Equivalence class NR_4.0_98151.3 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 3UCZ|1|R (rep) | Cyclic di-GMP-I riboswitch | RNA (92-MER), RNA (5'-R(*GP*G)-3') | RF01051 | The c-di-GMP-I riboswitch bound to GpG | X-ray diffraction | 2.8 | 2012-01-04 | ||
| 2 | 3UD3|1|R | Cyclic di-GMP-I riboswitch | RNA (92-MER), RNA (5'-R(P*GP*A)-3') | RF01051 | The C92U mutant c-di-GMP-I riboswitch bound to pGpA | X-ray diffraction | 3.1 | 2012-01-04 | ||
| 3 | 3UCU|1|R | Cyclic di-GMP-I riboswitch | RNA (92-MER), diguanosine monophosphate | RF01051 | The c-di-GMP-I riboswitch bound to pGpG | X-ray diffraction | 2.8 | 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 | 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 | 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 | 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 | 2015-04-15 |
| 8 | 3UD4|1|R | Cyclic di-GMP-I riboswitch | RNA (92-MER), RNA (5'-R(*GP*A)-3') | RF01051 | The C92U mutant c-di-GMP-I riboswitch bound to GpA | X-ray diffraction | 2.7 | 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 | 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 | 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 | 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 | 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 | 2009-11-10 |
Release history
| Release | 4.0 |
|---|---|
| Date | 2016-07-25 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_4.0_98151.3 | NR_all_19352.1 | 4.0 | (2) 3IWN|1|B, 3IWN|1|A | (11) 3MUT|1|R, 3MUR|1|R, 3MUM|1|R, 3IRW|1|R, 4YB1|1|R, 3UD4|1|R, 3UD3|1|R, 3UCZ|1|R, 3UCU|1|R, 3MXH|1|R, 3MUV|1|R | (0) |
| NR_4.0_98151.3 | NR_all_98151.2 | 4.0 | (11) 4YB1|1|R, 3UD4|1|R, 3UD3|1|R, 3UCZ|1|R, 3UCU|1|R, 3MXH|1|R, 3MUV|1|R, 3MUT|1|R, 3MUR|1|R, 3MUM|1|R, 3IRW|1|R | (2) 3IWN|1|B, 3IWN|1|A | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|
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 | NAKB_NA_annotation | NAKB_protein_annotation |
|---|---|---|---|---|---|---|---|
| 1 | 4YB1|1|R | Title: 20A Mutant c-di-GMP Vc2 Riboswitch bound with 3',3'-cGAMP | X-RAY DIFFRACTION | 2.08 | 91 | ||
| 2 | 3MUV|1|R | Title: Crystal Structure of the G20A/C92U mutant c-di-GMP riboswith bound to c-di-AMP | X-RAY DIFFRACTION | 3.2 | 90 | ||
| 3 | 3IRW|1|R | Title: Structure of a c-di-GMP riboswitch from V. cholerae | X-RAY DIFFRACTION | 2.7 | 90 | ||
| 4 | 3UD4|1|R | Title: The C92U mutant c-di-GMP-I riboswitch bound to GpA | X-RAY DIFFRACTION | 2.7 | 91 | ||
| 5 | 3UD3|1|R | Title: The C92U mutant c-di-GMP-I riboswitch bound to pGpA | X-RAY DIFFRACTION | 3.1 | 91 | ||
| 6 | 3UCU|1|R | Title: The c-di-GMP-I riboswitch bound to pGpG | X-RAY DIFFRACTION | 2.8 | 91 | ||
| 7 | 3UCZ|1|R | Title: The c-di-GMP-I riboswitch bound to GpG | X-RAY DIFFRACTION | 2.8 | 91 | ||
| 8 | 3MUR|1|R | Title: Crystal Structure of the C92U mutant c-di-GMP riboswith bound to c-di-GMP | X-RAY DIFFRACTION | 3 | 91 | ||
| 9 | 3MUT|1|R | Title: Crystal Structure of the G20A/C92U mutant c-di-GMP riboswith bound to c-di-GMP | X-RAY DIFFRACTION | 3 | 91 | ||
| 10 | 3MUM|1|R | Title: Crystal Structure of the G20A mutant c-di-GMP riboswith bound to c-di-GMP | X-RAY DIFFRACTION | 2.9 | 91 | ||
| 11 | 3MXH|1|R | Title: Native structure of a c-di-GMP riboswitch from V. cholerae | X-RAY DIFFRACTION | 2.3 | 91 | ||
| 12 | 3IWN|1|B | Title: Co-crystal structure of a bacterial c-di-GMP riboswitch | X-RAY DIFFRACTION | 3.2 | 93 | ||
| 13 | 3IWN|1|A | Title: Co-crystal structure of a bacterial c-di-GMP riboswitch | X-RAY DIFFRACTION | 3.2 | 93 |
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