DESCRIPTIONThis module extracts the backbone elements from a PDB file. The elements are then connected and the chain ends determined. The elements are then sorted by sequence in the chain. NOTE: element id's are assigned so that the N's have id's of 0,4,8... the alpha carbons, 1,5,9... and so on. The output is a Chemistry Pyramid. The connectivity is determined by the standard vdw test.
Type: File Browser
Filename of PDB file
The output is a Chemical-based pyramid. This pyramid has 2 layers of lattices. The base layer (0) contains the bond order and 2 atom numbers that comprise the bond. The next layer (1), contains the connectivity information, atom data, and the cartesian coordinates. Eact atom has 4 data variables: ID, element number vdw radius, and colour number.
PROBLEMSNOTE: Here element id's do not correspond to id's in the PDB file.
SEE ALSOEyeRibbons EyeBalls AtomicSurf
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