Equivalence class DNA_4.0_99102.1 Current
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 3CR1|1|B+ 3CR1|1|C+ 3CR1|1|A (rep) | loop A and B ribozyme strand, RNA (5'-R(*UP*CP*CP*CP*(A2M)P*GP*UP*CP*CP*AP*CP*CP*G)-3'), RNA (5'-R(*UP*CP*GP*UP*GP*GP*UP*CP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3') | crystal structure of a minimal, mutant, all-RNA hairpin ribozyme (A38C, A-1OMA) grown from MgCl2 | X-ray diffraction | 2.25 | 61 | 2008-08-26 | ||||
| 2 | 3I2Q|1|B+ 3I2Q|1|C+ 3I2Q|1|A | 5'-R(*UP*CP*CP*CP*(A2M)P*GP*UP*CP*CP*AP*CP*CP*GP*U)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3', DNA/RNA (30-MER) | Crystal structure of the hairpin ribozyme with 2'OMe substrate strand and N1-deazaadenosine at position A9 | X-ray diffraction | 2.9 | 61 | 2009-11-03 | ||||
| 3 | 3I2S|1|B+ 3I2S|1|C+ 3I2S|1|A | 5'-R(*UP*CP*CP*CP*(A2M)P*GP*UP*CP*CP*AP*CP*CP*GP*U)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3', DNA/RNA (30-MER) | Crystal structure of the hairpin ribozyme with a 2'OMe substrate and N1-deazaadenosine at position A10 | X-ray diffraction | 2.75 | 61 | 2009-11-03 | ||||
| 4 | 3CQS|1|B+ 3CQS|1|C+ 3CQS|1|A | 13-mer substrate strand with 3'-OH, 2',5'-phosphodiester covalently linking 5th and 6th nucleotides, 19-mer ribozyme strand, 29-mer ribozyme strand with S9L synthetic linker at 13th position | A 3'-OH, 2',5'-phosphodiester substitution in the hairpin ribozyme active site reveals similarities with protein ribonucleases | X-ray diffraction | 2.8 | 61 | 2008-05-20 | ||||
| 5 | 3I2R|1|B+ 3I2R|1|C+ 3I2R|1|A | 5'-R(*UP*CP*CP*CP*AP*GP*UP*CP*CP*AP*CP*CP*GP*U)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3', DNA/RNA (30-MER) | Crystal structure of the hairpin ribozyme with a 2',5'-linked substrate with N1-deazaadenosine at position A9 | X-ray diffraction | 2.8 | 61 | 2009-11-03 | ||||
| 6 | 3I2U|1|B+ 3I2U|1|C+ 3I2U|1|A | 5'-R(*UP*CP*CP*CP*AP*GP*UP*CP*CP*AP*CP*CP*GP*U)-3', 5'-R(*UP*CP*GP*UP*GP*GP*UP*AP*CP*AP*UP*UP*AP*CP*CP*UP*GP*CP*C)-3', DNA/RNA (30-MER) | Crystal structure of the haiprin ribozyme with a 2',5'-linked substrate and N1-deazaadenosine at position A10 | X-ray diffraction | 2.8 | 61 | 2009-11-03 |
Release history
| Release | 0.6 |
|---|---|
| Date | 2011-03-05 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|
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 | NAKB NA annotation | NAKB protein annotation |
|---|---|---|---|---|---|---|---|---|
| 1 | 3I2S|1|B+ 3I2S|1|C+ 3I2S|1|A | Crystal structure of the hairpin ribozyme with a 2'OMe substrate and N1-deazaadenosine at position A10 | X-RAY DIFFRACTION | 2.75 | 61 | catalytic,function,hairpin ribozyme | ||
| 2 | 3CQS|1|B+ 3CQS|1|C+ 3CQS|1|A | A 3'-OH, 2',5'-phosphodiester substitution in the hairpin ribozyme active site reveals similarities with protein ribonucleases | X-RAY DIFFRACTION | 2.8 | 61 | catalytic,function,hairpin ribozyme | ||
| 3 | 3I2Q|1|B+ 3I2Q|1|C+ 3I2Q|1|A | Crystal structure of the hairpin ribozyme with 2'OMe substrate strand and N1-deazaadenosine at position A9 | X-RAY DIFFRACTION | 2.9 | 61 | catalytic,function,hairpin ribozyme | ||
| 4 | 3I2U|1|B+ 3I2U|1|C+ 3I2U|1|A | Crystal structure of the haiprin ribozyme with a 2',5'-linked substrate and N1-deazaadenosine at position A10 | X-RAY DIFFRACTION | 2.8 | 61 | catalytic,function,hairpin ribozyme | ||
| 5 | 3I2R|1|B+ 3I2R|1|C+ 3I2R|1|A | Crystal structure of the hairpin ribozyme with a 2',5'-linked substrate with N1-deazaadenosine at position A9 | X-RAY DIFFRACTION | 2.8 | 61 | catalytic,function,hairpin ribozyme | ||
| 6 | 3CR1|1|B+ 3CR1|1|C+ 3CR1|1|A | crystal structure of a minimal, mutant, all-RNA hairpin ribozyme (A38C, A-1OMA) grown from MgCl2 | X-RAY DIFFRACTION | 2.25 | 61 | catalytic,function,hairpin ribozyme |
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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