Computational Catalysis & Operando Modeling

Research area – Prof. Dr. Evgeny A. Pidko

O Overview

Computational catalysis and operando modeling theme in our group connects catalytic theory with atomistic simulation and the real conditions under which catalysts work. We develop condition-dependent models that describe how catalyst speciation, reactivity landscape, and mechanism evolve in response to the reaction environment, and how this governs performance, selectivity, and durability. By combining quantum chemistry, automated structure sampling, microkinetic modeling, computational and operando spectroscopy, we strive to obtain a more realistic representations of catalytic systems beyond static textbook structures. This approach has delivered new insight into dynamic zeolite active sites, environmental effects in homogeneous catalysis, and the broader role of structural complexity in catalyst design.

Yang et al. JACS 2022
Yang et al., J. Am. Chem. Soc. 2022. https://doi.org/10.1021/jacs.2c00548
Tao, Khramenkova et al. JACS 2023
Tao, Khramenkova et al., J. Am. Chem. Soc. 2023. https://doi.org/10.1021/jacs.3c04328
Baidun et al. JPC Letters 2025
Baidun et al., J. Phys. Chem. Lett. 2025. https://doi.org/10.1021/acs.jpclett.5c01571

P Publications

Selected directly from the master publications page; one paper may appear in multiple research areas.

2026
268
A. A. Kolganov, M. Kling, M.P. Conley, E.A. Pidko* "Does the Guttman-Becket Method Relate to Lewis Acid Strength? Origin of the 31P NMR Chemical Shift in Lewis Acid Adducts of Triethylphosphine Oxide", J. Am. Chem. Soc. 2026, DOI: 10.1021/jacs.5c17621 Link
TOC #268
266
A. Kalikadien, E.A. Pidko* "Performance of Meta's Universal Model for Atoms Across the Conformational and Configurational Space of Diverse Transition-Metal Catalysts.", J. Phys. Chem. A 2026, 130, 1897 Link
264
M. Monai, W. Albrecht, A. Alkemper, et al. (incl. A.A. Kolganov, E.A. Pidko) "Grand Challenges and Opportunities in Stimulated Dynamic and Resonant Catalysis", ACS Catal. 2026, 16, 4077 Link Front Cover
263
A.A. Kolganov, S. Bougueroua, M.-P. Gaigeot, M.P. Conley, E.A. Pidko* "Graph theory-based exploration of structure and dynamics of surface organometallic catalysis", J. Catal. 2026, 453, 116521 Link
2025
261
M.S. Baidun, A.A. Kolganov, A.N. Alexandrova, E.A. Pidko* "Hydride Accessibility and Reactivity in the Configurational and Stoichiometric Space of β-Ga₂O₃ for CO₂ Hydrogenation", J. Phys. Chem. Lett. 2025, 30, 7732 Link
TOC #261
257
A.S. Kramarenko, D.I. Sharapa, F. Studt, E.A. Pidko* "Kinetics of Dissociative Electron Transfer in Electrocarboxylation of Benzyl Chloride", ACS Electrochem. 2025, 1, 1488 Link
256
S. Finta, A. Kalikadien, E.A. Pidko* "Data-driven virtual screening of conformational ensembles of transition metal complexes", J. Chem. Theory Comput. 2025, 21, 5334 Link
252
W. Yang, E. Nieuwlands, I.Yu. Chernyshov, G.A. Filonenko, E.A. Pidko* "Concentration-Dependent Thermodynamics of the Inhibitory Paths in Homogeneous Mn(I) Hydrogenation Catalysis", ChemCatChem 2025, 17, e202401237 Link Board Member Highlights
2024
250
A. Sreenithya, A.A. Kolganov, I.W. Ye, M.H. Risansyauqi, E.A. Pidko* "On the Oxidation State of Single-Atom Re/TiO₂ Hydrogenation Catalysts: A Computational Study", ACS Catal. 2024, 14, 18488 Link
249
A.S. Kramarenko, D.I. Sharapa, E.A. Pidko, F. Studt "Ab Initio Kinetics of Electrochemical Reactions Using the Computational Fc⁰/Fc⁺ Electrode", J. Phys. Chem. A 2024, 128, 9063 Link
