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Representation of viruses in the remediated PDB archive.

ABSTRACT: A new scheme has been devised to represent viruses and other biological assemblies with regular noncrystallographic symmetry in the Protein Data Bank (PDB). The scheme describes existing and anticipated PDB entries of this type using generalized descriptions of deposited and experimental coordinate frames, symmetry and frame transformations. A simplified notation has been adopted to express the symmetry generation of assemblies from deposited coordinates and matrix operations describing the required point, helical or crystallographic symmetry. Complete correct information for building full assemblies, subassemblies and crystal asymmetric units of all virus entries is now available in the remediated PDB archive.

SUBMITTER: Lawson CL

PROVIDER: S-EPMC2677383 | biostudies-literature | 2008 Aug

REPOSITORIES: biostudies-literature

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Representation of viruses in the remediated PDB archive.

Lawson Catherine L CL Dutta Shuchismita S Westbrook John D JD Henrick Kim K Berman Helen M HM

Acta crystallographica. Section D, Biological crystallography 20080717 Pt 8

A new scheme has been devised to represent viruses and other biological assemblies with regular noncrystallographic symmetry in the Protein Data Bank (PDB). The scheme describes existing and anticipated PDB entries of this type using generalized descriptions of deposited and experimental coordinate frames, symmetry and frame transformations. A simplified notation has been adopted to express the symmetry generation of assemblies from deposited coordinates and matrix operations describing the requ ...[more]

PMID: 18645236

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