Re: MF_Multimodel -- December 04, 2009 - 17:13

Hi,

2009/12/4 Tiago Pais <tpais@xxxxxxxxxxx>:
> Hi,
> I am not really sure if I understand what you mean by a "corrupted PDB
> issue"?

This just means a file that does not conform to the PDB standards
(many do not but are nevertheless not too corrupted to read).  This I
can easily check if you create a bug report and attach a fragment of
the file.


> The PDB that I am using was created with MolMol (Version 2K.2 - old version
> probably) from an original PDB that was deposited at the Protein data bank
> server, which indeed does not have the CONECT lines. I used MolMol because I
> needed to add the hydrogen atoms to the structure. Probably some other
> programs do not introduce the CONECT lines...?! Do you think MolMol is
> actually "corrupting" the PDB during the process of H addition?

Molmol will delete all CONECT records from a PDB file you open, and
you then have to calculate bonds to get them back.  In the file output
by Molmol, are the CONECT records in there?

Cheers,

Edward