246
A. Kramarenko, I. Yu. Chernyshov, E.A. Pidko* "Electric Double Layer effect on outer-sphere benzyl halides electro-reduction mechanism", J. Phys. Chem. C 2024, 128, 9462 Link
245
S. Bougueroua, Y. Aboulfath, A. Cimas, A. Hashemi, E.A. Pidko, D. Barth, M.-P. Gaigeot "Topological graphs: a review", C. R. Chim. 2024 Link
244
M.S. Baidun, A.V. Kalikadien, L. Lefort, E.A. Pidko* "Impact of Model Selection and Conformational Effects on the Descriptors for In Silico Screening Campaigns", J. Phys. Chem. C 2024, 128, 7987 Link
243
V. Buravets et al. (incl. A.A. Kolganov, E.A. Pidko) "Plasmon-assisted organic photoelectrochemistry – C-H amination as a model case", ChemPlusChem 2024, e202400020 Link
242
I. Yu. Chernyshov, E.A. Pidko* "MACE: Automated Assessment of Stereochemistry of Transition Metal Complexes and its Applications in Computational Catalysis", J. Chem. Theory Comput. 2024, 20, 2313 Link
TOC #242
2023
237
A. A. Kolganov, A. Sreenithya, E.A. Pidko* "Homogeneous Catalysis in Plastic Waste Upcycling: A DFT Study on the Role of Imperfections in Polymer Chains", ACS Catal. 2023, 13, 13310 Link
236
A. Hashemi, S. Bougueroua, M.-P. Gaigeot, E.A. Pidko* "High-Throughput Reactivity Exploration for Extended Databases of Transition Metal Catalysts", J. Chem. Inf. Model. 2023, 63, 6081 Link
TOC #236
235
L. Tao, E. Khramenkova, I. Lee, T. Ikuno, R. Khare, A. Jentys, J.L. Fulton, A.A. Kolganov, E.A. Pidko*, M. Sanchez-Sanchez, J.A. Lercher "Speciation and reactivity control of Cu-oxo clusters via extraframework Al in mordenite for methane oxidation", J. Am. Chem. Soc. 2023, 145, 17710 Link
TOC #235
234
N. Jiscoot, E. Uslamin, E.A. Pidko* "Model-based evaluation and data requirements for parallel kinetic experimentation and data-driven reaction identification and optimization", Digital Discovery 2023, 2, 994 Link
TOC #234
232
W. Yang, G. Filonenko, E.A. Pidko* "Performance of homogeneous catalysts viewed in dynamics", Chem. Commun. 2023, 59, 1757 Link
2022
230
A. Hashemi, S. Bougueroua, M.P. Gaigeot, E.A. Pidko* "ReNeGate: Reaction Network Graph Theoretical tool for automated mechanistic studies in computational homogeneous catalysis", J. Chem. Theory Comput. 2022, 18, 7470 Link
TOC #230
229
E. V. Khramenkova, H. Venkatraman, V. Soethout, E.A. Pidko* "Global optimization of extraframework ensembles in zeolites: on the structure of extra-framework aluminum species in MOR and MFI zeolites", Phys. Chem. Chem. Phys. 2022, 24, 27047 Link
224
W. Yang, T.Y. Kalavalapalli, A.M. Krieger, T.A. Khvorost, I.Yu. Chernyshov, M. Weber, E.A. Uslamin, E.A. Pidko*, G.A. Filonenko "Basic Promotors Impact Thermodynamics and Catalyst Speciation in Homogeneous Carbonyl Hydrogenation", J. Am. Chem. Soc. 2022, 144, 8129 Link
TOC #224
220
V. Sinha, E. Khramenkova, E.A. Pidko* "Solvent-mediated outer-sphere CO₂ electro-reduction mechanism over Ag111 surface", Chem. Sci. 2022, 13, 3803 Link
TOC #220
219
A.A. Kolganov, A.A. Gabrienko, I.Yu. Chernyshov, A.G. Stepanov, E.A. Pidko* "Property-Activity Relations of Multifunctional Reactive Ensembles in Cation-Exchanged Zeolites", Phys. Chem. Chem. Phys. 2022, 24, 6492 Link
2021
211
R. van Schendel, W. Yang, E. A. Uslamin, E. A. Pidko* "Utilizing Design of Experiments Approach to Assess Kinetic Parameters for a Mn Homogeneous Hydrogenation Catalyst", ChemCatChem 2021, 13, 4886 Link Front Cover
TOC #211
208
