Equivalence class NR_3.5_89612.7 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 6N6I|1|C (rep) | RNA (5'-R(P*GP*G)-3') | synthetic construct | Synthetic | Human REXO2 bound to pGG | X-ray diffraction | 1.43 | 2019-06-12 | ||
| 2 | 6N6I|1|D | RNA (5'-R(P*GP*G)-3') | synthetic construct | Synthetic | Human REXO2 bound to pGG | X-ray diffraction | 1.43 | 2019-06-12 | ||
| 3 | 6N6A|1|D | RNA (5'-R(P*GP*G)-3') | Pseudomonas aeruginosa | Bacteria | Vibrio cholerae Oligoribonuclease bound to pGG | X-ray diffraction | 1.5 | 2019-06-12 | ||
| 4 | 6IJ2|1|F | RNA (5'-R(P*GP*G)-3') | synthetic construct | Synthetic | Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form | X-ray diffraction | 1.7 | 2019-10-09 | ||
| 5 | 6IJ2|1|G | RNA (5'-R(P*GP*G)-3') | synthetic construct | Synthetic | Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form | X-ray diffraction | 1.7 | 2019-10-09 | ||
| 6 | 6IJ2|1|H | RNA (5'-R(P*GP*G)-3') | synthetic construct | Synthetic | Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form | X-ray diffraction | 1.7 | 2019-10-09 | ||
| 7 | 6IJ2|1|E | RNA (5'-R(P*GP*G)-3') | synthetic construct | Synthetic | Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form | X-ray diffraction | 1.7 | 2019-10-09 | ||
| 8 | 3U2E|1|D | RNA (5'-R(P*GP*G)-3') | EAL domain of phosphodiesterase PdeA in complex with 5'-pGpG and Mg++ | X-ray diffraction | 2.32 | 2011-10-12 | ||||
| 9 | 3U2E|1|C | RNA (5'-R(P*GP*G)-3') | EAL domain of phosphodiesterase PdeA in complex with 5'-pGpG and Mg++ | X-ray diffraction | 2.32 | 2011-10-12 | ||||
| 10 | 5UEF|1|C | RNA (5'-R(P*GP*G)-3') | synthetic construct | Synthetic | RNA primer-template complex with guanosine dinucleotide p(5')G(3')p(5')G ligand | X-ray diffraction | 2.1 | 2017-07-05 | ||
| 11 | 5UEF|1|D | RNA (5'-R(P*GP*G)-3') | synthetic construct | Synthetic | RNA primer-template complex with guanosine dinucleotide p(5')G(3')p(5')G ligand | X-ray diffraction | 2.1 | 2017-07-05 | ||
| 12 | 4X4U|1|H | RNA (5'-D(*GP*G)-3') | Homo sapiens | Eukarya | Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a human MenBeta minihelix ending in CCACC | X-ray diffraction | 2.7 | 2015-02-11 | ||
| 13 | 4AFY|1|D | 5'-R(*GP*GP)-3' | synthetic construct | Synthetic | Crystal structure of the FimX EAL domain in complex with reaction product pGpG | X-ray diffraction | 2.01 | 2013-01-09 | ||
| 14 | 6OY5|1|I | RNA (5'-D(*(GTP))-R(P*G)-3') | Thermus thermophilus | Bacteria | X-ray crystal structure of a bacterial reiterative transcription complex of pyrG promoter at 3 min | X-ray diffraction | 3.1 | 2019-06-05 | ||
| 15 | 4AFY|1|C | 5'-R(*GP*GP)-3' | synthetic construct | Synthetic | Crystal structure of the FimX EAL domain in complex with reaction product pGpG | X-ray diffraction | 2.01 | 2013-01-09 | ||
| 16 | 4LQ3|1|R | 5'-R(P*GP*G)-3' | Crystal structure of human norovirus RNA-dependent RNA-polymerase bound to the inhibitor PPNDS | X-ray diffraction | 2.6 | 2014-02-12 | ||||
| 17 | 6S0M|1|C | RNA (5'-R(P*G)-3') | Escherichia coli | Bacteria | Structural and dynamic studies provide insights into specificity and allosteric regulation of Ribonuclease AS, a key enzyme in mycobacterial virulence | X-ray diffraction | 2 | 2019-08-28 |
Release history
