Equivalence class NR_4.0_92489.5 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 8RZA|1|R (rep) | RNA (5'-R(P*UP*UP*U)-3') | Escherichia coli | Ribonuclease W | X-ray diffraction | 2.1 | 3 | 2024-11-06 | |||
| 2 | 4DR7|1|b | 5'-R(P*UP*UP*U)-3' | Thermus thermophilus | Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with codon, crystallographically disordered near-cognate transfer RNA anticodon stem-loop mismatched at the second codon position, and streptomycin bound | X-ray diffraction | 3.75 | 3 | 2012-11-14 | |||
| 3 | 4DR5|1|V | 5'-R(*UP*UP*U)-3' | Thermus thermophilus | Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with codon, crystallographically disordered cognate transfer RNA anticodon stem-loop and streptomycin bound | X-ray diffraction | 3.45 | 3 | 2012-11-14 | |||
| 4 | 1I5L|1|Y | 5'-R(*UP*UP*U)-3' | CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS COMPLEXED WITH SHORT POLY-U RNA | X-ray diffraction | 2.75 | 3 | 2001-08-28 | ||||
| 5 | 1I5L|1|U | 5'-R(*UP*UP*U)-3' | CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS COMPLEXED WITH SHORT POLY-U RNA | X-ray diffraction | 2.75 | 3 | 2001-08-28 | ||||
| 6 | 4DR6|1|b | 5'-R(*UP*UP*U)-3' | Thermus thermophilus | Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with codon, near-cognate transfer RNA anticodon stem-loop mismatched at the first codon position and streptomycin bound | X-ray diffraction | 3.3 | 2 | 2012-11-14 | |||
| 7 | 5IP2|1|F | RNA (5'-D(P*UP*UP*U)-3') | synthetic construct | Tomato spotted wilt tospovirus nucleocapsid protein-ssRNA complex | X-ray diffraction | 3.3 | 3 | 2017-03-22 | |||
| 8 | 5IP2|1|D | RNA (5'-D(P*UP*UP*U)-3') | synthetic construct | Tomato spotted wilt tospovirus nucleocapsid protein-ssRNA complex | X-ray diffraction | 3.3 | 3 | 2017-03-22 | |||
| 9 | 8V9J|1|v | poly-U mRNA | Mycolicibacterium smegmatis MC2 155 | Cryo-EM structure of the Mycobacterium smegmatis 70S ribosome in complex with hibernation factor Msmeg1130 (Balon) (Structure 4) | Electron microscopy | 3.1 | 3 | 2024-02-07 | |||
| 10 | 6I2N|1|U | RNA (5'-R(P*UP*UP*U)-3') | Spodoptera frugiperda | Helical RNA-bound Hantaan virus nucleocapsid | Electron microscopy | 3.3 | 3 | 2019-01-23 |
Release history
| Release | 3.382 |
|---|---|
| Date | 2025-04-09 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
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Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
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Instances are ordered to put similar structures near each other. Select one instance to see its 3D structure. Selecting two or more instances will show their superposition, but only chains with identical numbers of observed nucleotides will superpose well. Large structures are slow to display; this tool is not designed for that.
| #S | View | PDB | Title | Method | Resolution | #NTs |
|---|---|---|---|---|---|---|
| 1 | 1I5L|1|Y | CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS COMPLEXED WITH SHORT POLY-U RNA | X-RAY DIFFRACTION | 2.75 | 3 | |
| 2 | 1I5L|1|U | CRYSTAL STRUCTURE OF AN SM-LIKE PROTEIN (AF-SM1) FROM ARCHAEOGLOBUS FULGIDUS COMPLEXED WITH SHORT POLY-U RNA | X-RAY DIFFRACTION | 2.75 | 3 | |
| 3 | 5IP2|1|F | Tomato spotted wilt tospovirus nucleocapsid protein-ssRNA complex | X-RAY DIFFRACTION | 3.3 | 3 | |
| 4 | 4DR5|1|V | Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with codon, crystallographically disordered cognate transfer RNA anticodon stem-loop and streptomycin bound | X-RAY DIFFRACTION | 3.45 | 3 | |
| 5 | 8V9J|1|v | Cryo-EM structure of the Mycobacterium smegmatis 70S ribosome in complex with hibernation factor Msmeg1130 (Balon) (Structure 4) | ELECTRON MICROSCOPY | 3.1 | 3 | |
| 6 | 5IP2|1|D | Tomato spotted wilt tospovirus nucleocapsid protein-ssRNA complex | X-RAY DIFFRACTION | 3.3 | 3 | |
| 7 | 6I2N|1|U | Helical RNA-bound Hantaan virus nucleocapsid | ELECTRON MICROSCOPY | 3.3 | 3 | |
| 8 | 4DR7|1|b | Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with codon, crystallographically disordered near-cognate transfer RNA anticodon stem-loop mismatched at the second codon position, and streptomycin bound | X-RAY DIFFRACTION | 3.75 | 3 | |
| 9 | 4DR6|1|b | Crystal structure of the Thermus thermophilus (HB8) 30S ribosomal subunit with codon, near-cognate transfer RNA anticodon stem-loop mismatched at the first codon position and streptomycin bound | X-RAY DIFFRACTION | 3.3 | 2 | |
| 10 | 8RZA|1|R | Ribonuclease W | X-RAY DIFFRACTION | 2.1 | 3 |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. The ordering in the heat map is the same as in the table. The colorbar ranges from 0 to the maximum observed discrepancy. Click above the diagonal to select a range of structures, below the diagonal to select two structures.
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