Difference between revisions of "Pdb use ter records"
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(fix broken link to PDB page (ter format) and add this page to the settings page) |
(add see also (Pdb_conect_nodup and Pdb_Conect_All) put the PyMOL api example under the title "PyMOL API") |
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When a molecule (e.g. a protein molecule) is saved in pdb format by PyMOL, a line of [http://www.wwpdb.org/documentation/file-format-content/format33/sect9.html#TER TER] record is inserted wherever the residue id is not sequential. To suppress this feature, set <tt>pdb_use_ter_records</tt> value to 0 before saving protein molecules. | When a molecule (e.g. a protein molecule) is saved in pdb format by PyMOL, a line of [http://www.wwpdb.org/documentation/file-format-content/format33/sect9.html#TER TER] record is inserted wherever the residue id is not sequential. To suppress this feature, set <tt>pdb_use_ter_records</tt> value to 0 before saving protein molecules. | ||
| − | =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 | ||
set pdb_use_ter_records, 0 | set pdb_use_ter_records, 0 | ||
| + | </source> | ||
| − | + | ===PYMOL API=== | |
| − | cmd.set( | + | <source lang="python"> |
| + | cmd.set('pdb_use_ter_records', 0) | ||
</source> | </source> | ||
| + | |||
| + | ===SEE ALSO=== | ||
| + | [[Pdb_conect_nodup]], [[Pdb_Conect_All]] | ||
[[Category:Settings|Pdb_use_ter_records]] | [[Category:Settings|Pdb_use_ter_records]] | ||
Revision as of 19:26, 15 September 2015
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.
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)