TmMolStar/docs/interesting-pdb-entries.md

• Cyclic polymers (1sfi, 6dny, 1HVZ)
• B-DNA (1bna)
• Missing carbonyl oxygen (1gfl)
• Mono-saccharides with alt locs (1B5F)
• Microheterogeneity
  • Protein (1EJG, 3NIR)
  • DNA (3VOK)
• PNA: peptide nucleic acid (5eme, 1xj9)
• Peptide derived residues
  • GFP chromophores (5Z6Y)
• Nucleotides that don’t have a parent base set, i.e. detect purine/pyrimidine from geometry (THX in 1AUL, OMC in e.g. 5D3G)
• Bases with modified ring atoms
  • DZ has C1 instead of N1 (e.g. 6I4N)
  • DP has N5 instead of C5 and C7 instead of N7 (e.g. 6I4N)
• Beta & Gamma peptides (e.g. 1GAC, 6PQF)
• Mixed (heterogeneous) all-atom/trace-only RNA model (1JGQ)
• Polymers with residues with missing trace atoms (e.g. 2QFJ)
• Modified RNA bases (1y26, 5L4O)
• Discontinuous chains, i.e. gaps in the sequence (3sn6)
• Lots of sheets (1cbs)
• DNA (2np2, 1d66)
• C-alpha only (2rcj)
• Not cyclic, but termini are backbone-only and within distance but seqIds are not compatible (6SW3)
• Close backbone atoms but not linked (e.g. 4HIV)
• Non-standard residues
  • Protein (1BRR, 5Z6Y)
  • DNA (5D3G)
• Multiple models with different sets of ligands or missing ligands (1J6T, 1VRC, 2ICY, 1O2F)
• Long linear sugar chain (4HG6)
• Anisotropic B-factors/Ellipsoids (1EJG)
• NOS bridges (LYS-CSO in 7B0L, 6ZWJ, 6ZWH)

Assembly symmetries

• 5M30 (Assembly 1, C3 local and pseudo)
• 1RB8 (Assembly 1, I global)