solvent & geometric effects on non-covalent interactions · non-covalent interactions (α, β,...
TRANSCRIPT
![Page 1: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/1.jpg)
PhysChem Forum 10, Syngenta, Jealott’s Hill, 23rd March ’11
Solvent & geometric effects onnon-covalent interactions
Scott L. Cockroft
![Page 2: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/2.jpg)
QSAR & Physical Organic Chemistry
Quantifiable Physicochemical Properties
Quantifiable Biological Properties
� Non-covalent interactions (α, β, MEP)
� Electronic descriptors (σm, σp, σ*, F, R)
� Solubility
� Interactions with target
� Absorption
� Distribution
QSAR
Administration
� Solubility
� Lipophilicity (logP/D, π)
� Ionisable groups (pKa)
� Shape
� Molecular weight
� Distribution
� Metabolism
� Excretion
� Toxicology
output: e.g. identify structural features giving good potency,
identify outliers, predict new structures with better biological profiles
QSAR
![Page 3: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/3.jpg)
DRUG
Why study non-covalent interactions and solvation?
Drug-receptor interactions
Drug-solvent interactions
Protein-solvent
interactions
+
Drug-lipid interactions
(octanol?)
Drug-solvent interactions
solvent-solvent interactions
(liberated water)
+
solvent-solvent interactions
(liberated water)
+
![Page 4: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/4.jpg)
Non-covalent interactions in biological recognition
COMPLICATED!COMPLICATED!
P. A. Williams, J. Cosme et al, Nature, 2003, 424, 464-468
![Page 5: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/5.jpg)
Binding Energy, ∆∆∆∆G = ∆∆∆∆H – T∆∆∆∆S
electrostatic rotational
interactionchanges
structural changes
Total binding energy contributions
induction
dispersion
repulsion
van der Waals interactions
desolvation
translational
vibrational
Energy contributions from the WHOLE system = drug, solvent, receptor
![Page 6: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/6.jpg)
H-bond interaction energies are highly correlated with the maxima and minima ofcalculated molecular electrostatic potential surfaces.
H-bonds: back to basics, experiment vs. theory
MEPMIN
Calculate
d elect
rostatic pote
ntial
Experimental H-bond parameters measured in CCl4
αsβ
α2H β2
H(H-bond donors) (H-bond acceptors)
MEPMAX
Calculate
d elect
rostatic pote
ntial
Hunter & Cockroft unpublished resultsM. H. Abraham, J. A. Platts, J. Org. Chem. 2001, 66, 3484-3491
![Page 7: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/7.jpg)
Possible to rescale α2Η and β2
Η H-bond constants such that:
H-bond scales
+
H-bond donor-acceptor interaction
∆∆∆∆G = – αβαβαβαβ
αααα= H-bond donor
constant
ββββ= H-bond acceptor constant in kJ mol-1
C. A. Hunter, Angew. Chem. Int. Ed. 2004, 43, 5310-5324
![Page 8: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/8.jpg)
Interaction energies in kJ mol-1
![Page 9: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/9.jpg)
Binding Energy, ∆∆∆∆G = ∆∆∆∆H – T∆∆∆∆S
electrostatic rotational
interactionchanges
structural changes
Total binding energy contributions
induction
dispersion
repulsion
van der Waals interactions
desolvation
translational
vibrational
Energy contributions from the WHOLE system = drug, solvent, receptor
![Page 10: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/10.jpg)
Solvent effects on non-covalent interactions
Ka
αβαsβ αsβsαβs
∆∆G = = αsβ + αβs – αβ + – αsβs + entropic term
α/β obtained from experimental measurements or calculated electrostatic potentials
C. A. Hunter, Angew. Chem. Int. Ed. 2004, 43, 5310-5324
![Page 11: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/11.jpg)
(CF3)3C– OH O=P(n-Bu)3
Solvent effects on non-covalent interactions
This simple model has been applied in a range of circumstances:
• Single H-bonds in pure solvents and solvent mixturesJ. L. Cook, C. A. Hunter, C. M. R. Low, A. Perez-Velasco, J. Vinter, Angew. Chem. Int. Ed. 2007
• Single H-bonds in solvent mixtures
COMPLEXITY
• Single H-bonds in solvent mixturesR. Cabot, C. A. Hunter, Org. Biomol. Chem., 2010
• Supramolecular complexes & Folding moleculesS. L. Cockroft, C. A. Hunter. Chem. Commun. 2006 & 2009
COMPLEXITY
![Page 12: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/12.jpg)
log Kexperiment
(CF3)3C– OH O=P(n-Bu)3
Solvent effects on H-bonding interactions
J. L. Cook, C. A. Hunter et al. Angew. Chem. Int. Ed. 2007, 46, 3706-3709
log Kpredicted
![Page 13: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/13.jpg)
MeO
O
O
O
Me
K
The puzzle of the Wilcox torsion balance
X
NO2
CNIBr
–0.88–1.26–0.96–1.09
∆Gfold /kJ mol-1
∆Gfold δ++
The α/β scale works well for simple H-bond interactions
one step up from a single H-bond, a simple supramolecular system.
