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Interesting Structures
From Proteopedia
(Difference between revisions)
| Line 1: | Line 1: | ||
| - | + | Selected structures from [https://raw.githubusercontent.com/molstar/molstar/master/docs/interesting-pdb-entries.md] | |
* Cyclic polymers ([[1sfi]], [[6dny]], [[1hvz]]) | * Cyclic polymers ([[1sfi]], [[6dny]], [[1hvz]]) | ||
| Line 6: | Line 6: | ||
* Mono-saccharides with alt locs ([[1b5f]]) | * Mono-saccharides with alt locs ([[1b5f]]) | ||
* Microheterogeneity | * Microheterogeneity | ||
| - | + | : Protein ([[1ejg]], [[3nir]]) | |
| - | + | : DNA ([[3vok]]) | |
* PNA: peptide nucleic acid ([[5eme]], [[1xj9]]) | * PNA: peptide nucleic acid ([[5eme]], [[1xj9]]) | ||
* Peptide derived residues | * 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]]) | * 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 | * 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]]) | * Beta & Gamma peptides (e.g. [[1gac]], [[6pqf]]) | ||
* Mixed (heterogeneous) all-atom/trace-only RNA model ([[1jgq]]) | * Mixed (heterogeneous) all-atom/trace-only RNA model ([[1jgq]]) | ||
| Line 26: | Line 26: | ||
* Close backbone atoms but not linked (e.g. [[4hiv]]) | * Close backbone atoms but not linked (e.g. [[4hiv]]) | ||
* Non-standard residues | * Non-standard residues | ||
| - | + | : Protein ([[1brr]], [[5z6y]]) | |
| - | + | : DNA ([[5d3g]]) | |
* Multiple models with different sets of ligands or missing ligands ([[1j6t]], [[1vrc]], [[2icy]], [[1o2f]]) | * Multiple models with different sets of ligands or missing ligands ([[1j6t]], [[1vrc]], [[2icy]], [[1o2f]]) | ||
Revision as of 09:32, 18 January 2021
Selected structures from [1]
- Cyclic polymers (1sfi, 6dny, 1hvz)
- B-DNA (1bna)
- Missing carbonyl oxygen (1gfl)
- Mono-saccharides with alt locs (1b5f)
- Microheterogeneity
- 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
- 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
