Wednesday, September 4, 2013

Que Serine, Serine

Sarin gas arouses fear and outrage because it works so silently and efficiently. I don't mean to flatter it by using the word "efficient" but it's really much more deadly and lethal than anything fielded in WW I. And remember it was discovered by accident. I doubt anyone could have designed something that efficient back then: nearly all of our understanding of how sarin kills came after its discovery, including the basic notions of how enzymes work. If someone survives a sarin exposure, there's the secondary problem of getting rid of it in cells. It's the tenacity of a simple phosphate bond — the same type of linkage found elsewhere including DNA and RNA — that keeps it from getting flushed out.
Wiki Link



The cartoon depicts the active site in an enzyme called acetylcholinesterase found in nerve and muscle cells. Notice the little red ball in the concave region called "esteratic site." The red ball is called a serine hydroxyl and is a metaphorical bond cleaver. 

Acetylcholine is a neurotransmitter. Our cells make and destroy these chemical messengers over and over in order to control nerve impulses. The enzyme cleaves acetylcholine when and where it is no longer needed. It is recycled elsewhere where it is needed. 

The top cartoon labeled "normal" shows acetylcholine approaching the enzyme, getting cleaved, and then getting washed away, regenerating the enzyme's active site. This all happens in microseconds. 

The second panel called "reversible inhibitor" shows a less deadly reversible inhibitor and how the rate of washing away (hydrolysis) lasts for minutes, but regenerates the serine cleaver. 

The third panel shows a molecule which resembles sarin. In a nutshell, the problem with sarin (besides its being a gas) is that it delivers a reactive phosphate which makes a very strong PO linkage, sticking like glue to the serine cleaver.

Here is a YouTube video created by a chemist to try and explain things in more detail: link.  I tried saying the same thing in words here, but words fail. 

35 comments:

Eric the Fruit Bat said...

"Efficient" is a word preferable to "elegant," I'd imagine.

chickelit said...

Sarin is efficient in the same way the Nazis were efficient.

But you will hear other protease inhibitors described as "elegant." It all depends on what the molecular battlefield is about. And of course whether someone actually designed it.

KCFleming said...

I've just closed my eyes again
Climbed aboard the serine cleaver train
Driver take away my worries of today
And leave tomorrow behind

Ooh serine cleaver
I believe you can get me through the night
Ooh serine cleaver
I believe we can reach the morning light

KCFleming said...

Sarin would be a good name for a sexy asian spy.

edutcher said...

Gas was a pretty inefficient weapon in WWI.

It only worked well in the trenches.

chickelit said...

The Western Front was all trenches. edutcher. Gas warfare was subject to the whims of the weather. I keep meaning to read a bio of Fritz Haber I bought a while back. Now there was an interesting man.

The Dude said...

Sarin Cher alike, I always say.

Michael Haz said...

Discovered by accident??

"Hmmmmm.....hey, guys, this is interesting. Look what I've got here..cough cough cough....choke...thud."

Eric the Fruit Bat said...

The TV series 24 got repetitious pretty quickly but still it had its moments.

It was fairly awesome when Samwise Gamgee went into that sealed room full of poison gas to save everybody else.

Samwise the Brave, indeed.

chickelit said...

Michael: I meant, synthesized in a lab by guys looking for something else. Like LSD and so many other stories. The chemical arts are still highly unpredictable.

deborah said...

Like lucite. What fun.

chickelit said...

@deborah: You just suggested a potentially safe way to handle sarin gas: link.

chickelit said...

Oh and bleach plus kitty litter will neutralize sarin. Bleach is for P, the kitty litter if for the F.

deborah said...

1:05 and 1:02, too cool for school.

How close is bug spray (organophosphates?) to sarin?

Anonymous said...

Garlic supplementation may affect those who take protease inhibitors. So perhaps those who got just a small dose of Sarin could've gotten a bit of protection from garlic? Makes me think that wearing and munching on garlic all day could keep the monster away.... maybe....probably not.

