>                    25.1<\/p>\n<\/td>\n<td>\n                2.72\n            <\/td>\n<td>\n                1.279,1.391\n            <\/td>\n<td>\n                706\n            <\/td>\n<td>\n                <span id=\"cite_ITEM-15505-13\" name=\"citation\"><a href=\"#ITEM-15505-13\">[14]<\/a><\/span>,<span id=\"cite_ITEM-15505-14\" name=\"citation\"><a href=\"#ITEM-15505-14\">[15]<\/a><\/span>\n            <\/td>\n<\/tr>\n<tr>\n<td>\n                5-chloro\n            <\/td>\n<td>\n                23.1\n            <\/td>\n<td>\n                2.80 (2.23)\n            <\/td>\n<td>\n                1.300,1.361\n            <\/td>\n<td>\n                873\n            <\/td>\n<td>\n                <span id=\"cite_ITEM-15505-15\" name=\"citation\"><a href=\"#ITEM-15505-15\">[16]<\/a><\/span>,<span id=\"cite_ITEM-15505-16\" name=\"citation\"><a href=\"#ITEM-15505-16\">[17]<\/a><\/span>\n            <\/td>\n<\/tr>\n<tr>\n<td>\n                5-H\n            <\/td>\n<td>\n<p>                    22.1 (22.0)<sup><i>a<\/i><\/sup><span id=\"cite_ITEM-15505-17\" name=\"citation\"><a href=\"#ITEM-15505-17\">[18]<\/a><\/span><\/p>\n<\/td>\n<td>\n                2.87 (2.72)<span id=\"cite_ITEM-15505-17\" name=\"citation\"><a href=\"#ITEM-15505-17\">[18]<\/a><\/span>\n            <\/td>\n<td>\n                1.304,1.354\n            <\/td>\n<td>\n                921\n            <\/td>\n<td>\n                <span id=\"cite_ITEM-15505-18\" name=\"citation\"><a href=\"#ITEM-15505-18\">[19]<\/a><\/span>,<span id=\"cite_ITEM-15505-19\" name=\"citation\"><a href=\"#ITEM-15505-19\">[20]<\/a><\/span>\n            <\/td>\n<\/tr>\n<tr>\n<td>\n                6-amino\n            <\/td>\n<td>\n                20.5\n            <\/td>\n<td>\n                3.04\n            <\/td>\n<td>\n                1.308,1.348\n            <\/td>\n<td>\n                950\n            <\/td>\n<td>\n                <span id=\"cite_ITEM-15505-20\" name=\"citation\"><a href=\"#ITEM-15505-20\">[21]<\/a><\/span>,<span id=\"cite_ITEM-15505-21\" name=\"citation\"><a href=\"#ITEM-15505-21\">[22]<\/a><\/span>\n            <\/td>\n<\/tr>\n<\/tbody>\n<\/table>\n<p>    <sup><i>a<\/i><\/sup><span style=\"font-size:10px;\">The barrier is higher than <a href=\"http:\/\/www.ch.imperial.ac.uk\/rzepa\/blog\/?p=15395\" target=\"_blank\" rel=\"noopener\">previously reported<\/a> because a significantly lower isomer of the ionised reactant was subsequently located.<span id=\"cite_ITEM-15505-20\" name=\"citation\"><a href=\"#ITEM-15505-20\">[21]<\/a><\/span> Use of this new isomer also has a modest knock-on effect on the computed isotope effect for this system, bringing it into line with the other substituents and also with experiment.<\/span><\/p>\n<p>    Overall, this study of variation in kinetic isotope effects for proton transfer as induced by variation of ring substitution shows the viability of such computation. The total elapsed time since the start of this project is about three weeks, very much shorter than the original time taken to synthesize the molecules and measure their kinetics.&nbsp;Importantly, these were very much reactions occuring in aqueous solution, where solvation and general acid or general base catalysis occurred. Such reactions have long been thought to be very difficult to model in a non-dynamic discrete sense. The results obtained here tends towards optimism that such calculations may have a useful role to play in understanding such mechanisms.<\/p>\n<hr \/>\n<p>    I would like to express my enormous gratitude to my Ph.D. supervisor, Brian Challis, for starting me along&nbsp;this life-long exploration of reaction mechanisms. I hope the above gives him satisfaction that the endeavour back in 1972 has borne some more fruits.<\/p>\n<hr \/>\n<h4>Acknowledgments<\/h4>\n<p>This post has been cross-posted in PDF format at <a href=\"https:\/\/doi.org\/10.15200\/winn.145337.72903\" rel=\"noopener\" target=\"_blank\">Authorea<\/a>.<\/p>\n<h2>References<\/h2>\n    <ol class=\"kcite-bibliography csl-bib-body\"><li id=\"ITEM-15505-0\">C.G. Swain, D.A. Kuhn, and R.L. Schowen, \"Effect of Structural Changes in Reactants on the Position of Hydrogen-Bonding Hydrogens and Solvating Molecules in Transition States. The Mechanism of Tetrahydrofuran Formation from 4-Chlorobutanol&lt;sup&gt;1&lt;\/sup&gt;\", <i>Journal of the American Chemical Society<\/i>, vol. 87, pp. 1553-1561, 1965. <a href=\"https:\/\/doi.org\/10.1021\/ja01085a025\">https:\/\/doi.org\/10.1021\/ja01085a025<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-1\">H. Rzepa, \"Kinetic isotope effects for the ionisation of 5- and 6-substituted 1,3-dimethyl indolinones.