Hi,
I have a pdb file that contains additional coordinates generated by
symmetry operators. The protein in it has with several disulfide
bonds, and some are inter-chain. One disulfide is a connection
between the final residues of two protein chains. This bond does not
appear in Jmol, whereas it does in Chime, using the command 'ssbonds
on'. The pdb file contains the following information:
REMARK THIS FILE CONTAINS COORDINATES FOR A COMPLETE MULTIMER
REMARK REPRESENTING THE KNOWN BIOLOGICALLY SIGNIFICANT
REMARK OLIGOMERIZATION STATE OF THE MOLECULE. THESE COORDINATES
REMARK WERE GENERATED BY APPLYING BOTH CRYSTALLOGRAPHIC AND
REMARK NON-CRYSTALLOGRAPHIC SYMMETRY OPERATORS TO THE COORDINATES
REMARK STORED IN THE PDB ENTRY 2IG2. THESE OPERATORS ARE
REMARK GIVEN AS MTRIX RECORDS. PLEASE CONSULT THE ENTRY
REMARK FOR BIBLIOGRAPHIC AND OTHER ANNOTATIONS.
I could create this bond using the connect command, but I would like
to be able to turn all the bonds off and on using the ssbonds
command. In addition, I am curious... if it happens here, it may be
occurring in other contexts as well. Any ideas?
File in question is at
http://moleculesinmotion.com/igg-fab2.pdb
Original pdb file is 2ig2.pdb
Frieda
///////////////////////////////////////////
Frieda Reichsman, PhD
Molecules in Motion
Interactive Molecular Structures
http://www.moleculesinmotion.com
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