R. van Putten, E.A. Uslamin, E.A. Pidko "Automated high-resolution sampling and multi-mode operando spectroscopy of (bio-)chemical reactions", Invention Disclosure 2021, 1, 100002 Link
205
J. Meeprasert, G. Li, E.A. Pidko* "Mechanistic investigation of benzene esterification by K₂CO₃/TiO₂: the catalytic role of the multifunctional interface", Chem. Commun. 2021, 57, 7890 Link Back Cover
TOC #205
204
A. M. Krieger, E. A. Pidko* "The impact of computational uncertainties on the enantioselectivity predictions", ChemCatChem 2021, 13, 3517 Link
2020
189
A. Krieger, P. Kulyaev, F. Armstrong Hall, D. Sun, E.A. Pidko* "Composition- and Condition-Dependent Kinetics of Homogeneous Ester Hydrogenation by a Mn-Based Catalyst", J. Phys. Chem. C 2020, 124, 26990 Link
TOC #189
188
A. A. Kolganov, A.A. Gabrienko, I.Yu. Chernyshov, A.G. Stepanov, E.A. Pidko* "The accuracy challenge of the DFT-based molecular assignment of ¹³C MAS NMR characterization of surface intermediates in zeolite catalysis", Phys. Chem. Chem. Phys. 2020, 22, 24004 Link
182
M. Shi, G. Li, J. Li, X. Jin, X. Tao, B. Zeng, E.A. Pidko, R. Li, C. Li "Intrinsic Facet-dependent Reactivity of Well-defined BiOBr Nanosheets on Photocatalytic Water Splitting", Angew. Chem. Int. Ed. 2020, 59, 6590 Link
178
I.Yu. Chernyshov, I.V. Ananyev, E.A. Pidko* "Revisiting van der Waals radii: from comprehensive structural analysis to knowledge-based classification of interatomic contacts", ChemPhysChem 2020, 21, 370 Link Front Cover
TOC #178
175
P.O. Kulyaev, E.A. Pidko* "Operando modeling of multicomponent homogeneous catalytic solutions: from non-standard free energies to reaction network control", ChemCatChem 2020, 12, 795 Link
TOC #175
2019
172
D. Bohra, J.H. Chaudhry, T. Burdyny, E.A. Pidko, W.A. Smith "Modeling the electrical double layer to understand the reaction environment in a CO₂ electrocatalytic system", Energy Environ. Sci. 2019, 12, 3380 Link
167
G. Li, I. Vollmer, C. Liu, J. Gascon, E.A. Pidko* "Structure and Reactivity of the Mo/ZSM-5 Dehydroaromatization Catalyst: An Operando Computational Study", ACS Catal. 2019, 9, 8731 Link
166
R. van Putten, G.A. Filonenko, A. Gonzalez de Castro, C. Liu, M. Weber, C Müller, L. Lefort, E.A. Pidko* "Mechanistic complexity of asymmetric transfer hydrogenation with simple Mn-diamine catalysts", Organometallics 2019, 38, 3187 Link
159
K. D. Vogiatzis, M. V. Polynski, J. K. Kirkland, J. Townsend, A. Hashemi, C. Liu, E. A. Pidko* "Computational approach to molecular catalysis by 3d transition metals: challenges and opportunities", Chem. Rev. 2019, 119, 2453 Link
TOC #159
153
G. Li, E.A. Pidko* "The nature and catalytic function of cation sites in zeolites: a computational perspective", ChemCatChem 2019, 11, 134 Link
TOC #153
151
R.Y. Rohling, I.C. Tranca, E.J.M. Hensen, E.A. Pidko* "Mechanistic Insight into the [4+2] Diels-Alder Cycloaddition over First Row d-Block Cation-Exchanged Faujasites", ACS Catal. 2019, 9, 376 Link
TOC #151
2018
149
C. Liu, G. Li, E.A. Pidko* "Property-Activity Relations for Methane Activation by Dual-metal Cu-oxo Trimers in ZSM-5 Zeolite", Small Methods 2018, 2, 1800266 Link
148
C.J. Heard, L. Grajciar, A.A. Bondarenko, M.V. Polynski, J. Meeprasert, E.A. Pidko*, P. Nachtigall "Towards operando computational modeling in heterogeneous catalysis", Chem. Soc. Rev. 2018, 47, 8307 Link
TOC #148
147
G. Li, E.A. Pidko, E.J.M. Hensen, K. Nakajima "A density functional theory study of the mechanism of direct glucose dehydration to 5-hydroxymethylfurfural on anatase titania", ChemCatChem 2018, 10, 4084 Link
