Difference between revisions of "Pdb use ter records"

From PyMOLWiki
Jump to: navigation, search
m (style)
 
Line 8: Line 8:
 
* <= 1.5.0.4 feature broken for HETATM polymer residues (e.g. MSE)
 
* <= 1.5.0.4 feature broken for HETATM polymer residues (e.g. MSE)
  
===Example===
+
== Example ==
 
<source lang="python">
 
<source lang="python">
 
get pdb_use_ter_records  # return current value of pdb_use_ter_records
 
get pdb_use_ter_records  # return current value of pdb_use_ter_records
Line 14: Line 14:
 
</source>
 
</source>
  
===PYMOL API===
+
== PyMOL API ==
 
<source lang="python">
 
<source lang="python">
 
cmd.set('pdb_use_ter_records', 0)
 
cmd.set('pdb_use_ter_records', 0)
 
</source>
 
</source>
  
===SEE ALSO===
+
== See Also ==
[[Pdb_conect_nodup]], [[Pdb_Conect_All]]
+
 
 +
* [[pdb_conect_nodup]]
 +
* [[pdb_conect_all]]
  
 
[[Category:Settings|Pdb_use_ter_records]]
 
[[Category:Settings|Pdb_use_ter_records]]

Latest revision as of 07:32, 17 December 2018

When a molecule (e.g. a protein molecule) is saved in pdb format by PyMOL, a line of TER record is inserted wherever the residue id is not sequential. To suppress this feature, set pdb_use_ter_records value to 0 before saving protein molecules.

Version History

  • 2.3.0 new implementation, works correctly with gaps
  • 1.8.4 feature removed
  • <= 1.8.2 feature broken for various use cases (e.g. gaps)
  • <= 1.5.0.4 feature broken for HETATM polymer residues (e.g. MSE)

Example

get pdb_use_ter_records  # return current value of pdb_use_ter_records
set pdb_use_ter_records, 0

PyMOL API

cmd.set('pdb_use_ter_records', 0)

See Also