| Release | 3.95 | 3.96 | 3.97 | 3.98 | 3.99 | 3.100 | 3.101 | 3.102 | 3.103 | 3.104 | 3.105 | 3.106 | 3.107 | 3.108 | 3.109 | 3.110 | 3.111 | 3.112 | 3.113 | 3.114 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2019-10-09 | 2019-10-16 | 2019-10-23 | 2019-10-30 | 2019-11-06 | 2019-11-13 | 2019-11-20 | 2019-11-27 | 2019-12-04 | 2019-12-11 | 2019-12-18 | 2019-12-25 | 2020-01-01 | 2020-01-08 | 2020-01-15 | 2020-01-22 | 2020-01-29 | 2020-02-05 | 2020-02-12 | 2020-02-19 |
Parents
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_3.5_89612.7 | NR_3.5_89612.8 | 3.115 | (17) 6N6I|1|C, 4X4U|1|H, 4LQ3|1|R, 6N6A|1|D, 4AFY|1|D, 6IJ2|1|H, 4AFY|1|C, 6IJ2|1|G, 3U2E|1|D, 6IJ2|1|F, 6S0M|1|C, 3U2E|1|C, 6IJ2|1|E, 6OY5|1|I, 5UEF|1|D, 6N6I|1|D, 5UEF|1|C | (0) | (2) 6OWL|1|C, 6OWL|1|B |
Heat map of mutual geometric discrepancy, in Angstroms per nucleotide. Instances are ordered to put similar structures near each other. The colorbar ranges from 0 to the maximum observed discrepancy, up to 0.5
#S - ordering by similarity (same as in the heat map).| #S | PDB | Title | Method | Resolution | Length |
|---|---|---|---|---|---|
| 1 | 3U2E|1|D | EAL domain of phosphodiesterase PdeA in complex with 5'-pGpG and Mg++ | X-RAY DIFFRACTION | 2.32 | 2 |
| 2 | 3U2E|1|C | EAL domain of phosphodiesterase PdeA in complex with 5'-pGpG and Mg++ | X-RAY DIFFRACTION | 2.32 | 2 |
| 3 | 4AFY|1|C | Crystal structure of the FimX EAL domain in complex with reaction product pGpG | X-RAY DIFFRACTION | 2.01 | 2 |
| 4 | 4AFY|1|D | Crystal structure of the FimX EAL domain in complex with reaction product pGpG | X-RAY DIFFRACTION | 2.01 | 2 |
| 5 | 4X4U|1|H | Crystal structure of the A.fulgidus CCA-adding enzyme in complex with a human MenBeta minihelix ending in CCACC | X-RAY DIFFRACTION | 2.7 | 2 |
| 6 | 4LQ3|1|R | Crystal structure of human norovirus RNA-dependent RNA-polymerase bound to the inhibitor PPNDS | X-RAY DIFFRACTION | 2.6 | 2 |
| 7 | 6IJ2|1|G | Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form | X-RAY DIFFRACTION | 1.7 | 2 |
| 8 | 6N6A|1|D | Vibrio cholerae Oligoribonuclease bound to pGG | X-RAY DIFFRACTION | 1.5 | 2 |
| 9 | 6S0M|1|C | Structural and dynamic studies provide insights into specificity and allosteric regulation of Ribonuclease AS, a key enzyme in mycobacterial virulence | X-RAY DIFFRACTION | 2 | 1 |
| 10 | 6N6I|1|C | Human REXO2 bound to pGG | X-RAY DIFFRACTION | 1.43 | 2 |
| 11 | 6IJ2|1|H | Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form | X-RAY DIFFRACTION | 1.7 | 2 |
| 12 | 5UEF|1|C | RNA primer-template complex with guanosine dinucleotide p(5')G(3')p(5')G ligand | X-RAY DIFFRACTION | 2.1 | 2 |
| 13 | 6OY5|1|I | X-ray crystal structure of a bacterial reiterative transcription complex of pyrG promoter at 3 min | X-RAY DIFFRACTION | 3.1 | 1 |
| 14 | 5UEF|1|D | RNA primer-template complex with guanosine dinucleotide p(5')G(3')p(5')G ligand | X-RAY DIFFRACTION | 2.1 | 2 |
| 15 | 6IJ2|1|F | Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form | X-RAY DIFFRACTION | 1.7 | 2 |
| 16 | 6IJ2|1|E | Crystal structure of a standalone versatile EAL protein from Vibrio cholerae O395 - 5'-pGpG bound form | X-RAY DIFFRACTION | 1.7 | 2 |
| 17 | 6N6I|1|D | Human REXO2 bound to pGG | X-RAY DIFFRACTION | 1.43 | 2 |