Equivalence class NR_2.0_94729.2 Obsolete
| # | IFE | Standardized name | Molecule | Organism | Source | Rfam | Title | Method | Res. Å | Date |
|---|---|---|---|---|---|---|---|---|---|---|
| 1 | 4NLF|1|A (rep) | 23S ribosomal RNA Sarcin Ricin Loop | 2'-trifluoromethylthio-2'-deoxycytidine-modified SRL | X-ray diffraction | 1 | 2014-11-19 | ||||
| 2 | 5D99|1|A | RNA (27-MER) hairpin from sarcin-ricin domain of E. coli 23S rRNA | Enterobacteria phage L1 | Viruses | 3DW4 redetermined by direct methods starting from random phase angles | X-ray diffraction | 0.97 | 2016-04-13 | ||
| 3 | 1Q9A|1|A | Sarcin/ricin 23S rRNA | Crystal structure of the sarcin/ricin domain from E.coli 23S rRNA at 1.04 resolution | X-ray diffraction | 1.04 | 2003-11-25 | ||||
| 4 | 4NMG|1|A | 23S ribosomal RNA Sarcin Ricin Loop | 2'-Trifluoromethylthio-2'-deoxyuridine-modified SRL | X-ray diffraction | 1.01 | 2014-11-19 | ||||
| 5 | 3DW4|1|A | Sarcin/Ricin Domain from E. Coli 23 S rRNA | Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-OCH3 modified | X-ray diffraction | 0.97 | 2009-03-24 | ||||
| 6 | 3DW6|1|A | Sarcin/Ricin Domain from E. Coli 23 S rRNA | Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-SECH3 modified | X-ray diffraction | 1 | 2009-03-24 | ||||
| 7 | 4Y27|1|A | 27-mer 23S Sarcin-Ricil Loop | Escherichia coli | Bacteria | E.coli 23S Sarcin-Ricil Loop, modified with a 2-Me on G2661 and a methylphosphonate on A2662 | X-ray diffraction | 1 | 2015-11-18 | ||
| 8 | 3DVZ|1|A | Sarcin/Ricin Domain from E. Coli 23 S rRNA | Crystal Structure of the Sarcin/Ricin Domain from E. coli 23 S rRNA | X-ray diffraction | 1 | 2009-03-24 | ||||
| 9 | 4NXH|1|A | 23S ribosomal RNA Sarcin Ricin Loop | Escherichia coli | Bacteria | 2'-Trifluoromethylthiouridine-modified E. coli 23S rRNA Sarcin Ricin Loop | X-ray diffraction | 1.16 | 2014-12-10 | ||
| 10 | 5NQI|1|A | E.Coli 27-mer SRL RNA | Escherichia coli | Bacteria | E.coli 16S rRNA Sarcin-Ricin Loop containing a 5-hydroxymethylcytosine modification | X-ray diffraction | 0.85 | 2017-07-26 | ||
| 11 | 3S7C|1|A | Ecoli 23 S rRNA Sarcin Ricin loop | Crystal structure of a 2'-azido-uridine-modified RNA | X-ray diffraction | 1.1 | 2012-04-11 | ||||
| 12 | 3DW5|1|A | Sarcin/Ricin Domain from E. Coli 23 S rRNA | Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23S rRNA, U2656-OCH3 modified | X-ray diffraction | 0.96 | 2009-03-24 | ||||
| 13 | 3DW7|1|A | Sarcin/Ricin Domain from E. Coli 23 S rRNA | Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2656-SeCH3 modified | X-ray diffraction | 1 | 2009-03-24 | ||||
| 14 | 483D|1|A | SARCIN/RICIN RRNA DOMAIN | CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA | X-ray diffraction | 1.11 | 1999-10-08 | ||||
| 15 | 3S8U|1|A | Ecoli 23 S rRNA Sarcin Ricin loop | Escherichia coli | Bacteria | Crystal structure of a 2-azido-adenine-modified RNA | X-ray diffraction | 1.2 | 2012-04-11 | ||
| 16 | 1MSY|1|A | SARCIN/RICIN DOMAIN FROM 23 S RRNA | GUAA tetraloop mutant of Sarcin/Ricin domain from E. Coli 23 S rRNA | X-ray diffraction | 1.41 | 2003-02-25 | ||||
| 17 | 480D|1|A | SARCIN/RICIN DOMAIN FROM 23 S RRNA | CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA | X-ray diffraction | 1.5 | 1999-10-08 | ||||
| 18 | 1JBS|1|D | 29-mer sarcin/ricin domain RNA analog | Crystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analog | X-ray diffraction | 1.97 | 2001-10-26 | ||||
| 19 | 1JBS|1|C | 29-mer sarcin/ricin domain RNA analog | Crystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analog | X-ray diffraction | 1.97 | 2001-10-26 |
Release history
