02 Computer-aided molecular design

Start from the properties, solve for the molecule.

Property prediction runs from structure to properties. Molecular design runs the other way: given target properties, find structures that are chemically feasible and meet them. This chapter shows how that inverse problem is posed for ionic liquids and solved with group contribution.

Computed for this page Published parameters All 176 structures of the Chapter 2 design space, scored with the 2013 group-contribution models at 298.15 K. Bar length: electrical conductivity; bar color: viscosity; faded bars fail η < 65 cP; hatched: chloride, which has no conductivity parameters. Predictions, not measurements.

You will see

  • Forward and inverse problems
  • Structural feasibility as algebra: the modified octet rule
  • Group-contribution models for conductivity, viscosity, density and melting point
  • A small design space (176 structures) enumerated live

Lab in this chapter

2.1 The inverse problem

Computer-aided molecular design (CAMD), and its ionic-liquid form, computer-aided ionic liquid design (CAILD), is defined in the 2013 paper (Karunanithi & Mehrkesh) as: “given a set of IL functional groups … and a specified set of target properties … find an IL structure that matches these properties.” The forward problem predicts properties of a known structure; the reverse problem searches structures for given properties. Four ingredients are needed: a way to fragment ions into groups, rules that enforce valence-feasible combinations, structure-based property models, and an optimization method to search the space.

Published research

The paper cites a literature estimate of as many as 1014 possible ionic liquids (its refs. 6–7: Holbrey & Seddon, 1999; Rogers & Seddon, 2003; shown in its Figure 2), far beyond what can be made or measured. Karunanithi & Mehrkesh, AIChE J. 2013, p. 4627.

2.2 Representation: cores, chains and anions

An ionic liquid is written as one cation core (imidazolium, pyridinium and so on), alkyl or functionalized side chains attached at the core’s free valences, and one anion. In the MINLP of Methods 04, binary vectors c and a select the core and the anion, a binary vector y marks which side chains exist, and integers ngkl count how many groups of type k sit in chain l.

2.3 Structural feasibility as algebra

Chemical feasibility becomes linear constraints on those variables. From the 2013 paper (its Eqs. 12–18):

Σi∈c ci = 1,    Σj∈a aj = 1
(2.1)
Σl=16 yl = Σi∈c ci vci
(2.2)
Σi∈c (2 − vci) ci + Σl=16 Σk∈G (2 − vGk) yl ngkl = 2
(2.3)
Σk∈G yl ngkl (2 − vGk) = 1    for each chain l
(2.4)
Σl Σk∈G yl ngkl ≤ nGU,    Σk∈G yl ngkl ≤ nGlU
(2.5)

vci: number of free valences of cation core i; vGk: valency of group k (CH3: 1; CH2: 2). Eq. 2.1: exactly one core and one anion. Eq. 2.2: one chain per free valence. Eq. 2.3: the modified octet rule for the cation. Eq. 2.4: the octet rule for each chain (with only CH3 and CH2 available, exactly one CH3 per chain). Eq. 2.5: size limits (12 groups per cation and 6 per chain in the paper’s case studies).

Further constraints in the paper (its Eqs. 19–24) cap or require occurrences of particular groups, for example at most one aldehyde per chain. The point is that whether a structure satisfies the valence rules becomes something an optimizer can check directly. Valence feasibility is necessary, not sufficient: it says nothing about stability or whether the ion can be synthesized.

2.4 Group-contribution property models

Each property is estimated by summing contributions of the groups present. The 2013 paper used, after Gardas and Coutinho (2009), a Vogel–Tammann–Fulcher form for electrical conductivity and an Orrick–Erbar form for viscosity:

ln λ = ln Aλ + BλT − T0λ,    Aλ = Σi niaλ,i,   Bλ = Σi nibλ,i,   T0λ = 165 K
(2.6)
ln ηρM = A + BT,    A = Σi niAv,i,   B = Σi niBv,i
(2.7)
ρ = MNAV(a + bT + cP),    V = Σi niΔVi
(2.8)

The lab evaluates Eq. 2.7 with η in cP, ρ in g cm−3 and M in g mol−1, which agrees with the paper’s tabulated viscosities to within 2% and reproduces its conductivity exactly (check table in the lab). V in Å3; a = 0.8005, b = 6.652 × 10−4 K−1, c = −5.919 × 10−4 MPa−1 (coefficients of Gardas and Coutinho, 2008, as used in the 2013 paper). The melting-point model (the paper’s Eqs. 35–36, after Aguirre and co-workers, 2012) adds cation symmetry and flexibility terms.

