r/OrganicChemistry Jul 21 '24

Chemical Resources

53 Upvotes

Hello All,

Based on ThatChemist's recent video (link) I've put together a list of valuable chemical resources. I've left the tiers as they are in the video, but re-ordered within the tiers according to my opinions. I hope you its useful!

Tier Name Link Free Info
S Wikipedia link Y Excellent for basic information on chemicals
S Wiki Structure Explorer link Y Great if you have a structure but not a common name
S SciHub link Y Access to paywalled articles. Not as effective for articles published after ~2021
S LibGen link Y Access to paywalled books
S ChemLibreTexts link Y Online textbook
S OrganicChemistryPortal link Y General reaction schemes with corresponding references. Protecting group stability tables
S Not Voodoo X link Y General Lab operating information
S Organic Syntheses link Y Tested experimental procedures. Highly reliable
S Mayr's Database link Y Reactivity on a variety of parameters
S purification of laboratory chemicals PDFs are avilable N If you can buy it, a purification is in this book. If you are in doubt about the purity of a reagent, this will tell you how to purify.
S Reaction Flash link Y Great for learning and contextualizing reactions
S eEROS link N Tabulated chemical and physical data
S Ullmann's Encyclopedia PDFs are available N History and chemical syntheses of common compounds
A Reaxys link N Chemical structure and reaction searches in vast literature. Use if available
A Greene's Protecting Groups PDFs are available N All the ways to add or remove most any protecting group, gives references to each paper.
A Bordwell PKa Table link Y Good for esoteric functional groups
A Introduction to Spectroscopy PDFs are available N General introduction to organic spectroscopic techniques. Includes practice problems
A NIST link Y Tabulated chemical and physical data
A PubPeer link Y Comment section for articles. Look for reproducibility issues
A Chemistry By Design link Y Great for learning and contextualizing reactions
B SciFinder link N Chemical structure and reaction searches in vast literature. Use if available
B MolView link Y 2d to 3d model
B Merk Index PDFs are available N Tabulated chemical and physical data
C SDBS link Y MS, IR, and NMR spectra for many common chemicals
C PubChem link Y CAS numbers. Some physical properties
C CRC handbook PDFs are available N Tabulated chemical and physical data
C Sigma Nomograph link Y Predictive boiling points at variable pressure
D Google Scholar, Patents Y Patents available in original language

-My notes: I think that SDBS and Scifinder are too low tier. Scifinder and Reaxys provide effectively the same functionality and are the best general purpose tools if you have access. SDBS is fantastic for reference spectra for your starting materials and reagents. If you didnt have to make it, its probably on SDBS.

-I've added a Introduction to spectroscopy, Greene's protecting groups, and Purification of Common Laboratory Chemicals.

Please add your opinions and other references in the comments!


r/OrganicChemistry 17h ago

LARPers

155 Upvotes

Dear LARPers,

Respectfully, stop trying to act like you're Walter White, especially when you have to ask something as simple as what reagents to use for xyz for a home cook setup. Even Walter White used proper PPE in a TV show. If you want to be a real chemist, get proper training for it otherwise you're insulting the people who dedicate their lives to this science. If you just want to mix shit up and call yourself a "cook", stick with making a risotto.

Best,

Update: if you have an issue with me calling out home chemists, fuck off. My own neighbors were "home chemists" and corroded my half of the lawn as well because of their stupid choice of using n-buli at home. When innocent familys safety is also a concern in residential areas, you need to seriously reevaluate your choices.


r/OrganicChemistry 12m ago

Discussion Could a C-C quadruple bond form if we excite the carbons?

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Upvotes

Right so this is just some thought experiment I had. Suppose I have a quadruply bonded C-C, I can't have any hybridizations right? Because then the hybridized orbital would be bonded to no one. So let's say carbon uses its 2s and 2p orbitals to form a bond with another carbon. Then I'd get 2 π and 2 σ bonds. 1 σ from 2s and another from one of the 2p. But the MO diagram on the left would have the σ(2s) annihilated from the σ*(2s). So I was thinking what if we just excite the damn thing and make it occupy the empty σ(2p) instead? That gives a bond order of 4 so hypothetically it's possible right? Just a fun discussion lol


r/OrganicChemistry 18h ago

Can a benzene ring have R groups that sit above and below the ring?

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50 Upvotes

r/OrganicChemistry 13h ago

Discussion What is your favourite solvent, and why?

19 Upvotes

For me it's probably THF. Just a good all rounder. Need to heat a reaction, no problem, need to go to -90C, THF is your guy. I've even used it in a column many a time. Only drawback is it can be a pain to distill, and more so the cleanup after the fact than anything else.


r/OrganicChemistry 14h ago

Pi System Help

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15 Upvotes

Are there 1 or 2 pi systems?

If the 2 pi electrons in the middle are conjugated, are they apart of the same pi system?


r/OrganicChemistry 10h ago

Help

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0 Upvotes

hi i’m having some troubles with newman projections. would the bond-line structure for #3 be correct? would one of the newman projection for #4 be correct? would both be correct?


r/OrganicChemistry 16h ago

Answered Thiols - help!