\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/hpc\/208\">https:\/\/doi.org\/10.14469\/hpc\/208<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-2\">H.S. Rzepa, \"C 10 H 19 N 2 Na 1 O 8\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191802\">https:\/\/doi.org\/10.14469\/ch\/191802<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-3\">H.S. Rzepa, \"C 10 H 19 N 2 Na 1 O 8\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191796\">https:\/\/doi.org\/10.14469\/ch\/191796<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-4\">H.S. Rzepa, \"C 10 H 19 N 2 Na 1 O 8\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191800\">https:\/\/doi.org\/10.14469\/ch\/191800<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-5\">H.S. Rzepa, \"C 10 H 19 N 2 Na 1 O 8\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191789\">https:\/\/doi.org\/10.14469\/ch\/191789<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-6\">H.S. Rzepa, \"C 10 H 20 N 1 Na 1 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191787\">https:\/\/doi.org\/10.14469\/ch\/191787<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-7\">H.S. Rzepa, \"C 10 H 20 N 1 Na 1 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191782\">https:\/\/doi.org\/10.14469\/ch\/191782<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-8\">H.S. Rzepa, \"C 10 H 21 N 2 Na 1 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191803\">https:\/\/doi.org\/10.14469\/ch\/191803<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-9\">H.S. Rzepa, \"C 10 H 21 N 2 Na 1 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191797\">https:\/\/doi.org\/10.14469\/ch\/191797<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-10\">H.S. Rzepa, \"C 10 H 21 N 2 Na 1 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191804\">https:\/\/doi.org\/10.14469\/ch\/191804<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-11\">H.S. Rzepa, \"C 10 H 21 N 2 Na 1 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191799\">https:\/\/doi.org\/10.14469\/ch\/191799<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-12\">H. Rzepa, \"Decarboxylation of 5- and 6-substituted indole-3-carboxylic acids\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/hpc\/220\">https:\/\/doi.org\/10.14469\/hpc\/220<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-13\">H.S. Rzepa, \"C 9 H 15 Cl 1 N 2 O 8\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191807\">https:\/\/doi.org\/10.14469\/ch\/191807<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-14\">H.S. Rzepa, and H.S. Rzepa, \"C 9 H 15 Cl 1 N 2 O 8\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191805\">https:\/\/doi.org\/10.14469\/ch\/191805<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-15\">H.S. Rzepa, \"C 9 H 15 Cl 2 N 1 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191822\">https:\/\/doi.org\/10.14469\/ch\/191822<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-16\">H.S. Rzepa, \"C 9 H 15 Cl 2 N 1 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191825\">https:\/\/doi.org\/10.14469\/ch\/191825<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-17\">B.C. Challis, and H.S. Rzepa, \"Heteroaromatic hydrogen exchange reactions. Part 9. Acid catalysed decarboxylation of indole-3-carboxylic acids\", <i>Journal of the Chemical Society, Perkin Transactions 2<\/i>, pp. 281, 1977. <a href=\"https:\/\/doi.org\/10.1039\/p29770000281\">https:\/\/doi.org\/10.1039\/p29770000281<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-18\">H.S. Rzepa, \"C 9 H 16 Cl 1 N 1 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191828\">https:\/\/doi.org\/10.14469\/ch\/191828<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-19\">H.S. Rzepa, \"C 9 H 16 Cl 1 N 1 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191790\">https:\/\/doi.org\/10.14469\/ch\/191790<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-20\">H.S. Rzepa, \"C 9 H 17 Cl 1 N 2 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191810\">https:\/\/doi.org\/10.14469\/ch\/191810<\/a>\n\n<\/li>\n<li id=\"ITEM-15505-21\">H.S. Rzepa, \"C 9 H 17 Cl 1 N 2 O 6\", 2016. <a href=\"https:\/\/doi.org\/10.14469\/ch\/191806\">https:\/\/doi.org\/10.14469\/ch\/191806<\/a>\n\n<\/li>\n<\/ol>\n\n<\/div> <!