146
Á. Szécsényi, G. Li, J. Gascon, E.A. Pidko* "Unraveling reaction networks behind the catalytic oxidation of methane with H₂O₂ over a mixed-metal MIL-53(Al,Fe) MOF catalyst", Chem. Sci. 2018, 9, 6765 Link Inside Back Cover
TOC #146
142
Á. Szécsényi, G. Li, J. Gascon, E.A. Pidko* "The mechanistic complexity of methane oxidation with H₂O₂ by 'single-site' Fe/ZSM-5 catalyst", ACS Catal. 2018, 8, 7961 Link
TOC #142
138
R.Y. Rohling, I.C. Tranca, E.J.M. Hensen, E.A. Pidko* "Electronic Structure Analysis of the Diels-Alder Cycloaddition Catalyzed by Alkali-Exchanged Faujasites", J. Phys. Chem. C 2018, 122, 14733 Link
135
C. Liu, R. van Putten, P.O. Kulayev, G.A. Filonenko, E.A. Pidko* "Computational Insights into the Catalytic Role of the Base Promoters in Ester Hydrogenation with Homogeneous Non-Pincer-Based Mn-P,N Catalyst", J. Catal. 2018, 363, 136 Link
127
M.H. Habicht et al. (incl. E.A. Pidko) "2-(Trimethylsilyl)-λ³-Phosphinine: Synthesis, Coordination Chemistry and Reactivity", Chem. Eur. J. 2018, 24, 944 Link
2017
124
C. Liu, R.A. van Santen, A. Poursaeidesfahani, T.J.H. Vlugt, E.A. Pidko*, E.J.M. Hensen "Hydride Transfer versus Deprotonation Kinetics in the Isobutane-Propene Alkylation Reaction", ACS Catal. 2017, 7, 8613 Link
123
C. Liu, I. Tranca, R.A. van Santen, E.J.M. Hensen, E.A. Pidko* "Scaling Relations for Acidity and Reactivity of Zeolites", J. Phys. Chem. C 2017, 121, 23520 Link
122
K. D. Vogiatzis, G. Li, E.J.M. Hensen, L. Gagliardi, E.A. Pidko* "The electronic structure of the [Cu₃(μ-O)₃]²⁺ cluster in mordenite zeolite", J. Phys. Chem. C 2017, 121, 22295 Link
119
W.N.P. van der Graaff, C.H.L. Tempelman, E.A. Pidko*, E.J.M. Hensen "Influence of pore topology on synthesis and reactivity of Sn-modified zeolite catalysts for carbohydrate conversions", Catal. Sci. Technol. 2017, 7, 3151 Link
117
E.A. Pidko* "Towards the balance between the reductionist and systems approaches in computational catalysis: model versus method accuracy for the description of catalytic systems", ACS Catal. 2017, 7, 4230 Link Viewpoint, Front Cover
TOC #117
2016
108
C. Liu, G. Li, E.J.M. Hensen, E.A. Pidko* "Relationship between acidity and catalytic reactivity of faujasite zeolite: a periodic DFT study", J. Catal. 2016, 344, 570 Link
101
B. M. Szyja et al., E.A. Pidko* "A DFT study of CO₂ hydrogenation on faujasite supported Ir₄ clusters: on the role of water for selectivity control", ChemCatChem 2016, 8, 2500 Link
100
G. Li, E.A. Pidko*, E.J.M. Hensen "A periodic DFT study of glucose to fructose isomerization on tungstite: influence of dopants and cooperativity with hydroxyl groups", ACS Catal. 2016, 6, 4162 Link
98
G. Li, P. Vassilev, M. Sanchez-Sanchez, J. Lercher, E.J.M. Hensen, E.A. Pidko* "Stability and reactivity of copper oxo-clusters in ZSM-5 zeolite for selective methane oxidation to methanol", J. Catal. 2016, 338, 305 Link
2014
83
G.A. Filonenko, E.J.M. Hensen, E.A. Pidko* "Mechanism of CO₂ Hydrogenation to Formates by Homogeneous Ru-PNP Pincer Catalyst", Catal. Sci. Technol. 2014, 4, 3474 Link
75
G. Yang, B. Schäffner, M. Blug, E.J.M. Hensen, E.A. Pidko* "A mechanistic study of Ni-catalyzed carbon dioxide coupling with ethylene towards the manufacture of acrylic acid", ChemCatChem 2014, 6, 800 Link
2013
67
G. Yang, E.A. Pidko*, E.J.M. Hensen "The mechanism of glucose isomerization to fructose over Sn-BEA zeolite: a periodic density functional theory study", ChemSusChem 2013, 6, 1688 Link
