Dan O'Leary
@doleary47.bsky.social
I'm a professor of chemistry at Pomona College in Claremont, California. I teach general and organic chemistry, NMR spectroscopy, and computational chemistry. My research interests span these realms + the history of science + 3D printing pedagogies.
I worked with this program for 20 years. It only funded students interested in chemistry and chemical engineering careers. I'm saddened to see it terminated.
May 8, 2025 at 10:46 PM
I worked with this program for 20 years. It only funded students interested in chemistry and chemical engineering careers. I'm saddened to see it terminated.
The animation pairs with this slide:
May 1, 2025 at 10:35 PM
The animation pairs with this slide:
Dan and Cecil the Sagehen.
April 28, 2025 at 6:20 PM
Dan and Cecil the Sagehen.
Thanks! We've been approaching this from a DIY point of view, with hopes of enabling others to do the same. That said, it would be interesting to learn more about marketability. HGS Maruzen remains my favorite molecular model company.
April 19, 2025 at 1:47 PM
Thanks! We've been approaching this from a DIY point of view, with hopes of enabling others to do the same. That said, it would be interesting to learn more about marketability. HGS Maruzen remains my favorite molecular model company.
Workflow for models previously used in the classroom:
pubs.acs.org/doi/10.1021/...
pubs.acs.org/doi/10.1021/...
Multicolor 3D-Printed Molecular Orbital Models for a First-Semester Organic Chemistry Course
We have developed a set of multicolor 3D-printed structural and molecular orbital models for use in a first-semester organic chemistry course. These models provide visual and tactile insights regarding aspects of organic structure, reactivity, and mechanistic “arrow pushing”. The set includes: 1. orbital models of σ and π bonding in methane and ethylene, 2. σCH–σ*CH hyperconjugation in staggered and eclipsed ethane conformations, 3. LUMO accessibility in SN2 electrophiles and HOMO–LUMO orbital interactions in SN2 transition states, 4. E2 transition state structure and orbital interactions in β-hydrogen removal and π bond formation, 5. σCH–pC hyperconjugation in the ethyl cation, 6. transition state structure and σCH–pC orbital interactions in a carbocation 1,2-hydride shift, 7. late and early, respectively, Br• and Cl• H atom radical abstraction transition state structures and SOMO orbitals, 8. bromonium ion structure and LUMO orbital, 9. protonated epoxide ion and neutral epoxide structures and LUMO orbitals, 10. transition state structure and orbital interactions in a hydroboration reaction, 11. transition state structure and orbital interactions in the lithium aluminum hydride reduction of formaldehyde, and 12. π molecular orbitals in 1,3-butadiene. The prints are made with hobby-grade 5-color 3D fused deposition modeling (FDM) printers and sized to provide compact take-home class handouts for each student or projected in-class with a document camera. Models are fabricated with orbital or electron density surface bisections and text annotations to enhance information content. Student perceptions of this set of 3D-printed molecular models are generally favorable and have improved their understanding of course materials.
pubs.acs.org
April 18, 2025 at 1:58 PM
Workflow for models previously used in the classroom:
pubs.acs.org/doi/10.1021/...
pubs.acs.org/doi/10.1021/...
Thank you! I'll share this link with students tomorrow.
April 2, 2025 at 10:47 PM
Thank you! I'll share this link with students tomorrow.
Workflow:
pubs.acs.org/doi/10.1021/...
pubs.acs.org/doi/10.1021/...
