Protein Researchers Win Nobel Prize In Chemistry 96
nucal writes "The
2003 Nobel Prize in Chemistry was awarded to
Rod MacKinnon and
Peter Agree for their work on proteins that form ion and water channels in cell membranes. In particular, solving the structure of potassium channels was a major achievement, since this was the first multispan transmembrane protein structure to be solved by X-ray crystallography. There is also structural information on aquaporins (water channels) as well."
what (Score:1)
what? what the hell are you talking about? whats a multispan transmembrane protein structure?
i think we need someone to moderate the story posters.
In slashdot terms.. (Score:5, Informative)
Ok, a protein is.. well a protein.. little things that do simple tasks in the body. Kind of like computer programs.
The problem with proteins, is that even though we have the 'source code', (the sequence of amino acids forming the protein) we don't know what the things look like, since the chain can fold in a near-infinite number of ways. So it's important to figure out what the 3D-structure (positions of the amino acids) are.
That way, we can get clues as to how the thing works.
Now.. think of our cell.. it's like a computer, in the meaning that it contains lots of important data we want to keep safe. To stop anyone from getting in, we have a 'firewall'.. a cell membrane which stops intruders from getting in.
Of course, a computer which is completly firewalled is not very useful, nor is a cell. It needs stuff from the outside.
That's why we have these transmembrane proteins, which work as 'packet filters' and let molecules which are OK (like water, which is what Agre works with) in and out, but not suspicious, unwanted molecules.
The potassium-ion channels are even cooler, because the 'operating system' (intracellular signalling) can turn them on and off when needed.
Now a protein is a chain, right? So 'multispan' just means that the chain goes back and forth perpendicular to the membrane multiple times.
Re:In slashdot terms.. (Score:3, Funny)
You know, the first think that came to my mind when you posted this was "imagine a Beowulf cluster of cells". Then I realized a Beowulf cluster of cells would be.. well, me I guess.
Re:what (Score:2)
Remember osmosis from high school biology? This is the mechanism that makes it work.
The most remarkable thing is so much of this work used computational models of the proteins to understand how they work. This is one of those discoveries that become the basis for real cool SF science. We can now model, construct and manipulate structures on the atomic level.
Now
Re:what (Score:2, Interesting)
Well.. not really.. since they don't violate the second law of thermodynamics.
We can now model, construct and manipulate structures on the atomic level.
Take it easy.. we're not there yet by a far cry..
If you want to model on the atomic level with any kind of accuracy.. you need to do quantum mechanics. The current methods (Nobel prize 1998 BTW) are reasonable for
Re:what (Score:2)
Re:what (Score:1)
These days I write automation programs to help these guys out. Much less frustrating
Re:what (Score:4, Informative)
Determining the 3D structure of proteins is a very hard but essential part of learning how they work. Unfortunately, knowing the sequence of a protein (which you can derive from DNA) only gives hints about the 3D structure. There are a number of large computational projects such as Folding@Home [stanford.edu] and Blue Gene [ibm.com] that are devoted to predicting protein folding from a 1D sequence of amino acids to a 3D structure.
X-ray crystallography is the traditional way of determining the structure of proteins; you basically analyze the diffraction pattern of X-rays from a crystal of the protein of interest.
Now to your question: a multispan transmembrane protein is a protein that typically sits in the cell membrane that encloses the cell (alternatively, there are other internal membranes as well). Most of these proteins pass through the membrane several times, back and forth. These proteins are very important because they are involved in cell signalling and transport of substances into and out of the cell; ion channels are a prime example of transmembrane proteins. But transmembrane proteins are also notoriously difficult to study and crystallize because they do not solubilize without detergents, and are challenging to reconstitute in their native form.
If you look in the Protein Data Bank [rcsb.org], there are lots of proteins that have been crystallized; but only a very small portion of them are transmembrane. This year's Nobel prize in part recognizes advances in studying the structure and function of these important proteins.
better explanation (Score:1)
Drum Role Please (Score:3, Funny)
Actually, not just funny (Score:2)
However, as he explained it to this layman, it is much easier to determine the
Re:Actually, not just funny (Score:3, Informative)
Nope. Refinement of structures often uses molecular dynamics, one of the classical simulation methods and also a (very slow) way of looking at protein folding. However, the software that does this is single-processor and actually doesn't require too much more power than a fast desktop. These structures were all at around 3-Angstrom resolution, and once you
Re:Actually, not just funny (Score:1)
Thanks for the clarification. As I indicated, the conversation was from the mid-90's and I was making the assumption of the applicability.
I still find work like this fascinating on a number of levels. It's not work I could ever do, but unlike the kinds of work that often wins Nobels in Physics, I can usual
ouch (Score:1)
Having fitted a number of experimental 3A maps, I can unequivocally say that the global structure is far from obvious
Re:ouch (Score:2)
Okay, "obvious" was overstated. I guess I meant it relative to protein-folding simulations, which are beyond useless for telling you the tertiary structure. 3A is still enough to indicate the overall fold, i.e. "global structure", even if sidechains are incomprehensible.
