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molecular structures

Category archives for molecular structures

Bio Databases 2015

Something interesting happened in 2014. The total number of databases that Nucleic Acids Research (NAR) tracks dropped by three databases! What happened?  Did people quit making databases?  No.  This year, the “dead” databases (links no longer valid) outnumber the new ones. To celebrate Digital World Biology’s release of Molecule World I’ll discuss some of the new structure databases…

Pull a spaghetti noodle out of a box of pasta and take a look.  It’s long and stiff.  Try to bend it and it breaks.  But fresh pasta is pliable.  It can fold just like cooked noodles. When students first look at an amino acid sequence, a long string of confusing letters, they often think those letters are…

On pinene and inhibiting enzymes. People of a certain age may remember a series of really funny commercials featuring Euell Gibbons and his famous question about whether you’ve ever eaten a pine tree.  “Some parts are edible” said Euell. Perhaps some parts are, but other pine tree products aren’t so nourishing.  Crystallography365, aka @Crystal_in_city  had a couple of…

In my last post, I wrote about insulin and interesting features of the insulin structure.  Some of the things I learned were really surprising.  For example, I was surprised to learn how similar pig and human insulin are.  I hadn’t considered this before, but this made me wonder about the human insulin we used to give…

Molecules of sucrose tore apart in their bellies letting glucose course free in their veins. Luckily for us, a system evolved long ago to capture that glucose and minimize it’s potential for damage. Removing sugar from the blood and sequestering it in liver, fat, and muscle cells, minimizes the harm that might result if sugars were free to…

Scale, proportion, and quantity belong to one of the cross cutting concepts in the next generation science standards (NGSS).  According to Volume 2 of the NGSS, “in engineering, no structure could be conceived much less constructed without the engineer’s precise sense of scale.”  The authors go on to note that scale and proportion are best understood using…

In 1925, dogsledders raced through the frozen Alaskan bush to bring antiserum to the isolated village of Nome.  The antiserum arrived in time, saved the lives of many villagers from the horrors of diphtheria, and inspired the Iditarod, a famous race in celebration of the dog sledders’ heroic feat. West Africa could use a similar effort today.…

What’s the first you think about when you see a spider?  Running away?  Danger?  Fairies? Spiderman? Do you wonder if spider silk is really strong enough to stop a train, like they showed in Spiderman 2? Whatever your thoughts, you’re probably not thinking about 3D printing in space.  Yet, the time might be near when…

A key concept in science is molecular scale. DNA is a fascinating molecule in this regard. While we cannot “see” DNA molecules without the aid of advanced technology, a full length DNA molecule can be very long. In human cells, other than sperm and eggs, six billion base pairs of DNA are packaged into 22…

What Happens at the End?

Organisms with linear chromosomes have to solve the problem that DNA replication makes them shorter. This is due to the fact that DNA polymerase can only add bases to the terminal 3′-OH of a DNA chain. The DNA replication initiation complex uses RNA primers to provide the initial 3′-OH and to initiate “lagging” strand synthesis.…