Is it really that simple?
NNX
NN
OK
X
“The experiments support a conclusion that the electrostatic potential of the aromatic ring is not a dominant aspect of the aryl-aryl interaction.
The results should encourage increased emphasis on the importance of London dispersion forces in on-face aryl interactions involving neutral components”
S. Paliwal, S. Geib, C. S. Wilcox, J. Am. Chem. Soc. 1994, 116, 4497E. Kim, S. Paliwal, C. S. Wilcox, J. Am. Chem. Soc. 1998, 120, 11192
BrCH3
OHNH2
–1.09–1.12–0.96–0.75
∆Gfold
>250 literature citations
No obvious trend with variation of X-substituents.
δ++
δ−
![Page 14: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/14.jpg)
Aromatic rings as H-bond acceptors
0.21.22.5
+100 kJ mol-1
0 kJ mol-1
– 100 kJ mol-1
βface
(H-bond acceptor constant)
0.21.22.5
![Page 15: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/15.jpg)
Benzene vs. Chloroform
/ kJ m
ol-1
-5
-4
-3
-2
in C6D6
F. Hof, D. M. Scofield, W. B. Schweizer, F. Diederich, Angew. Chem. Int. Ed. 2004, 43, 5056 –5059
β face (H-bond acceptor constant)
∆G fo
ld/ kJ m
ol
in CDCl3
3210
+1
0
δ++δ−--
S. L. Cockroft, C. A. Hunter. Chem. Commun. 2006, 36, 3806-3808
![Page 16: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/16.jpg)
constant constant
∆∆GGedgeedge--faceface ∆∆GGsolsol--solsol∆∆GGsolsol--edgeedge∆∆GGsolsol--faceface
αedge x βfaceαsol x βface
S. L. Cockroft, C. A. Hunter. Chem. Commun. 2006, 36, 3806-3808
![Page 17: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/17.jpg)
Aromatic solvation
1 x αsol 2 x αsol
S. L. Cockroft, C. A. Hunter. Chem. Commun. 2006, 36, 3806-3808
![Page 18: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/18.jpg)
∆G
fold
/ kJ m
ol-1
βface
3210
-5
-4
-3
-2
+1
0
-1
BENZENE
∆G
fold
/ kJ m
ol-1
CHLOROFORM
βface
3210
-5
-4
-3
-2
+1
0
-1 H
CF3
αedge x βfaceαsol x βface
Chloroform
Benzene1.0 x 2
1.0 x 22.2
1.6 x 2
Chloroform
S. L. Cockroft, C. A. Hunter. Chem. Commun. 2006, 36, 3806-3808
sl. >
<<
�
�
![Page 19: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/19.jpg)
2.2
∆G
fold
/ kJ m
ol-1 CF3
βface
3210
-5
-4
-3
-2
+1
0
-1
CHLOROFORM
3.2<<
H
αedge x βfaceαsol x βface
BENZENE
∆G
fold
/ kJ m
ol-1
3210
-5
-4
-3
-2
+1
0
-1 H
CF3
βface
Chloroform
2.0Benzene
=
sl. >
2.2
2.0
2.0
3.2
2.2
<< 3.2
2.0
<<
Cockroft & Hunter,Chem. Comm. 2009
Chloroform
�
�
![Page 20: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/20.jpg)
(CF3)3C– OH O=P(n-Bu)3
Solvent effects on non-covalent interactions
This simple model has been applied in a range of circumstances:
• Single H-bonds in pure solvents and solvent mixturesJ. L. Cook, C. A. Hunter, C. M. R. Low, A. Perez-Velasco, J. Vinter, Angew. Chem. Int. Ed. 2007
• Single H-bonds in solvent mixtures
COMPLEXITY
• Single H-bonds in solvent mixturesR. Cabot, C. A. Hunter, Org. Biomol. Chem., 2010
• Supramolecular complexes & Folding moleculesS. L. Cockroft, C. A. Hunter. Chem. Commun. 2006 & 2009
COMPLEXITYBIOLOGY???
