Adding CH2OH group to a sugar molecule

I am working on a project involving the elimination of glucose side-chains from mogrosides (see image of mogroside-5). Dragging and dropping a ring structure or drawing a boat structure is no problem. The problem I encounter is when I am trying to draw a simple monosaccharide, fructose or glucose for instance, and attempt to add the CH2OH groups (see uploaded examples). No matter what I do to configure the structure, I cannot. To that end, I cannot draw the gluose side-chains on the mogroside. What is the method to draw a simple structure such as a cyclohexose or cyclopentose?

Hello, I do not really understand why can't you attach CH2OH. You can draw the skeleton and change atom/bond types later if you whish. Cold you please clarify what error you get? I just attach an image - the atoms can be moved, change into 3D, or change bond thickness if needed, etc.

The structures in qfdgreg's post do not have any stereochemical information at any of the stereocenters, so they represent any cyclohexose, not just glucose or fructose. In other words, Marvin doesn't understand that when you draw a chair, you intend the bottom two atoms to be projected in front of the screen, and you intend the upper two atoms to be projected behind the screen.





If you want to draw these compounds in a particular conformation, you need to go into 3D mode. Draw what szilva drew, then choose Edit -> Clean -> 3D -> Clean in 3D. Then choose View -> Transform -> Rotate in 3D and rotate the structure around until it has the perspective you want.





(If you rotate the structure, then store it, then recall it, it will display in the pre-rotation perspective. To store it in the post-rotation perspective, copy the structure, erase (don't Cut) the structure, then paste.)





Warning: Once you enter 3D mode, wedged bonds no longer have any meaning. You need to reenter 2D mode to give them meaning.

Or are you thinking about abbreviated groups like the one on the picture?

My apologies if this is too far off topic, but I'm hoping that there might be afew neuro-nerds like myself who may take interest with the puzzle that sugars present to neurology.


There is a diet used to prevent epileptics (like me) from having seizures. The ketonic diet is one in which only fats, oils, and proteins are consumed. Sugars, especialy disacharides are strictly eliminated. The result is a state of ketosis in that person, hence the name of the diet. But this does not explain the remarkable sensitivity these people have to the presence of disacharides. Example; the trace amount of maltose that can be absorbed through the skin (Some suntan lotions contain maltose) is enough to trigger seizures in people who are seizure free on this diet. My guess is that disacharides trigger a 'cascade' response similar to some neuropeptides and/or hormones. An in-depth knowledge of the anatomy of these molecules would make finding out how, where and why these molecules can trigger seizures easier, and in the process also help give a better understanding of the condition itself. I must confess to being way over my head at present concerning the use of Marvin and other but I'd love to learn.

Thank you for your forum posting on the Marvin pages, but I am afraid it s really too far off-topic to this forum. Researchers are usually discussing such topics in scientific lists and papers/conferences - unlikely that you will find somebody who is a specialist in this field. More likely you will find computer programmers here, usually we are giving support when somebody asks about the usage of our software, how to draw fancy molecules, search in drug databases, etc. but we are unaware of their research topics (and it is a trade secret in most of the cases). So I will not delete the post, but please, please keep the topic more related to software issues.





Still I found some lists/forums in English about epilepsy where your question can be more appropiate:





http://epilepsyontario.org/client/EO/EOWeb.nsf/web/Forums+&+Chat+lines


http://www.epilepsyforum.org.uk/


http://www.coping-with-epilepsy.com/resources/

Hi,

I exhume this thread because I have the same problem. I would like to add this abbreviate group (hydroxymethyl, CH2OH) on a sugar molecule. Is it possible to do it ?

Thank you

Szilva wrote:

Or are you thinking about abbreviated groups like the one on the picture?

Dear Francoius,

Of course it is possible to create hydroxymethyl abbreviated group.

 

1. Draw CH3-OH.

2. Choose the 'Create Group' icon from the Tools Toolbar on the left side of the canvas.

3. In the Create Group dialog box type CH2OH.

4. Select the methyl group.

5. Select Add S-group attachment from the contextual menu( right-click). The number of the attachment point  appears  in green frame.

6. To contract/extract the structure select the corresponding option from the contextual menu.

 

For more information please see

https://docs.chemaxon.com/display/marvinsketch/Abbreviated+%28superatom%29+groups

 

Kind regards,

Nikolett Mihala