Jonathan M. Goodman

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Organization: University of Cambridge , England
Department: Department of Chemistry
Title: Professor(PhD)

TOPICS

Co-reporter:Steven G. Smith
Journal of the American Chemical Society 2010 Volume 132(Issue 37) pp:12946-12959
Publication Date(Web):August 26, 2010
DOI:10.1021/ja105035r
GIAO NMR shift calculation has been applied to the challenging task of reliably assigning stereochemistry with quantifiable confidence when only one set of experimental data are available. We have compared several approaches for assigning a probability to each candidate structure and have tested the ability of these methods to distinguish up to 64 possible diastereoisomers of 117 different molecules, using NMR shifts obtained in rapid and computationally inexpensive single-point calculations on molecular mechanics geometries without time-consuming ab initio geometry optimization. We show that a probability analysis based on the errors in each 13C or 1H shift is significantly more successful at making correct assignments with high confidence than are probabilities based on the correlation coefficient and mean absolute error parameters. Our new probability measure, which we have termed DP4, complements the probabilities obtained from our previously developed CP3 parameter, which applies to the case of assigning a pair of diastereoisomers when one has both experimental data sets. We illustrate the application of DP4 to assigning the stereochemistry or structure of 21 natural products that were originally misassigned in the literature or that required extensive synthesis of diastereoisomers to establish their stereochemistry.
Co-reporter:Jesús Díaz, Jonathan M. Goodman
Tetrahedron 2010 66(40) pp: 8021-8028
Publication Date(Web):
DOI:10.1016/j.tet.2010.08.003
Co-reporter:Steven G. Smith, Julia A. Channon, Ian Paterson, Jonathan M. Goodman
Tetrahedron 2010 66(33) pp: 6437-6444
Publication Date(Web):
DOI:10.1016/j.tet.2010.06.022
Co-reporter:Antonio Llinàs, Jonathan C. Burley, Timothy J. Prior, Robert C. Glen and Jonathan M. Goodman
Crystal Growth & Design 2008 Volume 8(Issue 1) pp:114
Publication Date(Web):January 2, 2008
DOI:10.1021/cg700908m
The Potentiometric Cycling for Polymorph Creation [PC]2 has been applied to sparfloxacin, a third-generation fluoroquinolone antibiotic. Two different trihydrate phases precipitate from aqueous solution. X-ray data indicate that one of these is a previously unknown polymorph of sparfloxacin trihydrate. Because both forms crystallize from solution at the same time, the two crystalline forms are concomitant polymorphs that precipitate in a thermodynamically controlled ratio.
Co-reporter:Antonio Llinàs, Robert C. Glen and Jonathan M. Goodman
Journal of Chemical Information and Modeling 2008 Volume 48(Issue 7) pp:1289-1303
Publication Date(Web):July 15, 2008
DOI:10.1021/ci800058v
Solubility is a key physicochemical property of molecules. Serious deficiencies exist in the consistency and reliability of solubility data in the literature. The accurate prediction of solubility would be very useful. However, systematic errors and lack of metadata associated with measurements greatly reduce the confidence in current models. To address this, we are accurately measuring intrinsic solubility values, and here we report results for a diverse set of 100 druglike molecules at 25 °C and an ionic strength of 0.15 M using the CheqSol approach. This is a highly reproducible potentiometric technique that ensures the thermodynamic equilibrium is reached rapidly. Results with a coefficient of variation higher than 4% were rejected. In addition, the Potentiometric Cycling for Polymorph Creation method, [PC]2, was used to obtain multiple polymorph forms from aqueous solution. We now challenge researchers to predict the intrinsic solubility of 32 other druglike molecules that have been measured but are yet to be published.