Group-contribution parameters used in the lab (2013 paper, Tables 4 and 5)

Lab 2.1 Computed for this page Published parameters

An ionic-liquid design space, enumerated

Every combination of four cation cores, side chains of 1–6 groups and four anions, scored with Eqs. 2.6–2.8 at 298.15 K. Move the viscosity limit and the best feasible liquid by conductivity updates. Select a point for its groups and properties.

    Reproduction check: this lab vs the paper’s published design results
    Cation set: imidazolium (Im) and pyridinium (Py) cores with two alkyl chains, plus the 1-methylimidazolium (mIm) and 1-methylpyridinium (mPy) cations used as cores alone. The paper’s Table 3 gives mIm and mPy a valency of 1, but its published optima (Tables 9 and 16) are reproduced only with no added chain, so the lab follows the published numbers; molar masses are group sums, as in the paper. Without a chain, 1-methylimidazolium is a protic cation, outside the aprotic liquids the group parameters were fitted to. Chains are CH3 plus 0–5 CH2. Group contribution cannot tell positional isomers apart, so each point stands for all isomers with the same groups. The parameter table has no conductivity values for chloride, so chloride liquids appear only in the count. Predictions, not measurements.

    2.5 Solving the design problem

    The paper solved its case studies two ways: by decomposition, applying structural, pure-component and mixture constraints in sequence, and by a genetic algorithm. For maximum conductivity with η < 65 cP and Tm < 298.15 K, decomposition enumerated 138 structures, kept 26, and selected 1-methylimidazolium [Tf2N]; the genetic algorithm picked the same structure. For toluene/heptane separation the sequence was 185 → 27 → 1. Chapter 4 reimplements the genetic algorithm on this lab’s design space.

    2.6 Limits, and what comes next

    Group contribution works only for groups with fitted parameters, assumes contributions add, and cannot see isomers or long-range effects. The founder’s next step (dissertation, 2015; Fluid Phase Equilib. 2016) built melting-point and viscosity correlations on quantum-chemical descriptors that can be computed for any ion with a COSMO calculation; Chapter 3 covers that work and the step after it, descriptors learned from data. LILM is designed to combine all three, each with an applicability domain and an interval. Planned

    References

    1. Karunanithi, A. T.; Mehrkesh, A. Computer-aided design of tailor-made ionic liquids. AIChE J. 2013, 59, 4627–4640. doi:10.1002/aic.14228 (formulation, Eqs. 12–36, Tables 4–5, 8–9, 13, 15–16)
    2. Mehrkesh, A. Optimization-based design and analysis of tailor-made ionic liquids. Ph.D. dissertation, University of Colorado Denver, 2015. arXiv:1612.06407
    3. Gardas, R. L.; Coutinho, J. A. P. Extension of the Ye and Shreeve group contribution method for density estimation of ionic liquids in a wide range of temperatures and pressures. Fluid Phase Equilib. 2008, 263, 26–32. doi:10.1016/j.fluid.2007.09.016
    4. Gardas, R. L.; Coutinho, J. A. P. Group contribution methods for the prediction of thermophysical and transport properties of ionic liquids. AIChE J. 2009, 55, 1274–1290. doi:10.1002/aic.11737
    5. Aguirre, C. L.; Cisternas, L. A.; Valderrama, J. O. Melting-point estimation of ionic liquids by a group contribution method. Int. J. Thermophys. 2012, 33, 34–46. doi:10.1007/s10765-011-1133-5
    6. Mehrkesh, A.; Karunanithi, A. T. New quantum chemistry-based descriptors for better prediction of melting point and viscosity of ionic liquids. Fluid Phase Equilib. 2016, 427, 498–503. doi:10.1016/j.fluid.2016.07.006

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