Folding At Home: Fact of the Day Log

Googer

Lifer
Nov 11, 2004
12,571
4
81
[*]FOLDING FACT OF THE DAY

I find these fancinating and want to keep a log of all the facts of the day from Folding.stanford.edu post your facts here that may be missing from this thread. Please try to keep comments to a minimum and post only F@H facts from the website. If you have one saved that is not listed here, please feel free to post it.

I appereciate any help I can get, that is why I chose an online forum to do this.

Thanks for your help!

Subscribe to this thread to get a daily folding fact in your e-mail box.



[*]Click on this and you can look up how many work units you have completed.


Folding fact #9

[*]The Invention of Microprocessor:
The integrated chip greatly improved the use for transistors, but it could only do what it was originally programmed to do. One young scientist at Intel, Ted Hoff, thought he could make something better. Instead of an -- albeit complicated -- circuit, this chip was to be an entire mini-computer unto itself. That first chip was called the 4004. It was 1/8" by 1/16" with 2300 transistors etched into the silicon. And all by itself it was as powerful as ENIAC, the early (mammoth at 30 tons!) computer built in 1946.


http://folding.stanford.edu/aminoacids.gif

http://folding.stanford.edu/protstruct.gif

Proteins Function Through Their Conformation


  • To produce proteins, cellular structures called ribosomes join together long chains of subunits. A set of 20 different subunits, called amino acids, can be arranged in any order to form a polypeptide that can be thousands of amino acids long. These chains can then loop about each other, or fold, in a variety of ways, but only one of these ways allows a protein to function properly. The critical feature of a protein is its ability to fold into a conformation that creates structural features, such as surface grooves, ridges, and pockets, which allow it to fulfill its role in a cell. A protein's conformation is usually described in terms of levels of structure. Traditionally, proteins are looked upon as having four distinct levels of structure, with each level of structure dependent on the one below it. In some proteins, functional diversity may be further amplified by the addition of new chemical groups after synthesis is complete.

    The stringing together of the amino acid chain to form a polypeptide is referred to as the primary structure. The secondary structure is generated by the folding of the primary sequence and refers to the path that the polypeptide backbone of the protein follows in space. Certain types of secondary structures are relatively common. Two well-described secondary structures are the alpha helix and the beta sheet. In the first case, certain types of bonding between groups located on the same polypeptide chain cause the backbone to twist into a helix, most often in a form known as the alpha helix. Beta sheets are formed when a polypeptide chain bonds with another chain that is running in the opposite direction. Beta sheets may also be formed between two sections of a single polypeptide chain that is arranged such that adjacent regions are in reverse orientation.

    The tertiary structure describes the organization in three dimensions of all of the atoms in the polypeptide. If a protein consists of only one polypeptide chain, this level then describes the complete structure. Multimeric proteins, or proteins that consist of more than one polypeptide chain, require a higher level of organization. The quaternary structure defines the conformation assumed by a multimeric protein. In this case, the individual polypeptide chains that make up a multimeric protein are often referred to as the protein subunits. The four levels of protein structure are hierarchal, that is, each level of the build process is dependent upon the one below it.

    Fact Credit:
    NIH NCBI

    Further Reading
    At Home in the Universe: The Search for Laws of Self-Organization and Complexity
    by Stuart Kauffman
Related Web Links
Talking Glossary of Genetic Terms
by NHGRI

An Introduction To Proteins
by University of Texas




Hopefully this thread will inspire others to run folding at home or go in to a medical research career.

Some of these facts and words are from http://www.scienceiq.com/ ©
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #18
The evolution of molecular mechanics: 1985 Myoglobin .30 nanoseconds (ns) simulation completed in 50 days on Vax Computer; 1992 HIV protease .10 ns simulation completed in 100 hours on a Cray comp.; 1998 villin 1000 ns simulation completed in 4 months Cray; 2001 B- Hairpin 38000 ns simulation completed in 8 days 5000 computer cluster of foldingathome.

 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #19
Genes are sprawled over much larger regions in humans compared with fruit fly and nematode worm. Genes remain difficult to identify in humans because they form such a small portion of the genome and are so spread out, but it appears that the total number of genes is 30,000-35,000. Apparently, humans have only twice as many genes as the fly or worm, but they have on average three times as many kinds of proteins because of "alternative splicing," a process that can yield different protein products from the same gene.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81

Folding fact #20
The total human genome, contained in a set of 23 chromosomes, is now estimated to contain 3,164.7 million letters (or nucleotides). Genome size does not always correlate with the apparent complexity of a species because of the large amounts of repetitive sequence in many genomes. In humans the actual part of the genome that codes for proteins makes up less than 2 percent of the genome while repeated sequences make up at least 50 percent of the genome.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #21
Compared with the organisms whose genomes have been sequenced before, humans have a particular abundance of proteins involved in cell structure, defense and immunity, DNA copying, the synthesis of RNA and proteins, and communication between cells. Humans have an unusually high number of complex proteins that fit into more than one functional category and many proteins that are embedded in the surface of cells.
 

bluestrobe

Platinum Member
Aug 15, 2004
2,033
1
0
Is there actually anything posted on their website related to what we have done for them, like results? I couldn't find anything and feel kind of empty that I can't see the results of my folding fun.
 

