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Package MolKit :: Package pdb2pqr :: Package src :: Module pdb :: Class CONECT
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Class CONECT

source code

CONECT class

The CONECT records specify connectivity between atoms for which coordinates are supplied. The connectivity is described using the atom serial number as found in the entry. CONECT records are mandatory for HET groups (excluding water) and for other bonds not specified in the standard residue connectivity table which involve atoms in standard residues (see Appendix 4 for the list of standard residues). These records are generated by the PDB.

Instance Methods [hide private]
  __init__(self, line)
...

Method Details [hide private]

__init__(self, line)
(Constructor)

source code  

Initialize by parsing line

COLUMNS  TYPE   FIELD    DEFINITION
--------------------------------------------
 7-11    int    serial   Atom serial number              
12-16    int    serial1  Serial number of bonded atom    
17-21    int    serial2  Serial number of bonded atom    
22-26    int    serial3  Serial number of bonded atom    
27-31    int    serial4  Serial number of bonded atom    
32-36    int    serial5  Serial number of hydrogen bonded atom    
37-41    int    serial6  Serial number of hydrogen bonded atom    
42-46    int    serial7  Serial number of salt bridged    atom    
47-51    int    serial8  Serial number of hydrogen bonded atom    
52-56    int    serial9  Serial number of hydrogen bonded atom    
57-61    int    serial10 Serial number of salt bridged    atom

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