It’s not easy being green

In yesterday’s issue of Nature, we published a paper from Amir Hoveyda‘s and Mark Snapper’s groups at Boston College. The paper describes a simple metal-free catalyst that can perform enantioselective catalytic silylations on a variety of meso 1,2-diols, obtaining mono-protected chiral diols.

In the accompanying News & Views article, Scott Denmark wrote

The chemical yields and enantiomeric selectivities of the reactions are very good – in some cases, excellent – although the reaction times are long (2-3 days). Relatively large amounts of the catalyst are required, but this is not a problem as the catalyst is simple to prepare from inexpensive starting materials. Clearly this is just the beginning of a development process and more active catalysts will be forthcoming.

These kinds of catalysts could shave several steps off synthetic routes to prostaglandin analogues, unnatural nucleosides, and neocarzinostatin analogues, which currently require a number of chemical transformations and an enzymatic de-acylation to obtain a key building block. By shortening the synthetic route, the amount of chemical waste produced can be minimized and the amount of time needed to make the molecule can be dramatically reduced. Denmark concludes the News & Views article by saying that

this procedure is likely to have a significant impact on the efficiency and cost of constructing single-enantiomer products. Most importantly, however, this report demonstrates the creative power of synthetic chemistry to build simple organic catalysts that mimic and ultimately surpass, biological catalysts – especially for non-biological transformations.

Collaborations between two well-known organic chemistry labs aren’t extremely common, and Hoveyda talked about this phenomenon on our ‘Authors’ page:

Hoveyda says the synthetic organic chemistry field has traditionally been wary of two principal investigators sharing credit on single papers. “The culture almost discourages it,” he says. Early on, colleagues warned Snapper that working with a more senior researcher could hurt his career. But their partnership has been fruitful; the two have received joint grants from the National Institutes of Health since 1997 and have published about 20 papers together. “The reason this collaboration has been so successful is that neither of us cares who gets the credit,” Hoveyda adds.

If you’d like to learn more about the research, Hoveyda was interviewed on this week’s Nature Podcast (he also appears on the recent chemistry podcast). And if you’re in San Francisco at the Fall ACS Meeting next week, you can see Yu Zhao talk about the work on Monday afternoon.

Joshua

Joshua Finkelstein (Associate Editor, Nature)

NPG at the 2006 Fall ACS meeting

As I mentioned yesterday, I’ll be attending the ACS meeting next week… You might remember that we created a special conference website for the Spring ACS meeting – well, we’ve updated the conference website for this ACS meeting:

– once again, there is a list of some of the sessions the editors will be attending.

– there is a special edition of the Nature Podcast, in which Dr. Simon Frantz talks with the authors of several recent chemistry papers from Nature, Nature Reviews Drug Discovery, Nature Chemical Biology, Nature Materials, and Nature Methods. The five papers featured on this podcast are:

Enantioselective silyl protection of alcohols catalysed by an amino-acid-based small molecule by Zhao et al. (Nature)

Targeting proteases: successes, failures and future prospects by Turk (Nature Reviews Drug Discovery)

Small-molecule activation of procaspase-3 to caspase-3 as a personalized anticancer strategy by Putt et al. (Nature Chemical Biology)

Molecular computational elements encode large populations of small objects by de Silva et al. (Nature Materials)

An unnatural hydrophobic base pair system: site-specific incorporation of nucleotide analogs into DNA and RNA by Hirao et al. (Nature Methods)

We’ve also added a few recently published papers to the list of exciting chemistry papers from Nature, Nature Chemical Biology, Nature Materials, and Nature Methods – some of these papers can be downloaded for free during the ACS meeting. We hope you enjoy reading these papers as much as we did, and would love to hear what you think about them…

And finally, I’d like to mention that this happens to be our 100th blog entry – on behalf of all of us, I’d like to thank you for coming back here week after week…

We’ll be adding blog entries throughout the conference, so please check back frequently to see what we’re writing about…

See you at the meeting!

Joshua

Joshua Finkelstein (Associate Editor, Nature)

Sympathy for the chemist

For some reason, many non-scientists (and even some scientists) see chemists as “”https://www.nature.com/nature/journal/v440/n7082/full/440256a.html">nefarious creators of toxic pollutants … [or] mad scientists brewing up Love Potion #9 in … [a] cluttered and archaic laboratory." Or worse yet, they think chemistry is boring and/or useless…

The editorial in the September 7th issue of Nature tries to capture why organic chemistry is interesting and attempts to explain some of the things that excite the ‘average’ organic chemist. (Though the editorial is mainly about organic chemistry, I think many of the statements in the editorial are true for other areas of chemistry…)

Many organic chemists spend their days searching for creative solutions to real-world problems, yet the media pays them just a fraction of the attention devoted to physicists or biologists. Even fellow scientists think organic chemistry is esoteric … [But a]sk a group of organic chemists why they love their work … and most will tell you that it enables them to make things that no one else has made before … ©hemists are frequently drawn to the field because there is not just one way to solve the problem, and the search can reveal a bit more about how the world works.

When people ask me why I like being an editor, I often tell them that it’s like being a first year graduate student again: every day I get to read exciting chemistry papers and often feel like that “”https://www.nature.com/nature/journal/v443/n7107/full/443001b.html">child in a sweetshop" – there are so many interesting discoveries out there, and countless problems that still need to be solved. The excitement peaks when I’m at a meeting – I love going to sessions and hearing people talk about their unpublished/newly published work, meeting students and post-docs at the poster sessions, and chatting with speakers after the talks about their future plans…

With that in mind, I hope to bump into you at the ACS meeting next week – keep an eye out for Catherine Goodman (from Nature Chemical Biology), Mirella Bucci (from Nature Chemical Biology), and Emma Marris (from the Nature news team) who are also in town for the meeting. And don’t forget to check back here regularly, as we’ll be blogging throughout the meeting…

Hope to see you there,

Joshua

Joshua Finkelstein (Associate Editor, Nature)

I still haven’t found what I’m looking for

In this month’s issue of Nature Reviews Drug Discovery, Monya Baker wrote a ‘News & Analysis’ piece about open access chemistry databases: though there are a number of free chemical databases (including PubChem, which I blogged about last spring), “the chemical data [in these open access databases] still pale in comparison to what already exists in other databases and the published literature.”

One problem is that it takes a great deal of time to collect data for these large databases: “PubChem’s director, Stephen Bryant, says he lacks the staff and mandate to collect data from published literature and patents.” So it’s not surprising that the Chemical Abstracts Service (CAS) database contains more chemical information than PubChem: whereas PubChem has about eight million unique structures, CAS contains nearly 30 million organic and inorganic substances.

In addition, there are some concerns about quality control in these open access databases: “[t]he screening data [in PubChem] are less rigorous than those in peer-reviewed articles, and contain many false positives. Deposited data aren’t curated, and so mistakes in structures, units and other characteristics can and do occur.” I can’t imagine how frustrating it would be to synthesize a molecule that was listed as a ‘hit’ in one of those databases just to find out that it was inactive because someone mixed up the stereochemistry (or omitted a double bond)…

What are your experiences with these databases? Have you used them in your own work? If so, were they useful? What would you do to make them better? Do you think that the problems with these open access databases are the sort of ‘growing pains’ that happen for any new technology/database, or is there something special/unique about developing open access chemistry databases?

Joshua

Joshua Finkelstein (Associate Editor, Nature)