[Chimera-users] on chimera saved PDB file

Elaine Meng meng at cgl.ucsf.edu
Mon Jun 29 09:13:06 PDT 2015


Dear Smith,
The CONECT lines are part of standard PDB format.  They describe bonds that are not already implied by the residues/chains in the file.  They have a standard fixed format, where each piece of information must be in certain columns, so if the numbers are long enough, there won’t be spaces between them.

See the description of PDB format at the wwPDB website for the details of CONECT (and other parts of a PDB file):
<http://www.wwpdb.org/documentation/file-format>
<http://www.wwpdb.org/documentation/file-format-content/format33/sect10.html#CONECT>

Best,
Elaine
----------
Elaine C. Meng, Ph.D. 
UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
Department of Pharmaceutical Chemistry
University of California, San Francisco


> On Jun 29, 2015, at 1:59 AM, Smith Liu <smith_liu123 at 163.com> wrote:
> 
> Dear All,
> 
> By chimera I have saved a PDB file, but at the end of the saved PDB there are following sentences which I do not understand:
> 
> CONECT 3 2 4 17
> 
> CONECT14560145591456114574
> 
> CONECT29117291162911829131
> 
> Will you please explain it to me the meaning of "CONECT 3 2 4 17" and the other 2 sentences? And why there is no space in "CONECT14560145591456114574"?
> 
> Smith




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