CNS/CNX (the current versions of the molecular dynamics refinement program) works very well on multiprocessor systems,
Re:ouch (Score:1)
Anyway, traditional refinement/ manual fitting loops aren't amenable to distributed computing, but you could do something along the line of giving each cli
Re:ouch (Score:1)
Damn typos.
"Kay Diederichs saying he had some || routines on cnsbb last year"
Sorry Kay
good bet-- I'll take it (Score:1)
Even with the most advanced, powerful folding techniques, I've yet to hear of a single case where a de novo computationally folded protein was close enough to fit the x-ray data in molecular replacement, which is probably the best test of whether the theoretical structure matches the observed structure-- a quick pub med search found nothing, either. Even NMR structures rarely work in molecular replacement (an NMR structure is basically a theoretical folding experiment driven by a massive
That was quick. (Score:5, Informative)
I interviewed with him earlier this year (I applied to Rockefeller largely because of his lab), and he's one of the most intensely brilliant people I've ever met. There are very few scientists who will master a completely different technique in the middle of their career, while working on the same area of research. Fewer still are able to dominate the field. When I took physiology in college, we read multiple articles which described hypotheses proved by a single figure in one of MacKinnon's papers.
(There are actually an increasing number of membrane protein structures available, some of them quite large. However, ion channels are apparently especially difficult to study, and none were solved before MacKinnon started.)
Re:That was quick. (Score:2)
This is exactly why fewer papers published/year can be just as important if not more important than many publications/year. If your work tells the whole story and makes lucid arguments that clarify outstanding problems in science, you have contributed greatly while reducing the number of papers people have to read.
Depends on how you figure, though.. (Score:2)
I'm not sure, if you consider cytochrome c oxidase as an ion channel protein, it's in a membrane.. it conducts hydrogen ions from one side to the other.. add that it 'pumps' them actively though.
The CoX structure was determined back in 1994 (Iwata, et al, Nature, vol 376, 660), which I
Re:Depends on how you figure, though.. (Score:2)
I think (can't remember for sure) that one reason the channels are so difficult is that they're nowhere near as stable when you take them out of the membrane. Intuitively, this make
Re:Depends on how you figure, though.. (Score:2)
Re:That was quick. (Score:1)
What about not just changing fields, but inventing entire new ones [harvard.edu]? Stu Schreiber came in as a synthetic organic chemist and founded the field of chemical biology. I guess it is just a matter of time before he wins the prize.
Also, anyone think it's strange that 2 chemists won the prize for medicine, and 2 doctors won the prize for chemistry? Chem
Re:That was quick. (Score:2)
The study of membrane channel proteins -is- a new field, and these guys pioneered it.
Chemistry != protein studies.
If you mean that the subject of chemistry as a whole is not limited to the study of proteins, you are correct. If you mean the the study of enzyme mechanisms and structure is not part of chemistry, you need to get a clue.
Re:That was quick. (Score:1)
Would you be surprised if a Computer Scientist won the prize for Math?
Re:That was quick. (Score:1)
You mean, uh, pharmacology? I guess it's easy to confuse novel grantwriting strategies with novel science, but it's hard to imagine that the Nobel folks will make that mistake...
Off-topic and in a cold thread, but I'm always nervous that people will take this sort of thing seriously.
Re:That was quick. (Score:2)
Times Cited: 1588
In general an article cited more than 400 times is considered a classic. Especially note how recently the article was published.
Re:That was quick. This is slow. (Score:2, Interesting)
A NEW GENERATION OF CA-2+ INDICATORS WITH GREATLY IMPROVED FLUORESCENCE PROPERTIES [ucsd.edu]
GRYNKIEWICZ G, POENIE M, TSIEN RY
JOURNAL OF BIOLOGICAL CHEMISTRY 260 (6): 3440-3450 1985
Times Cited : 14512
Roger Tsien must be up soon, he invented the field of fluroescent biosensors. Both with the small molecule dyes and the development of GFP into a useful molecular tag and genetically encoded FRET sensor element.
Re:That was quick. This is slow. (Score:2)
Re:That was quick. (Score:2)
What hypotheses do you mean? I guess voltage gating and inactivation, but I am curious.
I imagine that ion channels are so difficult to study because they depend on lipid and water environments and they probably are a bit harder to produce in high concentrations. I know that he mostly looks at bacte
Re:That was quick. (Score:2)
I was already admitted when I visited. However, I didn't go there, for a variety of reasons; among others, there was no guarantee that I'd get to work in that lab, so it would have been foolish to go there solely because of one professor. I was mainly interested (and still am) in doing structural biol
Re:That was quick. (Score:1)
He's scheduled to come in next thursday, I'll have to find out if he's going to make if, and if I can meet him.
WHOOSH (Score:3, Insightful)
Well, at least here on Slashdot I expect people (read: us geeks) will gape in awe instead of happily ignoring it.
Re:WHOOSH (Score:1, Flamebait)
No, it's not the post that pissed me off. It was the "Insightful" rating. Apparently, it's insightful to take pride in not understanding things. This is a particularly ironic attitude to find on Slashdot, since tec
Re:WHOOSH (Score:2)
Ahem. Thank you for that, Mr. Jump On With All Four Feet Without RTFP.
