0
$\begingroup$

I have come across an online ppt slide of the bioinformatic algorithm where it is said that first and the last amino acid Ramachandran angle is not necessary to tell all its internal coordinates. Is it really not necessary for any simulations while predicting the 3D structure of proteins? For instance, if we have a protein chain of N amino acid sequence, there will be 2N dihedral angles. Of which we need to specify only the 2N-2 (apart from the first and the last amino acid dihedral angles) dihedral angles. Why the two angles are ignored? Let's assume all the bond angles and bond lengths are provided for the entire chain.

I have seen this statement in the following ppt, slide number -9, titled representation of internal coordinates, under bullet point 3.

https://www.cs.umb.edu/~nurith/cs612/Manipulation.pdf

Improve this question
$\endgroup$
1
  • $\begingroup$ Welcome to Biology.SE! Please take the tour and then go through the help center pages starting with How to Ask questions effectively on this site and edit your question accordingly. In particular, we expect you to do research on your own and then, informed by what you have learned, ask any questions you still have (ideally with references to reliable sources). What's different about the bonding of the terminal residues? See also this sites criteria for "homework", which can apply to questions even if they are not assigned as homework. Thanks! 😊 $\endgroup$
    – tyersome
    Dec 1, 2020 at 4:52

1 Answer 1

Reset to default
3
$\begingroup$

Think about the case of a chain of N=3 points in space. There are only angles associated with the middle point, the two endpoints don't have angles associated with them because they only have one incident segment rather than two.

Improve this answer
$\endgroup$

You must log in to answer this question.

Not the answer you're looking for? Browse other questions tagged .