Equivalence class NR_all_12260.2 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | #NTs | Date |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 3UCZ|1|R (rep) | Cyclic di-GMP-I riboswitch | RNA (5'-R(*GP*G)-3'), RNA (92-MER) | RF01051 | The c-di-GMP-I riboswitch bound to GpG | X-ray diffraction | 2.8 | 92 | 2012-01-04 | ||
| 2 | 3UD3|1|R | Cyclic di-GMP-I riboswitch | RNA (5'-R(P*GP*A)-3'), RNA (92-MER) | RF01051 | The C92U mutant c-di-GMP-I riboswitch bound to pGpA | X-ray diffraction | 3.1 | 92 | 2012-01-04 | ||
| 3 | 3UCU|1|R | Cyclic di-GMP-I riboswitch | diguanosine monophosphate, RNA (92-MER) | RF01051 | The c-di-GMP-I riboswitch bound to pGpG | X-ray diffraction | 2.8 | 92 | 2012-01-04 | ||
| 4 | 3MXH|1|R | Cyclic di-GMP-I riboswitch | c-di-GMP riboswitch | RF01051 | Native structure of a c-di-GMP riboswitch from V. cholerae | X-ray diffraction | 2.3 | 92 | 2010-08-25 | ||
| 5 | 3MUR|1|R | Cyclic di-GMP-I riboswitch | C92U mutant c-di-GMP riboswitch | RF01051 | Crystal Structure of the C92U mutant c-di-GMP riboswith bound to c-di-GMP | X-ray diffraction | 3 | 92 | 2010-08-25 | ||
| 6 | 3MUV|1|R | Cyclic di-GMP-I riboswitch | G20A/C92U mutant c-di-GMP riboswitch | RF01051 | Crystal Structure of the G20A/C92U mutant c-di-GMP riboswith bound to c-di-AMP | X-ray diffraction | 3.2 | 91 | 2010-08-25 | ||
| 7 | 4YB1|1|R | Cyclic di-GMP-I riboswitch | RNA (91-MER) | Vibrio cholerae | Bacteria | RF01051 | 20A Mutant c-di-GMP Vc2 Riboswitch bound with 3',3'-cGAMP | X-ray diffraction | 2.08 | 91 | 2015-04-15 |
| 8 | 3UD4|1|R | Cyclic di-GMP-I riboswitch | RNA (5'-R(*GP*A)-3'), RNA (92-MER) | RF01051 | The C92U mutant c-di-GMP-I riboswitch bound to GpA | X-ray diffraction | 2.7 | 92 | 2012-01-04 | ||
| 9 | 3MUM|1|R | Cyclic di-GMP-I riboswitch | G20A mutant c-di-GMP Riboswitch | RF01051 | Crystal Structure of the G20A mutant c-di-GMP riboswith bound to c-di-GMP | X-ray diffraction | 2.9 | 92 | 2010-08-25 | ||
| 10 | 3IRW|1|R | Cyclic di-GMP-I riboswitch | c-di-GMP Riboswitch | Vibrio cholerae | Bacteria | RF01051 | Structure of a c-di-GMP riboswitch from V. cholerae | X-ray diffraction | 2.7 | 91 | 2009-11-10 |
| 11 | 3IWN|1|A | Cyclic di-GMP-I riboswitch | C-di-GMP riboswitch | RF01051 | Co-crystal structure of a bacterial c-di-GMP riboswitch | X-ray diffraction | 3.2 | 93 | 2009-11-10 | ||
| 12 | 3MUT|1|R | Cyclic di-GMP-I riboswitch | G20A/C92U mutant c-di-GMP riboswitch | RF01051 | Crystal Structure of the G20A/C92U mutant c-di-GMP riboswith bound to c-di-GMP | X-ray diffraction | 3 | 92 | 2010-08-25 | ||
| 13 | 3IWN|1|B | Cyclic di-GMP-I riboswitch | C-di-GMP riboswitch | RF01051 | Co-crystal structure of a bacterial c-di-GMP riboswitch | X-ray diffraction | 3.2 | 93 | 2009-11-10 |
Release history
