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The Bio.PDB module can load molecular structures from PDB and mmCIF files, and was added to Biopython in 2003. [16] The Structure object is central to this module, and it organises macromolecular structure in a hierarchical fashion: Structure objects contain Model objects which contain Chain objects which contain Residue objects which contain ...
Program database (PDB) is a file format (developed by Microsoft) for storing debugging information about a program (or, commonly, program modules such as a DLL or EXE). PDB files commonly have a .pdb extension. A PDB file is typically created from source files during compilation.
PDB (Palm OS), a record database format; Pluggable database, in Oracle Database; Program database, a debugging information format; Python Debugger (pdb), of the Python programming language; see Stepping
For example, a search through the PDB database of proteins with solved 3D structure takes a few minutes. If a significant match with a protein of known structure (a "template") is found in the PDB database, HHpred allows the user to build a homology model using the MODELLER software, starting from the pairwise query-template alignment.
PDB PalmPilot Database/Document File BE BA FE CA: ¾ºþÊ: 0 DBA Palm Desktop Calendar Archive 00 01 42 44 ␀␁BD: 0 DBA Palm Desktop To Do Archive 00 01 44 54 ␀␁DT: 0 TDA Palm Desktop Calendar Archive 54 44 46 24: TDF$ 0 TDF$ Telegram Desktop File 54 44 45 46: TDEF: 0 TDEF Telegram Desktop Encrypted File 00 01 00 00 ␀␁␀␀ 0
Coot can be used to read files containing 3D atomic coordinate models of macromolecular structures in a number of formats, including pdb, mmcif, and Shelx files.The model may then be rotated in 3D and viewed from any viewpoint.
The Protein Data Bank (PDB) file format is a textual file format describing the three-dimensional structures of molecules held in the Protein Data Bank, now succeeded by the mmCIF format. The PDB format accordingly provides for description and annotation of protein and nucleic acid structures including atomic coordinates, secondary structure ...
Pydoc can be accessed from a module-specific GUI, [2] from within the Python interpreter, or from a command line shell. [1] [3] Developed by Ka-Ping Yee, [4] [5] it is included by default in all versions of Python since Python 2.1 and is available for download for 1.5.2, 1.6, and 2.0. [3] Pydoc is used to extract documentation from the source ...