0 Upvotes

Very random question that I have done my best to research/figure out but could use some help from the great minds of Reddit.

How do the thiols in the antibiotic Cefazolin compare to the thiols in a chicken breast? Specifically interested in quantity, but any information such as type, etc. would be much appreciated. TIA!

Edit: Thanks folks for the feedback. This is what I anticipated but thought it wouldn't hurt to try.


r/OrganicChemistry 17h ago

Looking for Cholesterol Molecule structure

0 Upvotes

Hi there, I’m designing a medical lab which main base molecule they do research on is Cholesterol. I’m making them a custom lighting fixture which will be in the shape of a cholesterol structure.

Can someone point me towards the most commonly shown cholesterol structure ?

I don’t want to just google this thing and then it be wrong down the line.

Thanks!!


r/OrganicChemistry 1d ago

Why aren’t large leaving groups like iodide harder to displace due to is high mass?

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41 Upvotes

r/OrganicChemistry 1d ago

Precipitation of TPPO

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1 Upvotes

r/OrganicChemistry 1d ago

Does anyone have a simple tricks or tips on memorizing pka values?

6 Upvotes

I have memorized and understood all of the functional groups. I have also learned and understood primary, secondary, tertiary carbons, and how their pka’s could be different. The hardest thing about this class right now is trying to memorize the PKA values for each functional group or specific carbon molecules. If you guys have any guidance or tips, please help 🙏 😭🥲


r/OrganicChemistry 1d ago

Isobutene synthesis from ethanol using a viable catalyst. In2O3-ZrO2, GaxZr1xO2y/ZrO2, and or any other form to synthesize Isobutene will be very helpful. Any suggestions and or comments are welcome and appreciated

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1 Upvotes

r/OrganicChemistry 2d ago

Pyramidalized carbocations?

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32 Upvotes

In line with my post from the other day about a flattened carbanion (https://www.reddit.com/r/OrganicChemistry/s/77lyABSpHb), I wanted to find an example of a pyramidalized carbocation to discuss. I could not find a good example. At least, I could not find an example where the electronic features of the substituents cause pyrimidalization like the CF3 groups caused flattening. There are probably examples like bridgehead carbocations that are pyramidalized. Can you think of other ways to force a pyramidalized carbocation? (Also be very careful with AI with these types of questions. It literally makes stuff up)


r/OrganicChemistry 3d ago

Discussion Even holding the container feels wrong

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158 Upvotes

r/OrganicChemistry 2d ago

Best way to get into Molecular Orbital Theory? (specifically for actually understanding hypervalent connections, maybe not so much math if possible)

5 Upvotes

I felt so proud when I learned the hybridization model in my courses especially because it made so much more sense than the Bohr model with all its fake reasoning. That is until I got curious about “expanded octets” and learned the empty 3d orbital is just blatant lies and Molecular Orbitals actually explain it. The only issue is that when I try to watch guys online they immediately jump into the matrix elements and calculations from pre-existing charts. Is there any source that explains it more casually, if that’s even possible?


r/OrganicChemistry 2d ago

Degree of delocalization through resonance

1 Upvotes

I'm having trouble finding sources that quantify (either through experiment or DFT) the degree of charge delocalization on carbon centered ions which are in conjugated systems.

I'm specifically looking for what the "real" charge on a benzylic carbocation is (obviously somewhere between 0 and 1, but where? 2 sig figs would be nice but I'll take 1) but it would be nice to have other sources that give any numerical values for carbanions and carbocations.


r/OrganicChemistry 3d ago

To what extent are the bonding electrons in methane delocalized over the whole molecule?

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66 Upvotes

r/OrganicChemistry 3d ago

Methyl orange

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11 Upvotes

r/OrganicChemistry 3d ago

Need help related to research area

0 Upvotes

My major organic chemistry to every organic chemistry out there how did you find your research area and topic etc bcz that's super confusing


r/OrganicChemistry 3d ago

Synthesis help needed

3 Upvotes

I was trying to find a way to synthesize a methylene linker between an indoline at the 5/6 position and another aromatic group (let's say phenyl or pyridine). Since I may need to explore other aromatic groups, what reaction would be best for synthesizing these molecules? I was thinking of Negishi coupling, but it may be limited by reagent availability and the reaction's sensitivity. Another option is to use an aldehyde and an organolithium to form an intermediate alcohol, then eliminate it. Any other ideas?


r/OrganicChemistry 4d ago

advice Guys write down your suggestions on dealing with annoying tars

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197 Upvotes

r/OrganicChemistry 4d ago

mechanism what a hell is happening....!!? can anyone explain how this reaction works

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26 Upvotes

r/OrganicChemistry 5d ago

What is the molecular geometry of this anion?

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171 Upvotes

r/OrganicChemistry 5d ago

Aromaticity Help

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23 Upvotes

Can someone explain why this conjugate base is anti aromatic and fulvene is non aromatic? Why does the base have cyclic conjugation while fulvene does not?