| Release | 2.19 | 2.20 | 2.21 | 2.22 | 2.23 | 2.24 | 2.25 | 2.26 | 2.27 | 2.28 | 2.29 | 2.30 | 2.31 | 2.32 | 2.33 | 2.34 | 2.35 | 2.36 | 2.37 | 2.38 | 2.39 | 2.40 | 2.41 | 2.42 | 2.43 | 2.44 | 2.45 | 2.46 | 2.47 | 2.48 | 2.49 | 2.50 | 2.51 | 2.52 | 2.53 | 2.54 | 2.55 | 2.56 | 2.57 | 2.58 | 2.59 | 2.60 | 2.61 | 2.62 | 2.63 | 2.64 | 2.65 | 2.66 | 2.67 | 2.68 | 2.69 | 2.70 | 2.71 | 2.72 | 2.73 | 2.74 | 2.75 | 2.76 | 2.77 | 2.78 | 2.79 | 2.80 | 2.81 | 2.82 | 2.83 | 2.84 | 2.85 | 2.86 | 2.87 | 2.88 | 2.89 | 2.90 | 2.91 | 2.92 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2015-04-17 | 2015-04-24 | 2015-05-01 | 2015-05-08 | 2015-05-15 | 2015-05-22 | 2015-05-29 | 2015-06-05 | 2015-06-12 | 2015-06-19 | 2015-06-26 | 2015-07-03 | 2015-07-10 | 2015-07-17 | 2015-07-24 | 2015-07-31 | 2015-08-07 | 2015-08-14 | 2015-08-21 | 2015-08-28 | 2015-09-04 | 2015-09-11 | 2015-09-18 | 2015-09-25 | 2015-10-02 | 2015-10-09 | 2015-10-16 | 2015-10-23 | 2015-10-30 | 2015-11-06 | 2015-11-13 | 2015-11-20 | 2015-11-27 | 2015-12-04 | 2015-12-11 | 2015-12-18 | 2015-12-25 | 2016-01-01 | 2016-01-08 | 2016-01-15 | 2016-01-22 | 2016-01-29 | 2016-02-05 | 2016-02-12 | 2016-02-19 | 2016-02-26 | 2016-03-04 | 2016-03-11 | 2016-03-18 | 2016-03-25 | 2016-04-01 | 2016-04-08 | 2016-04-15 | 2016-04-22 | 2016-04-29 | 2016-05-06 | 2016-05-13 | 2016-05-20 | 2016-05-27 | 2016-06-03 | 2016-06-10 | 2016-06-17 | 2016-06-24 | 2016-07-01 | 2016-07-08 | 2016-07-15 | 2016-07-22 | 2016-07-29 | 2016-08-05 | 2016-08-12 | 2016-08-19 | 2016-08-26 | 2016-09-02 | 2016-09-09 |
Parents
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_all_12260.2 | NR_all_12260.3 | 2.93 | (11) 3IRW|1|R, 3MUM|1|R, 3MUR|1|R, 3MUT|1|R, 3MUV|1|R, 3MXH|1|R, 3UCU|1|R, 3UCZ|1|R, 3UD3|1|R, 3UD4|1|R, 4YB1|1|R | (2) 3IWN|1|A, 3IWN|1|B | (0) |
| NR_all_12260.2 | NR_all_25458.1 | 2.93 | (2) 3IWN|1|A, 3IWN|1|B | (11) 3IRW|1|R, 3MUM|1|R, 3MUR|1|R, 3MUT|1|R, 3MUV|1|R, 3MXH|1|R, 3UCU|1|R, 3UCZ|1|R, 3UD3|1|R, 3UD4|1|R, 4YB1|1|R | (0) |
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 | 4YB1|1|R | 20A Mutant c-di-GMP Vc2 Riboswitch bound with 3',3'-cGAMP | X-RAY DIFFRACTION | 2.08 | 91 | |
| 2 | 3MUV|1|R | Crystal Structure of the G20A/C92U mutant c-di-GMP riboswith bound to c-di-AMP | X-RAY DIFFRACTION | 3.2 | 91 | |
| 3 | 3IRW|1|R | Structure of a c-di-GMP riboswitch from V. cholerae | X-RAY DIFFRACTION | 2.7 | 91 | |
| 4 | 3UD4|1|R | The C92U mutant c-di-GMP-I riboswitch bound to GpA | X-RAY DIFFRACTION | 2.7 | 92 | |
| 5 | 3UCU|1|R | The c-di-GMP-I riboswitch bound to pGpG | X-RAY DIFFRACTION | 2.8 | 92 | |
| 6 | 3UD3|1|R | The C92U mutant c-di-GMP-I riboswitch bound to pGpA | X-RAY DIFFRACTION | 3.1 | 92 | |
| 7 | 3UCZ|1|R | The c-di-GMP-I riboswitch bound to GpG | X-RAY DIFFRACTION | 2.8 | 92 | |
| 8 | 3MUR|1|R | Crystal Structure of the C92U mutant c-di-GMP riboswith bound to c-di-GMP | X-RAY DIFFRACTION | 3 | 92 | |
| 9 | 3MUT|1|R | Crystal Structure of the G20A/C92U mutant c-di-GMP riboswith bound to c-di-GMP | X-RAY DIFFRACTION | 3 | 92 | |
| 10 | 3MUM|1|R | Crystal Structure of the G20A mutant c-di-GMP riboswith bound to c-di-GMP | X-RAY DIFFRACTION | 2.9 | 92 | |
| 11 | 3MXH|1|R | Native structure of a c-di-GMP riboswitch from V. cholerae | X-RAY DIFFRACTION | 2.3 | 92 | |
| 12 | 3IWN|1|B | Co-crystal structure of a bacterial c-di-GMP riboswitch | X-RAY DIFFRACTION | 3.2 | 93 | |
| 13 | 3IWN|1|A | Co-crystal structure of a bacterial c-di-GMP riboswitch | X-RAY DIFFRACTION | 3.2 | 93 |
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.
Coloring options: