problem converting PDB file to mmcif for deposition
Hi Everybody, I encountered a problem recently in converting my PDB file to mmcif using the pdb_extract tool in rcsb. It simply writes out an empty file!! I wonder if any of you have faced such a problem before and know the solution!! I carefully examined the PDB file header and I couldn't really find a reason why this PDB failed to be converted. I only use PHENIX for molecular replacement and refinement. I used the default TLS refinement so I assume the whole structure will be refined as a group. I hope somebody is familiar with this can help me out. Thank you very much, Mohd
On 01/20/2012 03:45 AM, Salameh, Mohd A., Ph.D. wrote:
Hi Everybody,
I encountered a problem recently in converting my PDB file to mmcif
using the pdb_extract tool in rcsb.
Can you give this a try (from the openbabel package on Ubuntu or Debian Linux): babel [INPUT].pdb [OUTPUT].mmcif Regards, Francois.
It simply writes out an empty
file!! I wonder if any of you have faced such a problem before and
know the solution!! I carefully examined the PDB file header and I
couldn’t really find a reason why this PDB failed to be converted. I
only use PHENIX for molecular replacement and refinement. I used the
default TLS refinement so I assume the whole structure will be refinedas a group. I hope somebody is familiar withthis can help me out.
Thank you very much, Mohd
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participants (2)
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Francois Berenger -
Salameh, Mohd A., Ph.D.