-- kcite-section 15505 -->","protected":false},"excerpt":{"rendered":"<p>The original strategic objective of my PhD researches in 1972-74 was to explore how primary kinetic hydrogen isotope effects might be influenced by the underlying structures of the transition states involved. Earlier posts dealt with how&nbsp;one can&nbsp;construct quantum-chemical&nbsp;models of these transition states that fit the known properties of the reactions. Now, one can reverse the [&hellip;]<\/p>\n","protected":false},"author":1,"featured_media":0,"comment_status":"open","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"_jetpack_newsletter_access":"","_jetpack_dont_email_post_to_subs":false,"_jetpack_newsletter_tier_id":0,"_jetpack_memberships_contains_paywalled_content":false,"_jetpack_memberships_contains_paid_content":false,"activitypub_content_warning":"","activitypub_content_visibility":"","activitypub_max_image_attachments":5,"activitypub_interaction_policy_quote":"anyone","activitypub_status":"","footnotes":"","jetpack_publicize_message":"","jetpack_publicize_feature_enabled":true,"jetpack_social_post_already_shared":true,"jetpack_social_options":{"image_generator_settings":{"template":"highway","default_image_id":0,"font":"","enabled":false},"version":2},"jetpack_post_was_ever_published":false},"categories":[1086],"tags":[1362,1637,1629,1638,1457,206,1635,1453,1410,1442,1639,1180],"ppma_author":[2661],"class_list":["post-15505","post","type-post","status-publish","format-standard","hentry","category-reaction-mechanism-2","tag-aqueous-solution","tag-brian-challis","tag-can-construct-quantum-chemical-models","tag-computed-free-energy-barrier-matches","tag-dan-singleton","tag-free-energy-barrier","tag-free-energy-barriers","tag-kinetic-isotope-effect","tag-organic-chemistry","tag-physical-organic-chemistry","tag-quantum-chemical-models","tag-supervisor"],"yoast_head":"<!-- This site is optimized with the Yoast SEO plugin v27.5 - https:\/\/yoast.com\/product\/yoast-seo-wordpress\/ -->\n<title>Kinetic isotope effect models as a function of ring substituent for indole-3-carboxylic acids and indolin-2-ones. - Henry Rzepa&#039;s Blog<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?p=15505\" \/>\n<meta property=\"og:locale\" content=\"en_GB\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"Kinetic isotope effect models as a function of ring substituent for indole-3-carboxylic acids and indolin-2-ones. - Henry Rzepa&#039;s Blog\" \/>\n<meta property=\"og:description\" content=\"The original strategic objective of my PhD researches in 1972-74 was to explore how primary kinetic hydrogen isotope effects might be influenced by the underlying structures of the transition states involved. 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Now, one can reverse the [&hellip;]\" \/>\n<meta property=\"og:url\" content=\"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?p=15505\" \/>\n<meta property=\"og:site_name\" content=\"Henry Rzepa&#039;s Blog\" \/>\n<meta property=\"article:published_time\" content=\"2016-01-20T11:11:48+00:00\" \/>\n<meta property=\"article:modified_time\" content=\"2023-09-17T06:24:19+00:00\" \/>\n<meta property=\"og:image\" content=\"http:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/wp-content\/uploads\/2016\/01\/indolinone3.svg\" \/>\n<meta name=\"author\" content=\"Henry Rzepa\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:label1\" content=\"Written by\" \/>\n\t<meta name=\"twitter:data1\" content=\"Henry Rzepa\" \/>\n\t<meta name=\"twitter:label2\" content=\"Estimated reading time\" \/>\n\t<meta name=\"twitter:data2\" content=\"5 minutes\" \/>\n<!-- \/ Yoast SEO plugin. -->","yoast_head_json":{"title":"Kinetic isotope effect models as a function of ring substituent for indole-3-carboxylic acids and indolin-2-ones. - Henry Rzepa&#039;s Blog","robots":{"index":"index","follow":"follow","max-snippet":"max-snippet:-1","max-image-preview":"max-image-preview:large","max-video-preview":"max-video-preview:-1"},"canonical":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?p=15505","og_locale":"en_GB","og_type":"article","og_title":"Kinetic isotope effect models as a function of ring substituent for indole-3-carboxylic acids and indolin-2-ones. - Henry Rzepa&#039;s Blog","og_description":"The original strategic objective of my PhD researches in 1972-74 was to explore how primary kinetic hydrogen isotope effects might be influenced by the underlying structures of the transition states involved. Earlier posts dealt with how&nbsp;one can&nbsp;construct quantum-chemical&nbsp;models of these transition states that fit the known properties of the reactions. 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Mechanism and kinetic isotope effects for protiodecarboxylation of indoles.","author":"Henry Rzepa","date":"January 2, 2016","format":false,"excerpt":"Another mechanistic study we\u00a0started in\u00a01972 is\u00a0here 40+ years on\u00a0subjected to quantum mechanical scrutiny. The kinetics are again complex, the mechanism involving protonation\u2021 of the indole carboxylate (by a general acid), followed by the presumption of a zwitterionic Wheland intermediate that then loses carbon dioxide in a second step (blue arrows).