ProviaFan

Lifer
Mar 17, 2001
14,993
1
0
Originally posted by: bluestrobe
Is there actually anything posted on their website related to what we have done for them, like results? I couldn't find anything and feel kind of empty that I can't see the results of my folding fun.
Is this what you're looking for? Bear in mind that despite having done this for a few years, the project is still in the very early stages, so most of what you'll find are movies of simulated proteins and scientific papers that probably don't mean much to anyone outside of the medical community. In other words, we haven't found the cure for Alzheimer's or any kind of cancer just quite yet, but I'm hoping that will come "soon" (and the more computers, the sooner!).
 

GLeeM

Elite Member
Apr 2, 2004
7,199
128
106
Found this at F@H forums:

A quote by Vijay Pande. "Type II diabetes is due to protein misfolding and is something I've thought about. We have WUs for Alzheimer's Disease, Huntington's Disease, and certain cancers right now, but we don't have any short term plans for diabetes. That may change in the future, though."
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #22
Folding@Home was first released on October 1, 2000. Word spread by slashdot and later some articles on Wired News and it quickly grew.
 

ProviaFan

Lifer
Mar 17, 2001
14,993
1
0
Folding fact #23
Collagen is the most common protein in the body. By weight, over 50% of our proteins are collagen.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #24
Silk is a protein! Silk is a structural protein spun by silk worms. It is remarkably strong.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #25
Genomics and hard drives: We have about a billion DNA bases in our genome. That's less than 1GB of storage! The genetic differences between humans and chimps is less than a million DNA bases -- small enough to easily fit on a 1.4MB floppy!
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #26
The RNA-world hypothesis: How did life on Earth evolve? One facinating hypothesis is that the world was dominated by RNA. RNA is a cousin to DNA, but in some ways has properties of both DNA and proteins. Like DNA, RNA can encode genetic material in a way which can easily be replicated and read out. Like proteins, RNA can fold! By folding, it can create interesting molecular machines, which carry out enzyme-like capabilities. These RNA enzymes are called "Ribozymes". The ribsome, perhaps one of the most important molecular machines, is actually a ribozyme!
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #27
The ribosome: Proteins are molecular machines and the ribosome is one of (if not the) most important protein molecular machines. The ribosome is the machine which synthesizes proteins. One surprise is that this protein synthesis machine is mainly a large piece of RNA! This probably dates back from the time when RNA dominated the world and proteins were an afterthought.

http://micro.magnet.fsu.edu/cells/animals/images/ribosome.jpg
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #28
The proteasome: If proteins are "born" (i.e. synthesized) in the ribosome, they die (i.e. are degraded) in the proteasome. The proteasome is also a facinating molecular machine and plays a fundamental role in cellular biology.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #29
6000 BC Yeast was used to make beer by Sumerians and Babylonians.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #30
4000 BC The Egyptians discovered how to bake leavened bread using yeast. Other fermentation processes were established in the ancient world, notably in China. The preservation of milk by lactic acid bacteria resulted in yogurt. Molds were used to produce cheese, and vinegar and wine were manufactured by fermentation.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #31
1000 BC Babylonians celebrated the pollination of date palm trees with religious rituals.



What is the deal with these facts lately? Can they be any more irrelevant?
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #32
420 BC Socrates (470? - 399 BC), the Greek philosopher, speculated on why children don't always resemble their parents. He enjoyed remarking that the sons of great statesmen were usually lazy and good for nothing.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #33
400 BC Hippocrates (460 - 377 BC) determined that the male contribution to a child's heredity is carried in the semen. By analogy, he guessed there is a similar fluid in women, since children clearly receive traits from each in approximately equal proportion.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #34
320 BC Aristotle (384 - 322 BC), choosing to reject the theories of Hippocrates, told his students that all inheritance comes from the father. The male semen, he asserted, determines the baby's form, while the mother merely provides the material from which the baby is made. He suggested that female babies are caused by "interference" from the mother's blood.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #35
100 AD Romans speculated that mares can be fertilized by the wind.
 

Googer

Lifer
Nov 11, 2004
12,571
4
81
Folding fact #36
100-300 AD Hindu philosophers first pondered the nature of reproduction and inheritance.
 
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