VMD-L Mailing List

From: Evelyn Maizels (evelyn.maizels_at_gmail.com)
Date: Thu Feb 17 2022 - 19:17:06 CST

RSCB PDB announced an upcoming formatting change for assembly files in
PdbX/mmCIF format
https://urldefense.com/v3/__https://www.rcsb.org/news/feature/61f839908f40f9265109d399__;!!DZ3fjg!qjy8zGxOSzvltbAdeAAJ0pLX-GY9MfBzmseNUzoKUugGDMun4bdqaGzTwiyUnnpS5g$
f
iles for testing are made available through github
https://urldefense.com/v3/__https://github.com/wwpdb/assembly-mmcif-examples__;!!DZ3fjg!qjy8zGxOSzvltbAdeAAJ0pLX-GY9MfBzmseNUzoKUugGDMun4bdqaGzTwizr2Zcq0g$

I tested one of the files (7lv2) and got 'unable to parse' error for
selection method for chain with the new-style chain naming format that RSCB
PDB is putting forward. The new-style chain naming includes hyphens and
numbers in the chain names.
Will these assembly files be usable in VMD?

Evelyn Maizels MD PhD MS Biomedical Visualization
Adjunct Clinical Associate Professor, Biomedical Visualization Program,
BHIS Dept, College of Applied Health Sciences, University of Illinois at
Chicago