\u2026","rel":"","context":"In &quot;Historical&quot;","block_context":{"text":"Historical","link":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?cat=565"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":20354,"url":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?p=20354","url_meta":{"origin":15505,"position":1},"title":"Epoxidation of ethene: a new substituent twist.","author":"Henry Rzepa","date":"December 21, 2018","format":false,"excerpt":"Five years back,\u00a0I speculated about the mechanism of the epoxidation of ethene by a peracid, concluding that kinetic isotope effects provided interesting evidence that this mechanism is highly asynchronous and involves a so-called \"hidden intermediate\". Here I revisit this reaction in which a small change is applied to the atoms\u2026","rel":"","context":"In &quot;Interesting chemistry&quot;","block_context":{"text":"Interesting chemistry","link":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?cat=4"},"img":{"alt_text":"","src":"https:\/\/i0.wp.com\/www.ch.ic.ac.uk\/rzepa\/blog\/wp-content\/uploads\/2018\/12\/imine2.gif?resize=350%2C200&ssl=1","width":350,"height":200},"classes":[]},{"id":15415,"url":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?p=15415","url_meta":{"origin":15505,"position":2},"title":"I\u2019ve started so I\u2019ll finish. The ionisation mechanism and kinetic isotope effects for 1,3-dimethylindolin-2 one","author":"Henry Rzepa","date":"January 7, 2016","format":false,"excerpt":"This is the third and final study deriving from my Ph.D.. The first two topics dealt with the mechanism of heteroaromatic electrophilic attack using either a diazonium cation or a proton as electrophile, followed by either proton abstraction or carbon dioxide loss from the resulting Wheland intermediate. This final study\u2026","rel":"","context":"In &quot;Historical&quot;","block_context":{"text":"Historical","link":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?cat=565"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":15395,"url":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?p=15395","url_meta":{"origin":15505,"position":3},"title":"I\u2019ve started so I\u2019ll finish. Kinetic isotope effect models for a general acid as a catalyst in the protiodecarboxylation of indoles.","author":"Henry Rzepa","date":"January 10, 2016","format":false,"excerpt":"Earlier I explored models for the heteroaromatic electrophilic protiodecarboxylation of an 3-substituted indole, focusing on the role of water as the proton transfer and delivery agent. Next, came\u00a0models for both water and the general base catalysed\u00a0ionization of indolinones. Here I\u00a0explore\u00a0general acid\u00a0catalysis by evaluating the properties of two possible models for\u2026","rel":"","context":"In &quot;Interesting chemistry&quot;","block_context":{"text":"Interesting chemistry","link":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?cat=4"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":14070,"url":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?p=14070","url_meta":{"origin":15505,"position":4},"title":"Natural abundance kinetic isotope effects: expt. vs theory.","author":"Henry Rzepa","date":"June 3, 2015","format":false,"excerpt":"My PhD thesis involved determining kinetic isotope effects (KIE) for aromatic electrophilic substitution reactions in an effort to learn more about the nature of the transition states involved. I learnt relatively little, mostly because a transition state geometry is defined by 3N-6 variables (N = number of atoms) and its\u2026","rel":"","context":"In &quot;reaction mechanism&quot;","block_context":{"text":"reaction mechanism","link":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?cat=1086"},"img":{"alt_text":"","src":"","width":0,"height":0},"classes":[]},{"id":15048,"url":"https:\/\/www.ch.ic.ac.uk\/rzepa\/blog\/?p=15048","url_meta":{"origin":15505,"position":5},"title":"I&#8217;ve started so I&#8217;ll finish. The mechanism of diazo coupling to indoles &#8211; forty (three) years on!","author":"Henry Rzepa","date":"December 24, 2015","format":false,"excerpt":"The BBC TV quiz series Mastermind\u00a0was first broadcast in the UK in 1972,\u00a0the same time\u00a0I was starting to investigate\u00a0the mechanism of diazocoupling to substituted indoles as part of my Ph.D. researches. 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