Literature DB >> 24218290

Binding of cyclic carboxylates to octa-acid deep-cavity cavitand.

Corinne L D Gibb1, Bruce C Gibb.   

Abstract

As part of the fourth statistical assessment of modeling of proteins and ligands (sampl.eyesopen.com) prediction challenge, the strength of association of nine guests (1-9) binding to octa-acid host was determined by a combination of (1)H NMR and isothermal titration calorimetry. Association constants in sodium tetraborate buffered (pH 9.2) aqueous solution ranged from 5.39 × 10(2) M(-1) in the case of benzoate 1, up to 3.82 × 10(5) M(-1) for trans-4-methylcyclohexanoate 7. Overall, the free energy difference between the free energies of complexation of these weakest and strongest binding guests was ΔΔG° = 3.88 kcal mol(-1). Based on a multitude of previous studies, the anticipated order of strength of binding was close to that which was actually obtained. However, the binding of guest 3 (4-ethylbenzoate) was considerably stronger than initially estimated.

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Year:  2013        PMID: 24218290      PMCID: PMC4018434          DOI: 10.1007/s10822-013-9690-2

Source DB:  PubMed          Journal:  J Comput Aided Mol Des        ISSN: 0920-654X            Impact factor:   3.686


  20 in total

1.  Kinetic resolution of constitutional isomers controlled by selective protection inside a supramolecular nanocapsule.

Authors:  Simin Liu; Haiying Gan; Andrew T Hermann; Steven W Rick; Bruce C Gibb
Journal:  Nat Chem       Date:  2010-08-08       Impact factor: 24.427

2.  Controlling photochemistry with distinct hydrophobic nanoenvironments.

Authors:  Lakshmi S Kaanumalle; Corinne L D Gibb; Bruce C Gibb; V Ramamurthy
Journal:  J Am Chem Soc       Date:  2004-11-10       Impact factor: 15.419

3.  A deuterated deep-cavity cavitand confirms the importance of C-H...X-R hydrogen bonds in guest binding.

Authors:  Zachary R Laughrey; Thomas G Upton; Bruce C Gibb
Journal:  Chem Commun (Camb)       Date:  2006-01-20       Impact factor: 6.222

Review 4.  High-definition self-assemblies driven by the hydrophobic effect: synthesis and properties of a supramolecular nanocapsule.

Authors:  Simin Liu; Bruce C Gibb
Journal:  Chem Commun (Camb)       Date:  2008-06-06       Impact factor: 6.222

5.  Templated assembly of water-soluble nano-capsules: inter-phase sequestration, storage, and separation of hydrocarbon gases.

Authors:  Corinne L D Gibb; Bruce C Gibb
Journal:  J Am Chem Soc       Date:  2006-12-27       Impact factor: 15.419

6.  An improved synthesis of 'octa-acid' deep-cavity cavitand.

Authors:  Simin Liu; Sarah E Whisenhunt-Ioup; Corinne L D Gibb; Bruce C Gibb
Journal:  Supramol Chem       Date:  2011-01-01       Impact factor: 1.688

7.  Guests of Differing Polarities Provide Insight into Structural Requirements for Templates of Water-Soluble Nano-Capsules.

Authors:  Corinne L D Gibb; Bruce C Gibb
Journal:  Tetrahedron       Date:  2009-08-29       Impact factor: 2.457

8.  Encapsulation of ferrocene and peripheral electrostatic attachment of viologens to dimeric molecular capsules formed by an octaacid, deep-cavity cavitand.

Authors:  Dagmara Podkoscielny; Ivy Philip; Corinne L D Gibb; Bruce C Gibb; Angel E Kaifer
Journal:  Chemistry       Date:  2008       Impact factor: 5.236

9.  An EPR and NMR study of supramolecular effects on paramagnetic interaction between a nitroxide incarcerated within a nanocapsule with a nitroxide in bulk aqueous media.

