Motif IL_85647.3 Version IL_85647.3 of this group appears in releases 1.1 to 1.13
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | break | 9 | 10 | 11 | 12 | 13 | 14 | 15 | 1-15 | 2-14 | 3-13 | 4-12 | 5-6 | 6-11 | 7-10 | 8-9 | |||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | ➜ | 4A1C | 0.2124 | 0 | 3 | 5S RRNA | G | 71 | U | 72 | U | 73 | A | 74 | G | 75 | U | 76 | A | 77 | C | 78 | * | G | 98 | G | 99 | A | 100 | A | 101 | G | 102 | U | 103 | C | 104 | cWW | ntWH | tHH | cSH | tWH | tHS | cWW | ||
| 2 | ➜ | 4IOA | 0.1821 | 0 | 8x7 Sarcin-Ricin; G-bulge | X | LSU rRNA | G | 215 | U | 216 | U | 217 | A | 218 | G | 219 | U | 220 | A | 221 | G | 222 | * | C | 230 | G | 231 | A | 232 | A | 233 | C | 234 | C | 235 | C | 236 | cWW | ntSH | ntSH | tHH | cSH | tWH | tHS | cWW |
| 3 | ➜ | 4A1B | 0.1559 | 0 | 1 | 26S RRNA | C | 80 | C | 81 | C | 82 | A | 83 | G | 84 | U | 85 | A | 86 | A | 87 | * | U | 95 | G | 96 | A | 97 | A | 98 | C | 99 | A | 100 | G | 101 | cWW | tSH | tHH | cSH | tWH | tHS | cWW | ||
| 4 | ➜ | 1Q96 | 0.1018 | 0 | C | sarcin/ricin 28S rRNA | C | 6 | U | 7 | C | 8 | A | 9 | G | 10 | U | 11 | A | 12 | U | 13 | * | A | 18 | G | 19 | A | 20||A | A | 21||A | C | 22||A | C | 23 | G | 24 | cWW | ntSH | tSH | tHH | cSH | tWH | tHS | cWW | |
| 5 | ➜ | 1Q96 | 0.0000 | 0 | 8x7 Sarcin-Ricin; G-bulge | A | sarcin/ricin 28S rRNA | C | 6 | U | 7 | C | 8 | A | 9 | G | 10 | U | 11 | A | 12 | U | 13 | * | A | 18 | G | 19 | A | 20 | A | 21 | C | 22 | C | 23 | G | 24 | cWW | ntSH | tSH | tHH | cSH | tWH | tHS | cWW |
| 6 | ➜ | 1JBR | 0.0890 | 0 | 8x7 Sarcin-Ricin; G-bulge | C+F | RNA (18-mer) + RNA (13-mer) | C | 6 | U | 7 | C | 8 | A | 9 | G | 10 | U | 11 | A | 12 | C | 13 | * | G | 18 | G | 19 | A | 20 | A | 21 | C | 22 | C | 23 | G | 24 | cWW | ntSH | tSH | tHH | cSH | tWH | tHS | cWW |
| 7 | ➜ | 3U5H | 0.1487 | 0 | 5 | 25S rRNA | C | 3018 | U | 3019 | U | 3020 | A | 3021 | G | 3022 | U | 3023 | A | 3024 | C | 3025 | * | G | 3030 | G | 3031 | A | 3032 | A | 3033 | C | 3034 | A | 3035 | G | 3036 | cWW | ntSH | tSH | tHH | cSH | tWH | tHS | cWW | |
| 8 | ➜ | 4A1B | 0.1947 | 0 | 1 | 26S RRNA | G | 3007 | U | 3008 | U | 3009 | A | 3010 | G | 3011 | U | 3012 | A | 3013 | C | 3014 | * | G | 3019 | G | 3020 | A | 3021 | A | 3022 | C | 3023 | A | 3024 | C | 3025 | cWW | ncSW | ntSH | tHH | ncSH | tWH | tHS | cWW | |
| 9 | ➜ | 2QBG | 0.1920 | 0 | B | 23S rRNA | C | 201 | U | 202 | A | 203 | A | 204 | G | 205 | U | 206 | A | 207 | C | 208 | * | G | 188 | G | 189 | A | 190 | A | 191 | C | 192 | U | 193 | G | 194 | cWW | cWW | tSH | tHH | cSH | tWH | tHS | cWW | |
| 10 | ➜ | 3V2F | 0.1854 | 0 | A | 23S Ribosomal RNA | C | 201 | U | 202 | C | 203 | A | 204 | G | 205 | U | 206 | A | 207 | C | 208 | * | G | 188 | G | 189 | A | 190 | A | 191 | C | 192 | U | 193 | G | 194 | cWW | cWW | tSH | tHH | cSH | tWH | tHS | cWW | |
| 11 | ➜ | 4IOA | 0.2008 | 0 | 8x7 Sarcin-Ricin; G-bulge | X | LSU rRNA | C | 178 | U | 179 | C | 180 | A | 181 | G | 182 | U | 183 | A | 184 | C | 185 | * | G | 165 | G | 166 | A | 167 | A | 168 | C | 169 | U | 170 | G | 171 | cWW | cWW | tSH | tHH | cSH | tWH | tHS | cWW |