| Release | 2.139 | 2.140 | 2.141 | 2.142 | 2.143 | 2.144 | 2.145 | 2.146 | 2.147 | 2.148 | 2.149 | 2.150 | 2.151 | 2.152 | 2.153 | 2.154 | 2.155 | 2.156 | 2.157 | 2.158 | 3.0 | 3.1 | 3.2 | 3.3 | 3.4 | 3.5 | 3.6 | 3.7 | 3.8 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2017-07-31 | 2017-08-05 | 2017-08-12 | 2017-08-19 | 2017-08-26 | 2017-09-03 | 2017-09-09 | 2017-09-16 | 2017-09-23 | 2017-09-30 | 2017-10-07 | 2017-10-14 | 2017-10-21 | 2017-10-28 | 2017-11-03 | 2017-11-10 | 2017-11-17 | 2017-11-24 | 2017-12-01 | 2017-12-08 | 2017-12-15 | 2017-12-22 | 2017-12-29 | 2018-01-05 | 2018-01-12 | 2018-01-19 | 2018-01-26 | 2018-02-02 | 2018-02-09 |
Parents
| This class | Parent classes | Release id | Intersection | Added to this class | Only in parent |
|---|---|---|---|---|---|
| NR_2.0_94729.2 | NR_2.0_94729.1 | 2.139 | (18) 5D99|1|A, 4Y27|1|A, 4NXH|1|A, 4NMG|1|A, 4NLF|1|A, 483D|1|A, 480D|1|A, 3S8U|1|A, 3S7C|1|A, 3DW7|1|A, 3DW6|1|A, 3DW5|1|A, 3DW4|1|A, 3DVZ|1|A, 1Q9A|1|A, 1MSY|1|A, 1JBS|1|D, 1JBS|1|C | (1) 5NQI|1|A | (0) |
Children
| This class | Descendant classes | Release id | Intersection | Only in this class | Added to child |
|---|---|---|---|---|---|
| NR_2.0_94729.2 | NR_2.0_94729.3 | 3.9 | (19) 3DW7|1|A, 3DW6|1|A, 3DW5|1|A, 3DW4|1|A, 3DVZ|1|A, 1Q9A|1|A, 1MSY|1|A, 5NQI|1|A, 1JBS|1|D, 5D99|1|A, 1JBS|1|C, 4Y27|1|A, 4NXH|1|A, 4NMG|1|A, 4NLF|1|A, 483D|1|A, 480D|1|A, 3S8U|1|A, 3S7C|1|A | (0) | (1) 5MRX|1|A |
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 | 4NLF|1|A | 2'-trifluoromethylthio-2'-deoxycytidine-modified SRL | X-RAY DIFFRACTION | 1 | 28 |
| 2 | 480D|1|A | CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA | X-RAY DIFFRACTION | 1.5 | 27 |
| 3 | 4Y27|1|A | E.coli 23S Sarcin-Ricil Loop, modified with a 2-Me on G2661 and a methylphosphonate on A2662 | X-RAY DIFFRACTION | 1 | 25 |
| 4 | 3DW4|1|A | Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-OCH3 modified | X-RAY DIFFRACTION | 0.97 | 26 |
| 5 | 5D99|1|A | 3DW4 redetermined by direct methods starting from random phase angles | X-RAY DIFFRACTION | 0.97 | 30 |
| 6 | 3DW6|1|A | Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2650-SECH3 modified | X-RAY DIFFRACTION | 1 | 28 |
| 7 | 3S7C|1|A | Crystal structure of a 2'-azido-uridine-modified RNA | X-RAY DIFFRACTION | 1.1 | 32 |
| 8 | 3S8U|1|A | Crystal structure of a 2-azido-adenine-modified RNA | X-RAY DIFFRACTION | 1.2 | 34 |
| 9 | 3DVZ|1|A | Crystal Structure of the Sarcin/Ricin Domain from E. coli 23 S rRNA | X-RAY DIFFRACTION | 1 | 35 |
| 10 | 3DW5|1|A | Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23S rRNA, U2656-OCH3 modified | X-RAY DIFFRACTION | 0.96 | 32 |
| 11 | 4NMG|1|A | 2'-Trifluoromethylthio-2'-deoxyuridine-modified SRL | X-RAY DIFFRACTION | 1.01 | 36 |
| 12 | 3DW7|1|A | Crystal Structure of the Sarcin/Ricin Domain from E. COLI 23 S rRNA, U2656-SeCH3 modified | X-RAY DIFFRACTION | 1 | 37 |
| 13 | 4NXH|1|A | 2'-Trifluoromethylthiouridine-modified E. coli 23S rRNA Sarcin Ricin Loop | X-RAY DIFFRACTION | 1.16 | 32 |
| 14 | 5NQI|1|A | E.coli 16S rRNA Sarcin-Ricin Loop containing a 5-hydroxymethylcytosine modification | X-RAY DIFFRACTION | 0.85 | 34 |
| 15 | 483D|1|A | CRYSTAL STRUCTURE OF THE SARCIN/RICIN DOMAIN FROM E. COLI 23 S RRNA | X-RAY DIFFRACTION | 1.11 | 39 |
| 16 | 1Q9A|1|A | Crystal structure of the sarcin/ricin domain from E.coli 23S rRNA at 1.04 resolution | X-RAY DIFFRACTION | 1.04 | 38 |
| 17 | 1MSY|1|A | GUAA tetraloop mutant of Sarcin/Ricin domain from E. Coli 23 S rRNA | X-RAY DIFFRACTION | 1.41 | 31 |
| 18 | 1JBS|1|C | Crystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analog | X-RAY DIFFRACTION | 1.97 | 17 |
| 19 | 1JBS|1|D | Crystal structure of ribotoxin restrictocin and a 29-mer SRD RNA analog | X-RAY DIFFRACTION | 1.97 | 17 |