Unanswered Questions

6,436 questions with no upvoted or accepted answers
47
votes
0answers
1k views

How can I update a map/mesh and coordinates in a PyMol session file?

I have a PyMol session file I was using to create my figures. It contains a protein and ligand broken into several groups of atoms with a fair bit of overlap. There are also a few meshes built from ...
27
votes
0answers
431 views

Single-molecule magnet with electrically-controlled permeability: How does the Titan Shield from Deus Ex work?

In a recent installment of Deus Ex game series there is an augmentation called "Titan Shield" (it has nothing to do with $\ce{Ti}$ element): A neodymium skin underlay matrix built of nano-...
25
votes
3answers
773 views

How does the silver nucleate on glass in Tollen's reagent mirroring?

I'm trying to figure out how exactly does the silver start to grow during a mirroring with Tollen's reagent. I've made two pictures to illustrate how i see the nucleation/growth process of silver on ...
23
votes
1answer
12k views

Melting and boiling point trend in Group II

The following picture shows the melting and boiling point trends down group II elements. I have added question marks where the variability in data was rather disturbing (over two hundred degrees ...
20
votes
1answer
783 views

Ambimodal transition states in some organic reaction pathways

In many computational studies, mechanisms appear to have so-called ambimodal transition states, i.e. a transition state which can lead to multiple products, in conflict to the common undergraduate ...
19
votes
1answer
254 views

Mechanistic Explanation of Circular Dichroism

I'm wondering if someone can give me a physically motivated reason for why chiral molecules interact with left and right circularly polarized light (LCP) (RCP) differently. Particularly, a quantum ...
16
votes
0answers
175 views

Synthesis Golf XI: Hyperielliptone HA

It has been a little over a year since the last synthesis-golf was posted. I have talked to orthocresol and would like to help revive the tag! A full FAQ post has been written on chemistry.meta.SE, ...
16
votes
0answers
322 views

f-electrons in chemistry of heavy transition metals

In one lecture on recent MCR-X conference I was puzzled by a side-note "f-hole is critical to describe DoS of $\ce{IrO2}$ correctly." The context was DFT periodic plane-wave calculations with ...
16
votes
0answers
288 views

Manuals for a Cahn TG-171 Thermogravimetric Analyzer

Recently a Cahn TG-171 Thermogravimetric Analyzer was donated to my school. We did not get a service or user's manual with it, and some of it still needs to be put back together. I have tried to ...
16
votes
1answer
2k views

Why is the endo product the major product in a Diels-Alder reaction?

I understand that the endo product is, at least in all cases in my textbook, the major product in a Diels-Alder reaction. However, I don't understand why this is the case. The explanation in my ...
15
votes
2answers
632 views

Why are two three-membered rings preferred to a single five-membered ring in the reaction of a dihalide with alcoholic KOH?

The given answer is 1,1-dicyclopropylmethanone: Step 1 is abstraction of acidic H by the strong base. Then, there's surely going to be anchimeric assistance. But there can be two places where the ...
14
votes
0answers
2k views

How to Calculate Transition Dipole Moment from Two Known Wavefunctions

I am interested in calculating the transition dipole moment (TDM) from the information from two wavefunctions of different states. This is somewhat similar to calculating the molecular dipole moment ...
14
votes
1answer
404 views

How to treat pressure in computational chemistry?

I have a reaction where a gas at high pressure and a solution with all kinds of species is involved. How do I take pressure correctly into account to get reasonable values for $G$? Do I calculate ...
13
votes
1answer
4k views

In rovibrational spectra, when exactly is the Q branch forbidden?

I'm aware that the Q branch ($\Delta j = 0$) is usually not observed in rotational-vibrational spectra of diatomic molecules in the gas state, however, I've heard different things about when exactly ...
12
votes
0answers
156 views

Calculating Triplet-Triplet Spin-Orbit Coupling

According to the Q-Chem manual [1], the singlet-triplet spin-orbit couplings between a singlet excited state $I$ and a triplet excited state state $J$ is: $$\langle\Phi_\text{singlet}^I|\hat{\mathrm H}...

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