In case you hadn't noticed, your rant was exactly what I was saying:
That's supposed to imply that we're interested in it, and don't take pride in not knowing.
(Talk about whoosing over one's head...)
Re:WHOOSH (Score:2)
Re:WHOOSH (Score:2)
Re:Oh America (Score:1, Offtopic)
God Bless America, we're full, go home."
Off-topic? Bummer, I found it amusing. Oh well, guess it was off-topic.
Re:Oh America (Score:1)
Think about it.
"I don't see how such overly homogenous results especially in such an allegedly heterogenous population are something to be proud of."
We elected him. (though the last election is in dispute, I mean in a general sense.) We don't have a dictator. We don't have a tyrant.
"Okay. I don't think silencing nazis is much of a problem, though."
Whatever. You can make anything sound b
Re:Oh America (Score:1, Offtopic)
Re:Yeah right (Score:2)
i'll keep that in mind and stop checking the 'no karma bonus' box
Off the beaten path (Score:5, Funny)
To MacKinnon, the physician-turned-electrophysiologist-turned-crysta llographer, "the fun really begins once you have the structure."
Physician-->Electrophysiologist--->Crystallograp her-->Nobel Laureate.
Bricklayer-->Bodybuilder-->Movie Star-->Governor of California.
There's definitely something to be said for nonlinear career choices...
Re:Off the beaten path (Score:3, Funny)
Bricklayer-->Bodybuilder-->Movie Star-->Governor of California
Bricklayer-->Bodybuilder-->Movie Star-->Crystal? O, grope her-->Governor of California
In the fullness of time, it had to happen! Slashdot word breaking to combat page widening produces a sort of poetry, and a commentary on current events!
New Headline... now in English! (Score:4, Informative)
This kind of research has huge applications to medicine, since most drugs/poisons/anything not fatty have to enter the cell through these pores. I am wondering whether he used distributed or parallel protien folding simulations for some of his work... X-ray crystallography on globular protiens usually yields poor results (it is hard to get the X-rays to diffract to show the inner channel structure) compared to crystalline/regular protiens.
Re:New Headline... now in English! (Score:4, Informative)
He did it through straight x-ray crystallography. See abstracts from the papers here [nih.gov] and here [nih.gov]. Find the structure here [rcsb.org].
Re:New Headline... now in English! (Score:2)
As the AC pointed out, none whatsoever. Almost nobody doing crystallography does, in fact. It continues to amaze me how many people think that simulations are going to replace experiment.
X-ray crystallography on globular protiens usually yields poor results (it is hard to get the X-rays to diffract to show the inner channel structure) compared to crystalline/regular protiens.
This is incorrect:
Re:New Headline... now in English! (Score:2)
For one of my courses I have to optimize the geometry of a couple of molecules and carry out some further calculations on it. When I told him that my research is in porphyrins (large, sure, but much smaller than many/m
proteins (Score:2)
i like proteins
Dear Slashdot Readers (Score:1, Funny)
Due to a buffer overflow problem in my Outlook preview pane, someone was able to steal the source for SlashCode! Please note that they were only able to steal the source code that runs Slashdot, and not the actual content on Slashdot. Because of this unfortunate event, we have to shut down and re-code the network portions of SlashCode to avoid the inevitable trolling that might occur now that our source code is in the wild. The site will become progressively slower as we remove se
Umm, NOT the first membrane protein structure! (Score:2, Informative)
Re:Umm, NOT the first membrane protein structure! (Score:2)
I actually had the privilage of having a short visiting fellowship to his lab in Munich in the period between him solving the structure and winning the prize. Wonderful guy.
Same field, 6 years ago: Jens Christian Skou (Score:2)
Jens Christian Skou was awarded for the discovery (in 1957) of the sodium-kalium pump mechanism.
It explains how cells transport ions against a concentration gradient.
Johann Deisenhofer was the first... (Score:1, Informative)
Re:Johann Deisenhofer was the first... (Score:2)
Hmmm... (Score:3, Funny)
The current state of chemistry? (Score:1)
Re:The current state of chemistry? (Score:1)
Re:The current state of chemistry? (Score:1)
Re:The current state of chemistry? (Score:1)
Re:The current state of chemistry? (Score:1)
And I won't go into the joys of academic politics in which one is more rewarded for getting more funding than one is for teaching OR doing research.
What to do with the $1.3 million? (Score:3, Funny)
Cn3D see it for yourself (Score:3, Informative)
hot-rod (Score:1, Funny)
Pretty Pictures (Score:2)
-c
Nobel winner to fight US terror rules (Score:4, Interesting)
"One of the two Americans who won yesterday's Nobel prize for chemistry said he might use some of his award money to help defend academic freedoms against restrictions imposed on scientists as part of the US war on terrorism." (news.telegraph)
Hurrah for those who still aspire to pure learning! The full article may be viewed here, if you're interested:
http://www.telegraph.co.uk/news/main.jhtml?xml=/n
Regards,
-pararox-