Do-It-Yourself 5-Color 3D Printing of Molecular Orbitals and Electron Density Surfaces
This report outlines an approach for preparing 5-color 3D printed plastic models of molecular orbitals and electron density surfaces using a hobby-grade 3D printer. Instructions are provided for preparing 3D orbital and electron density surface (EDS) models using solid or mesh representations in ground state and transition state structures. We show that the information content of 3D orbital and surface models can be enhanced with text annotation, bisection, strut and dashed bond placement, and composite orbital-EDS model constructions. Example prints illustrate orbital concepts in organic and inorganic chemistry, such as the ethyl cation (σ–p hyperconjugation), methane (hybridization and C–H bonding), ethane (σ–σ* hyperconjugation in the staggered and eclipsed conformations), 2-hydroxytetrahydropyran (the anomeric effect/n−σ* hyperconjugation), the water dimer (hydrogen bonding/n−σ* overlap), ethylene, 1,3-butadiene, and benzene (π molecular orbitals), Re2Cl82–, and U2(COT)2 (metal–metal quadruple bonds). Transition state models illustrate orbital interactions in the SN2 reaction of cyanide with methyl, ethyl, and isopropyl chloride and in a hydroboration reaction of BH3 with propene. Composite EDS models of methyl and isopropyl chloride (for exploring their relative reactivities as SN2 electrophiles) and methylcyclohexane (visualizing 1,3-diaxial interactions) are described. Student perceptions of a multicolor 3D orbital print used in an introductory organic chemistry laboratory course are reported.
pubs.acs.org
April 2, 2025 at 5:27 PM
Workflow:
pubs.acs.org/doi/10.1021/...
pubs.acs.org/doi/10.1021/...
Thank you for sharing! In some years, a friend on the music faculty will provide students with a brief synopsis of Borodin's musical contributions. One year, he even collaborated with a student in the class and performed a piano piece written by a very young Borodin. That was a fun class!
March 26, 2025 at 9:23 PM
Thank you for sharing! In some years, a friend on the music faculty will provide students with a brief synopsis of Borodin's musical contributions. One year, he even collaborated with a student in the class and performed a piano piece written by a very young Borodin. That was a fun class!
Thanks! We have some peptide systems coming up that you might like too.
March 26, 2025 at 9:18 PM
Thanks! We have some peptide systems coming up that you might like too.
All set to the music of Georgian-Russian composer and chemist Alexander Borodin, an early investigator of the aldol reaction. 🎶🎵🧪🧬⚗️
March 26, 2025 at 8:00 PM
All set to the music of Georgian-Russian composer and chemist Alexander Borodin, an early investigator of the aldol reaction. 🎶🎵🧪🧬⚗️
Workflow and 3mf files: pubs.acs.org/doi/10.1021/...
Multicolor 3D-Printed Molecular Orbital Models for a First-Semester Organic Chemistry Course
We have developed a set of multicolor 3D-printed structural and molecular orbital models for use in a first-semester organic chemistry course. These models provide visual and tactile insights regardin...
pubs.acs.org
March 21, 2025 at 2:55 AM
Workflow and 3mf files: pubs.acs.org/doi/10.1021/...
Poster: Hiwot Endeshaw and Jaylyn Gonzalez, "Development of 3D-Printed Molecular Orbital Teaching Models for Advanced Topics in Chemistry and Biologically Relevant Systems", Monday 3/24, 12:00 PM - 2:00 PM, Hall B2/C SD Convention Center, Poster Board #441.
March 21, 2025 at 2:55 AM
Poster: Hiwot Endeshaw and Jaylyn Gonzalez, "Development of 3D-Printed Molecular Orbital Teaching Models for Advanced Topics in Chemistry and Biologically Relevant Systems", Monday 3/24, 12:00 PM - 2:00 PM, Hall B2/C SD Convention Center, Poster Board #441.
Talk: Daniel O'Leary, "3D-Printed Molecular Orbitals and Transition State Structures for a First-Semester Organic Chemistry Course", Sunday 3/23, 8:25-8:45 AM, Hall B-1, Room 2, SD Convention Center.
March 21, 2025 at 2:55 AM
Talk: Daniel O'Leary, "3D-Printed Molecular Orbitals and Transition State Structures for a First-Semester Organic Chemistry Course", Sunday 3/23, 8:25-8:45 AM, Hall B-1, Room 2, SD Convention Center.
Our workflow is outlined here: pubs.acs.org/doi/10.1021/...
Multicolor 3D-Printed Molecular Orbital Models for a First-Semester Organic Chemistry Course
We have developed a set of multicolor 3D-printed structural and molecular orbital models for use in a first-semester organic chemistry course. These models provide visual and tactile insights regardin...
pubs.acs.org
March 6, 2025 at 6:09 PM
Our workflow is outlined here: pubs.acs.org/doi/10.1021/...