62
M. Goesten et al. (incl. E.A. Pidko) "The Molecular Pathway to ZIF-7 Microrods Revealed by In Situ Time-Resolved SAXS/WAXS/EXAFS and DFT Calculations", Chem. Eur. J. 2013, 19, 7809 Link
58
S.M.T. Almutairi et al. (incl. E.A. Pidko) "Influence of extraframework aluminium on the Brønsted acidity and catalytic reactivity of faujasite zeolite", ChemCatChem 2013, 5, 452 Link
2012
56
G. Yang, E.A. Pidko*, E.J.M. Hensen "Mechanism of Brønsted acid catalyzed conversion of carbohydrates", J. Catal. 2012, 295, 122 Link
55
I.A.W. Filot et al., E.A. Pidko* "The origin of isotope-induced helical-sense bias in supramolecular polymers of benzene-1,3,5-tricarboxamides", Phys. Chem. Chem. Phys. 2012, 14, 13997 Link
52
E.A. Pidko*, V. Degirmenci, E.J.M. Hensen "On the Mechanism of Lewis Acid Catalyzed Glucose Transformations in Ionic Liquids", ChemCatChem 2012, 4, 1263 Link Front Cover
TOC #52
49
S.M.T. Almutairi, B. Mezari, P.C.M.M. Magusin, E.A. Pidko*, E.J.M. Hensen "Structure and reactivity of Zn-modified ZSM-5 zeolites. The importance of clustered cationic Zn complexes", ACS Catal. 2012, 2, 71 Link
2011
47
G. Li, E.A. Pidko, R.A. van Santen, Z. Feng, C. Li, E.J.M. Hensen "Stability and reactivity of active sites for direct benzene oxidation to phenol by Fe/ZSM-5", J. Catal. 2011, 284, 194 Link
43
M.F. Fellah, E.A. Pidko, R.A. van Santen, I. Onal "A DFT study of direct oxidation of benzene to phenol by N₂O over [Fe(μ-O)Fe]²⁺ complexes in ZSM-5 zeolite", J. Phys. Chem. C 2011, 115, 9668 Link
2010
36
L. Bini et al. (incl. E.A. Pidko) "Nickel-catalyzed isomerization of 2-methyl-3-butenenitrile to 3-pentenenitrile. A kinetic study using in situ FTIR-ATR spectroscopy", Catal. Today 2010, 155, 271 Link
2009
26
E.A. Pidko*, R.A. van Santen "Structure–reactivity relationship for catalytic activity of gallium oxide and sulfide clusters in zeolite", J. Phys. Chem. C 2009, 113, 4246 Link
2008
21
P. Mignon, E.A. Pidko, R.A. van Santen, P. Geerlings, R.A. Schoonheydt "Understanding the reactivity and basicity of zeolites. A periodic DFT study of the N₂O₄ disproportionation over alkaline cation-exchanged zeolite Y", Chem. Eur. J. 2008, 14, 5168 Link
19
E.A. Pidko*, E.J.M. Hensen, G.M. Zhidomirov, R.A. van Santen "Non-localized charge compensation in zeolites: a periodic DFT study of cationic gallium-oxide clusters in mordenite", J. Catal. 2008, 255, 139 Link
18
E.A. Pidko*, P. Mignon, P. Geerlings, R.A. Schoonheydt, R.A. van Santen "A periodic DFT study of N₂O₄ disproportionation on alkali-exchanged zeolites X", J. Phys. Chem. C 2008, 112, 5510 Link
2007
13
R.A. van Santen, W.K. Offermans, K. Malek, E.A. Pidko "Computational modeling of catalytic reactivity", Molec. Simul. 2007, 33, 327 Link
11
E.A. Pidko*, R.A. van Santen "Activation of light alkanes over zinc species stabilized in ZSM-5 zeolite: a comprehensive DFT study", J. Phys. Chem. C 2007, 111, 2643 Link
2006
10
E.A. Pidko* et al. "Interplay of bonding and geometry of the adsorption complexes of light alkanes within cationic faujasites. Combined spectroscopic and computational study", J. Phys. Chem. B 2006, 110, 22618 Link
9
E.A. Pidko*, R.A. van Santen "The conformations of alkanes adsorbed on zeolitic cations", ChemPhysChem 2006, 7, 1657 Link
2005
6
E. Pidko*, V. Kazansky "σ-Type ethane adsorption complexes with Cu⁺ ions in Cu(I)-ZSM-5 zeolite. Combined DRIFTS and DFT study", Phys. Chem. Chem. Phys. 2005, 7, 1939 Link