> 1) I think, even if nothing loaded, but scripted, there must enable adequate fields. (select,
Sorry, I'm inattentive, here're all right.
> 2) , 3) , 5) when atom is appending, modelSet not empty, appendNew false - why don't just add this
> atom to model finally? Give to it proper atomName, atomSerial...
> So, when load 2 models, and append string models; they form own "groups", which defines with
> firstAtomIndex and lastAtomIndex. I just want know purpose of it.
Now, I'm just interesed in "groups". For what reason it exists?
> 4) avoid clearing of Halos selection
Done, just added where It's unselecting.
> 6) atom replacing
On 15 May 2009 at 21:19, Aidar Mahmutov wrote:
> Now, I'm just interesed in "groups". For what reason it exists?
A "group" is a group of atoms with a common group ID. They have a meaning in proteins
and nucleic acids, where they are residues (amino acids and nucleotides, respectively).
In addition, other non-protein and non-nucleic parts of the model are also assigned groups.
For example, cofactors, ions, prosthetic groups and water molecules. All these are called
Each group has a name (the standard 3-letter amino acid abbreviation, or the standard one
or two-letter nucleotide: A T G C U DA DT DG DC) and a number which usually is its order
in the sequence of the chain.
Hetero groups also have a name (for many of them, standardized by the PDB) and may
have a number which is not significant in terms of sequence but helps to identify or select
In file formats different from pdb or cif, there are no groups as far as I know.