Co-reporter:Jonathan M. Goodman and Robert S. Paton  
Chemical Communications 2007 (Issue 21) pp:2124-2126
Publication Date(Web):01 May 2007
DOI:10.1039/B704786J
DFT computed transition states quantitatively explain the surprising stereochemical outcome of unsubstituted enolborinates in diastereoselective and enantioselective boron aldol reactions.
Co-reporter:Jonathan M. Goodman;Ingrid M. Socorro
Journal of Computer-Aided Molecular Design 2007 Volume 21( Issue 6) pp:351-357
Publication Date(Web):2007 June
DOI:10.1007/s10822-007-9120-4
Synthetic chemistry is hard because some reasonable looking molecules cannot be made, because there are errors in the chemical literature, because it is easy to miss reaction possibilities and because even the shape of molecules is very difficult to determine. We propose an approach to the computational analysis of reactions that tries to circumvent these difficulties, by restricting the analysis to simple rules for reactivity that can generate a large number of competing pathways. This huge ensemble is filtered using computational methods to pick out the most likely pathways, and to suggest possible products.
Co-reporter:Benjamin R. Bellenie and Jonathan M. Goodman  
Chemical Communications 2004 (Issue 9) pp:1076-1077
Publication Date(Web):01 Apr 2004
DOI:10.1039/B316653H
Using a D-mannitol derived chiral sulfide, terminal epoxides are formed in up to 76% ee; the first example of double asymmetric induction in a sulfonium methylide epoxidation is reported and an improved method of generating sulfonium ylides is detailed.
Co-reporter:Craig R. Stewart and Jonathan M. Goodman  
Chemical Communications 2003 (Issue 21) pp:2654-2655
Publication Date(Web):29 Sep 2003
DOI:10.1039/B309488J
A Java applet that predicts solute losses during evaporation from a binary or ternary mixture has been developed which gives good agreement with experiment and can be used to estimate the boiling points of solutes, making use of information which is often collected and then discarded (http://www.ch.cam.ac.uk/magnus/rotavap/).
Co-reporter:Louise M Walsh and Jonathan M Goodman  
Chemical Communications 2003 (Issue 20) pp:2616-2617
Publication Date(Web):23 Sep 2003
DOI:10.1039/B309104J
The relative and absolute stereochemistry of amphidinoketide I has been determined by the total synthesis of all the diastereoisomers. Molecular modelling suggests that the natural product is not the thermodynamically preferred diastereoisomer.
Co-reporter:Antonio Llinàs, Jonathan M. Goodman
Drug Discovery Today (March 2008) Volume 13(Issues 5–6) pp:198-210
Publication Date(Web):1 March 2008
DOI:10.1016/j.drudis.2007.11.006
The appearance and disappearance of polymorphs is no longer a mysterious and inexplicable process. Although methods for polymorph control are still imperfect, there is a large armoury of methods that can be used to tackle this important and challenging problem. We survey the methods and their successes over the last few years.
Co-reporter:Jonathan M. Goodman and Robert S. Paton
Chemical Communications 2007(Issue 21) pp:NaN2126-2126
Publication Date(Web):2007/05/01
DOI:10.1039/B704786J
DFT computed transition states quantitatively explain the surprising stereochemical outcome of unsubstituted enolborinates in diastereoselective and enantioselective boron aldol reactions.
1,3-Butanediol, 2-methyl-1-phenyl-, (1R*,2R*,3R*)-
Isoxazolidine, 5-(dimethylboryl)-2-[(1R)-1-phenylethyl]-, (5R)-
2H-Pyrrole, 3,4-dihydro-4-methoxy-, 1-oxide, (4S)-
Borane, dichloro(2,4-dimethyl-1,4-cyclohexadien-1-yl)-
1-Butanone, 3-hydroxy-2-methyl-1-phenyl-, (R*,R*)-
Borane, dichloro(3-methyl-2-hepten-5-ynyl)-
Borane, (2-methyl-1,4-cyclohexadien-1-yl)-
Pyrano[3,2-b]pyran, octahydro-, (4aR,8aS)-rel-
Borane, ethynyl-
Borane, dichloro(2Z)-2-hexen-5-ynyl-