Anonymous said...

a medicine to control blood sugar levels such as insulin, glipizide (Glucotrol), glyburide (Glynase, Diabeta, Micronase), chlorpropamide (Diabinese), tolbutamide (Orinase), tolazamide (Tolinase), pioglitazone (Actos), rosiglitazone (Avandia), repaglinide (Prandin), metformin (Glucophage), and others;
a nonsteroidal anti-inflammatory drug (NSAID) including ibuprofen (Advil, Motrin, Nuprin, others), naproxen (Aleve, Naprosyn, Naprelan, Anaprox, others), ketoprofen (Orudis KT, Orudis), indomethacin (Indocin), etodolac (Lodine), nabumetone (Relafen), oxaprozin (Daypro), piroxicam (Feldene), sulindac (Clinoril), tolmetin (Tolectin), and others;
a protease inhibitor such as amprenavir (Agenerase), indinavir (Crixivan), saquinavir (Invirase, Fortovase), lopinavir-ritonavir (Kaletra), ritonavir (Norvir), or nelfinavir (Viracept);
ardeparin (Normiflo), dalteparin (Fragmin), danaparoid (Orgaran), enoxaparin (Lovenox), tinzaparin (Innohep);
warfarin (Coumadin);
aspirin; or
heparin.

http://www.drugs.com/mtm/garlic.html

chickelit said...

@Deborah: Organophosphates are very similar to organophosphonates (notice the subtlety in names.

The closest one to sarin is this one which has medicinal uses.

Anonymous said...

Hmmm, I wonder if those who have been exposed to Sarin could be helped by huge doses of garlic?

chickelit said...

So perhaps those who got just a small dose of Sarin could've gotten a bit of protection from garlic?

Garlic and garlic metabolites contain reduced sulfur which could scavenge the phosphorus in sarin. Sarin kills the fastest by acting inside the lungs. I'm not sure what causes "garlic breath" but possibly there's your effect.

Garlic is not used as an antidote for sarin, though.

Anonymous said...

No it isn't, atropines are, correct? But I wonder if giving huge doses of a sulfur compound could hasten the recovery from the affects of sarin gas.

William said...

Fritz Haber was a German Jew who invented poison gas to show the Kaiser that Jews were patriotic Germans. I have trouble finding the moral of that story.......In WWI, soldiers would return to their dugouts with liquified gas on their gear. It would then return to a gaseous state and kill them and their comrades in the dugout who thought the gas attack was over. The details of gas warfare are harrowing to read about. There's a reason it was banned.

deborah said...

Thanks, chick.

chickelit said...

Yes, atropine is used to counteract sarin, but something called pralidoxime is used to go in and pick the P off of the the enzyme's serine to regenerate it. I'm just guessing, but looking at the structure of pralidoxime, the reactive oxygen tipped oxime is skinny like a stick and able to get in there better than an organosulfur as in garlic. Plus the body oxidizes organosulfurs and doesn't quite know what to do with oximes.

Anonymous said...

Reading up on Sarin. Horrific.

The causes of death, SLUDGE and killer B's:

Salivation
Lacrimation
Urination
Diarrhea
Gastrointestinal distress
Emesis

Bronchorrhea and Bronchospasm



chickelit said...

Fritz Haber was a German Jew who invented poison gas to show the Kaiser that Jews were patriotic Germans. I have trouble finding the moral of that story...

The story about his wife's suicide and also his Nobel Prize make him a complex character.

Anonymous said...

Thanks for a facsinating and gruesome discussion Chickie.

Anonymous said...

Fascinating.

Dust Bunny Queen said...

I meant, synthesized in a lab by guys looking for something else

Like the sticky stuff for Post-it Notes. A happy accident. Unlike Sarin ...not so happy.

edutcher said...

El Pollo Raylan said...

The Western Front was all trenches. edutcher. Gas warfare was subject to the whims of the weather. I keep meaning to read a bio of Fritz Haber I bought a while back. Now there was an interesting man.

The Eastern Front was anything but, and that's where gas was used first, but the winds of the Central European Plain made it less than effective.

chickelit said...

From the Wiki: After the war, most of the unused German chemical warfare agents were dumped into the Baltic Sea, a common disposal method among all the participants in several bodies of water. Over time, the salt water causes the shell casings to corrode, and mustard gas occasionally leaks from these containers and washes onto shore as a wax-like solid resembling ambergris. link.

Lovely!

Unknown said...

Used to treat a lot of SLUDGE cats back in the day.

Crimso said...

I'd bet that preparations of sarin, VX, etc. have detectable impurities that vary depending upon who made it. Just saying.

Anonymous said...

C.Stanley, what did the cats get into?

Unknown said...

@Inga-Before the newer flea products came on the market (fipronil, imidocloprid), most flea treatments contained organophosphates and cats are very sensitive.

Anonymous said...

I see, I'm glad I never used any flea powders or sprays on my cat, she lived to be 20. She was a very sweet natured Bombay and never went outside.