mmLib.Extensions.TLS.TLSFileFormatPDB

Package mmLib :: Package Extensions :: Module TLS :: Class TLSFileFormatPDB

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Class TLSFileFormatPDB

   object --+    
            |    
TLSFileFormat --+
                |
               TLSFileFormatPDB

Reads TLS descriptions from the REMARK records in PDB files. These records are only written by REFMAC5.

Method Summary
	`complete_L(self)`
	`complete_S(self)`
	`complete_T(self)`
	`load(self, fil)` Returns a list containing one TLSGroupDesc object for each TLS group description found in the file.
	`load_supported(self)` Returns True if file loading is supported, otherwise returns False.
	`process_REMARK(self, rec)` Callback for the PDBFile parser for REMARK records.
Inherited from TLSFileFormat
	`save(self, fil, tls_desc_list)` Writes the list of TLSGroupDesc object to the given file.
	`save_supported(self)` Return True if file saving is supported, otherwise returns False.
Inherited from object
	`__init__(...)` x.__init__(...) initializes x; see x.__class__.__doc__ for signature
	`__delattr__(...)` x.__delattr__('name') <==> del x.name
	`__getattribute__(...)` x.__getattribute__('name') <==> x.name
	`__hash__(x)` x.__hash__() <==> hash(x)
	`__reduce__(...)` helper for pickle
	`__reduce_ex__(...)` helper for pickle
	`__repr__(x)` x.__repr__() <==> repr(x)
	`__setattr__(...)` x.__setattr__('name', value) <==> x.name = value
	`__str__(x)` x.__str__() <==> str(x)
Inherited from type
	`__new__(T, S, ...)` T.__new__(S, ...) -> a new object with type S, a subtype of T

Class Variable Summary
`dict`	`pdb_regex_dict` = `{'origin': <_sre.SRE_Pattern object at ...`

Method Details

load(self, fil)

Returns a list containing one TLSGroupDesc object for each TLS group description found in the file.

Overrides:: mmLib.Extensions.TLS.TLSFileFormat.load (inherited documentation)

load_supported(self)

Returns True if file loading is supported, otherwise returns False.

Overrides:: mmLib.Extensions.TLS.TLSFileFormat.load_supported (inherited documentation)

process_REMARK(self, rec)

Callback for the PDBFile parser for REMARK records. If the REMARK records contain TLS group information, then it is extracted and added to the TLSGroups list.

Class Variable Details

pdb_regex_dict

Type:: dict
Value:: {'group': <_sre.SRE_Pattern object at 0x8223df0>, 'l11_l22': <_sre.SRE_Pattern object at 0x8236490>, 'l13_l23': <_sre.SRE_Pattern object at 0x82369c8>, 'l33_l12': <_sre.SRE_Pattern object at 0x8236800>, 'origin': <_sre.SRE_Pattern object at 0x82352b8>, 'range': <_sre.SRE_Pattern object at 0x8234d60>, 's11_s12_s13': <_sre.SRE_Pattern object at 0x8236df8>, 's21_s22_s23': <_sre.SRE_Pattern object at 0x82372d0>, ...

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