Posts Tagged "stereochemistry"

How can I tell if a hydrogen is a wedge or a dash in a chair skeleton?

Posted on March 19th, 2017

 

“How can I tell if a hydrogen is a wedge or a dash in a chair skeleton?”

Here at StudyOrgo, we frequently get questions about topics in organic chemistry that are usually quickly covered, poorly described or expected that you know from previous courses.  These concepts are really important to understanding the more complex topics to come.  In this article, we will cover the concepts of stereochemistry descriptions using bold and wedged bonds.  This is just a preview of the detailed topics and materials available with your membership to StudyOrgo.com.  Sign up today!

The first thing we have to do is determine is how you want to orient you molecule.  Let’s take (1R, 2R) 1,2-dimethylcyclohexane for example.  If we orient the molecule to have the methyl groups on the right side, we see that we have two stereocenters available.  But the current drawing doesn’t indicate the stereochemistry yet.  That’s what the bold and hashed bonds will indicate.

Next, we have to visualize the cyclohexane ring in the chair conformation.  Remember, that the skeleton image shown above is more conveniently drawn, but loses the 3rd dimension information, so you have to put it back in the chair to determine which should be bolded and which should be wedge.

Next, we have to confirm that that the stereochemistry is correct.  To do this, you need to practice selecting most important substituents and rotating to assign stereochemistry.  Follow along with the examples below, using the blue and pink carbons shown.

At this point, you should be able to see how the hashed and bolded bonds are now appropriately drawn.  The pink stereocenter will be bolded, suggesting it is above the plane of the ring and the blue stereocenter will be hashed, suggesting it is below the plane.  Drawing the Newman Projection down the red bond shows that the methyl groups are “anti” to each other, making this a stable conformation.

 

 

Chirality and Assigning Stereochemistry to Molecules

Posted on August 11th, 2015

One of the most important skills to master in organic chemistry is the ability to assign stereochemistry.  We at StudyOrgo have devised clear cut explanations of these difficult concepts for students to maximize their time studying and learn difficult concepts quickly and easily. Sign up with StudyOrgo.com today for all of your organic chemistry studying needs!

Chirality is an important aspect of life.  This is so because many of the basic molecules used in living cells, in particular amino acids that form enzymes, are also chiral. Chirality imparts asymmetry on our molecules, allowing them the ability to recognize “handedness” and further add to the complexity and specificity of reactions. As organic chemists, we must pay constant attention to the chirality of molecules both before and after reactions, less the compounds lose their biological or chemical activity.

Chirality is defined as any object in which the mirror images are not superimposable. A good example is your hands; they are mirror images but not superimposable. Translating this to organic molecules, a stereocenter is a carbon center with 4 unique substituents that are arranged such that the mirror image is not superimposable. Thus, they “look” like to different molecules although they have the same substituents. If we alter the arrangement of the substituents, we can always come up with 2 arrangements for each substituent, R or S configuration.  Thus, each stereocenter must have 2 stereoisomers.

chiral 1

In order to determine whether the sterecenter is the the R or S configuration, there are a series of steps to follow.

  1. Identify the stereocenter as 4 unique substituents attached to the chiral center
  2. Assign priority based on atom atomic number, highest (1) to lowest (4) weight.
  3. If two atoms are same, move to next bond to find first point of difference
  4. Rotate the molecule so that Priority 4 atom is in the hashed wedge position.
  5. Determine the Priority sequence 1-2-3 rotates to the left (S) or the right (R).

chiral 2

Lastly, an important concept to keep in mind is that as molecules become more complex, they also can acquire more stereocenters.  Keeping in mind that each stereocenter can produce 2 stereoisomers, we describe possible stereoisomerism using the 2n rule. Let’s examine a molecule with 2 stereocenters, following the 2n rule that gives us 22=4 stereocenters.  The possible combinations are listed below.

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We now introduce the last concept to stereochemistry which is the difference between enantiomers and diastereomers.  Enantiomers are molecules with exactly opposite stereoisomers.  For example, the enantiomer of the molecule with stereochemistry R,R would be S,S.  The relationship between molecule R,R and R,S is what is described as diastereomers, which differ in some but not all stereocenters.

Let’s consider the biologically active form of testosterone, 5-DHT which is shown below.  We indicate that it has 7 stereocenters in the molecule.  Applying the 2n rule, we calculate 128 possible stereoisomer combinations.  That concludes that while testosterone has 1 enantiomer, it has 126 diastereomers and remember…only 5-DHT works on our bodies!

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