![Page 21: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/21.jpg)
• 27 edge-face interactions (+2 to –7 kJ mol-1)
Y = NMe2, H, NO2
X = NMe2, t-Bu, H, NO2, F, I, CF3
Range of aromatic interactions quantified
X
Y
Y
S
analysis
Cockroft & Hunter,Chem. Comm. 2009
![Page 22: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/22.jpg)
from electrostatic potentials to ααααedge & ββββface
+100 kJ mol-1
0 kJ mol-1
– 100 kJ mol-1 NH
Cockroft & Hunter,Chem. Comm. 2009
![Page 23: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/23.jpg)
Electrostatic control of aromatic interactions
inte
ract
ion energ
yG / kJ mol-1
Same model as used to analyse Diederich data!
NN
H
HO
O
OX
∆∆∆∆∆∆∆∆G / kJ mol-1
Predicted interaction energy
Exp
erim
enta
l in
tera
ctio
n energ
y∆
∆∆
∆∆
∆∆
∆G
N
O
O
N
HYY
H
X
X
Cockroft & Hunter,Chem. Comm. 2009
![Page 24: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/24.jpg)
Non-covalent interactions: non-equilibrium geometry
NONNON--EQUILIBRIUM GEOMETRYEQUILIBRIUM GEOMETRY
& BRIDGING SOLVENT MOLECULES!& BRIDGING SOLVENT MOLECULES!
P. A. Williams, J. Cosme et al, Nature, 2003, 424, 464-468
![Page 25: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/25.jpg)
∆∆∆∆G
Separation-interaction profiles
∆∆∆∆G
![Page 26: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/26.jpg)
Implications:
• understand interplay of solvent and geometry & conformation of small molecules
• determine importance of dispersion interactions-what happens when solvent excluded?
Separation-interaction profiles
• determine importance of dispersion interactions-what happens when solvent excluded?
• quantify significance of long-range solvent-mediated (bridging) interactions
• predict solubility
• better force-fields for molecular modelling/docking, crystal structure prediction etc…
Many computational docking simulations use solvent fields because adding explicit solvent molecules is computationally expensive, is this a valid approach?
![Page 27: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/27.jpg)
Folded
transition state
+
Unfolded
Kfold
Solvent effects on molecular folding
folded
unfolded
Folding coordinate
∆G‡
∆Gfold
∆∆∆∆G
I. K. Mati & S. L. Cockroft. Chem. Soc. Rev. 2010
= – RT lnKfold
![Page 28: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/28.jpg)
Foldamers for quantifying non-covalent interactions
Wilcox, Diederich Motherwell
Z
Y
Y
Z
K fold
Oki, Gung Gellman
I. K. Mati & S. L. Cockroft. Chem. Soc. Rev. 2010
![Page 29: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/29.jpg)
Non-covalent interactions summary
Kaα α α α ββββ
X
dispersion interactions… non-equilibrium geometries…solvent effects
N
F
HO
XKfoldKfold
![Page 30: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/30.jpg)
March 2010Sheep Heid, Edinburgh(Oldest pub in Scotland)
![Page 31: Solvent & geometric effects on non-covalent interactions · Non-covalent interactions (α, β, MEP) Electronic descriptors (σm, σp, σ*, F, R) Solubility Interactions with target](https://reader033.vdocuments.net/reader033/viewer/2022042911/5f42463c47df430ad11ec01e/html5/thumbnails/31.jpg)