Authors:  Judy Y-C Chen; Nithyanandhan Jayaraj; Steffen Jockusch; M Francesca Ottaviani; V Ramamurthy; Nicholas J Turro
Journal:  J Am Chem Soc       Date:  2008-05-13       Impact factor: 15.419

10.  Guest binding and orientation within open nanoscale hosts.

Authors:  Zachary R Laughrey; Corinne L D Gibb; Tangi Senechal; Bruce C Gibb
Journal:  Chemistry       Date:  2003-01-03       Impact factor: 5.236

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  34 in total

1.  Binding of carboxylate and trimethylammonium salts to octa-acid and TEMOA deep-cavity cavitands.

Authors:  Matthew R Sullivan; Punidha Sokkalingam; Thong Nguyen; James P Donahue; Bruce C Gibb
Journal:  J Comput Aided Mol Des       Date:  2016-07-18       Impact factor: 3.686

2.  BEDAM binding free energy predictions for the SAMPL4 octa-acid host challenge.

Authors:  Emilio Gallicchio; Haoyuan Chen; He Chen; Michael Fitzgerald; Yang Gao; Peng He; Malathi Kalyanikar; Chuan Kao; Beidi Lu; Yijie Niu; Manasi Pethe; Jie Zhu; Ronald M Levy
Journal:  J Comput Aided Mol Des       Date:  2015-03-01       Impact factor: 3.686

3.  The SAMPL5 host-guest challenge: computing binding free energies and enthalpies from explicit solvent simulations by the attach-pull-release (APR) method.

Authors:  Jian Yin; Niel M Henriksen; David R Slochower; Michael K Gilson
Journal:  J Comput Aided Mol Des       Date:  2016-09-16       Impact factor: 3.686

4.  SAMPL6 host-guest blind predictions using a non equilibrium alchemical approach.

Authors:  Piero Procacci; Massimiliano Guarrasi; Guido Guarnieri
Journal:  J Comput Aided Mol Des       Date:  2018-08-20       Impact factor: 3.686

5.  Octanol-water partition coefficient measurements for the SAMPL6 blind prediction challenge.

Authors:  Mehtap Işık; Dorothy Levorse; David L Mobley; Timothy Rhodes; John D Chodera
Journal:  J Comput Aided Mol Des       Date:  2019-12-19       Impact factor: 3.686

6.  Tuning the Binding Dynamics of a Guest-Octaacid Capsule through Noncovalent Anchoring.

Authors:  Suma S Thomas; Hao Tang; Adam Gaudes; Signe B Baggesen; Corinne L D Gibb; Bruce C Gibb; Cornelia Bohne
Journal:  J Phys Chem Lett       Date:  2017-05-25       Impact factor: 6.475

7.  Overview of the SAMPL6 host-guest binding affinity prediction challenge.

Authors:  Andrea Rizzi; Steven Murkli; John N McNeill; Wei Yao; Matthew Sullivan; Michael K Gilson; Michael W Chiu; Lyle Isaacs; Bruce C Gibb; David L Mobley; John D Chodera
Journal:  J Comput Aided Mol Des       Date:  2018-11-10       Impact factor: 3.686

8.  Absolute binding free energies for octa-acids and guests in SAMPL5 : Evaluating binding free energies for octa-acid and guest complexes in the SAMPL5 blind challenge.

Authors:  Florentina Tofoleanu; Juyong Lee; Frank C Pickard Iv; Gerhard König; Jing Huang; Minkyung Baek; Chaok Seok; Bernard R Brooks
Journal:  J Comput Aided Mol Des       Date:  2016-09-30       Impact factor: 3.686

9.  A combined treatment of hydration and dynamical effects for the modeling of host-guest binding thermodynamics: the SAMPL5 blinded challenge.

Authors:  Rajat Kumar Pal; Kamran Haider; Divya Kaur; William Flynn; Junchao Xia; Ronald M Levy; Tetiana Taran; Lauren Wickstrom; Tom Kurtzman; Emilio Gallicchio
Journal:  J Comput Aided Mol Des       Date:  2016-09-30       Impact factor: 3.686

10.  Detailed potential of mean force studies on host-guest systems from the SAMPL6 challenge.

Authors:  Lin Frank Song; Nupur Bansal; Zheng Zheng; Kenneth M Merz
Journal:  J Comput Aided Mol Des       Date:  2018-08-24       Impact factor: 3.686

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