| 12 | ➜ | 1S72 | 0.2005 | 0 | 0 | LSU rRNA | C | 171 | U | 172 | C | 173 | A | 174 | G | 175 | U | 176 | A | 177 | U | 178 | * | A | 158 | G | 159 | A | 160 | A | 161 | C | 162 | U | 163 | G | 164 | cWW | cWW | ntSH | tHH | cSH | tWH | tHS | cWW | |
| 13 | ➜ | 3U5H | 0.2713 | 1 | 7 | 5S rRNA | A | 72 | C | 74 | G | 75 | A | 76 | G | 77 | U | 78 | A | 79 | G | 80 | * | C | 100 | G | 101 | A | 102 | A | 103 | A | 104 | C | 105 | U | 106 | cWW | ncWW | tSH | tHH | cSH | tWH | tHS | cWW | |
| 14 | ➜ | 2QBG | 0.2867 | 0 | B | 23S rRNA | A | 1262 | U | 1263 | A | 1264 | A | 1265 | G | 1266 | U | 1267 | A | 1268 | A | 1269 | * | U | 2011 | G | 2012 | A | 2013 | A | 2014 | A | 2015 | U | 2016 | U | 2017 | cWW | cWW | tSH | tHH | cSH | tWH | tHS | cWW | |
| 15 | ➜ | 3V2F | 0.2702 | 0 | A | 23S Ribosomal RNA | A | 1262 | U | 1263 | G | 1264 | A | 1265 | G | 1266 | U | 1267 | A | 1268 | A | 1269 | * | U | 2011 | G | 2012 | A | 2013 | A | 2014 | A | 2015 | U | 2016 | U | 2017 | cWW | cWW | tSH | tHH | cSH | tWH | tHS | cWW | |
| 16 | ➜ | 4IOA | 0.3485 | 0 | 8x7 Sarcin-Ricin; G-bulge | X | LSU rRNA | A | 1275 | U | 1276 | G | 1277 | A | 1278 | G | 1279 | U | 1280 | A | 1281 | A | 1282 | * | U | 1994 | G | 1995 | A | 1996 | A | 1997 | A | 1998 | U | 1999 | U | 2000 | cWW | cWW | tSH | ntSH | cSH | tWH | tHS | cWW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| AUGAGUAA*UGAAAUU | 2 |
| CUCAGUAU*AGAACCG | 2 |
| CUCAGUAC*GGAACUG | 1 |
| CUCAGUAU*AGAACUG | 1 |
| ACCGAGUAG*CGAAACU | 1 |
| GGAACUG*CUCAGUAC | 1 |
| AUAAGUAA*UGAAAUU | 1 |
| GUUAGUAC*GGAACAC | 1 |
| CCCAGUAA*UGAACAG | 1 |
| GUUAGUAG*CGAACCC | 1 |
| CUCAGUAC*GGAACCG | 1 |
| CUUAGUAC*GGAACAG | 1 |
| GUUAGUAC*GGAAGUC | 1 |
| CUAAGUAC*GGAACUG | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| UCAGUA*GAACC | 3 |
| UUAGUA*GAACA | 2 |
| UCAGUA*GAACU | 2 |
| UGAGUA*GAAAU | 2 |
| CCGAGUA*GAAAC | 1 |
| UAAGUA*GAAAU | 1 |
| UAAGUA*GAACU | 1 |
| UUAGUA*GAACC | 1 |
| CCAGUA*GAACA | 1 |
| UUAGUA*GAAGU | 1 |
| GAACU*UCAGUA | 1 |
Release history
| Release | 1.1 | 1.2 | 1.3 | 1.4 | 1.5 | 1.6 | 1.7 | 1.8 | 1.9 | 1.10 | 1.11 | 1.12 | 1.13 |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Date | 2013-04-08 | 2013-05-04 | 2013-06-01 | 2013-07-01 | 2013-08-03 | 2013-08-31 | 2013-09-28 | 2013-11-05 | 2013-12-07 | 2014-01-04 | 2014-02-01 | 2014-03-01 | 2014-03-29 |
| Status | Updated, 1 parent | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match | Exact match |
Parent motifs
| Parent motif | Common motif instances | Only in IL_85647.3 | Only in the parent motif |
|---|---|---|---|
| IL_85647.2 Compare | IL_2QBG_048, IL_1Q96_003, IL_4A1C_008, IL_1Q96_001, IL_1S72_006, IL_3V2F_046, IL_3U5H_148, IL_1JBR_001, IL_4A1B_003, IL_2QBG_011, IL_4A1B_118, IL_3V2F_006, IL_3U5H_122 | IL_4IOA_007, IL_4IOA_006, IL_4IOA_047 | IL_2ZJR_045, IL_2ZJR_006, IL_2ZJR_007 |
Children motifs
| Child motif | Common motif instances | Only in IL_85647.3 | Only in the child motif |
|---|---|---|---|
| IL_85647.4 Compare | IL_2QBG_048, IL_1Q96_003, IL_4A1C_008, IL_1Q96_001, IL_1S72_006, IL_3U5H_148, IL_1JBR_001, IL_4IOA_047, IL_4A1B_003, IL_2QBG_011, IL_4A1B_118, IL_4IOA_006, IL_4IOA_007, IL_3U5H_122 | IL_3V2F_046, IL_3V2F_006 | IL_1VW3_038, IL_4NVV_006, IL_1VW3_011, IL_4NVV_048 |
- Annotations
-
- 8x7 Sarcin-Ricin; G-bulge (5)
- Basepair signature
- cWW-cWW-tSH-tHH-cSH-tWH-tHS-cWW
- Heat map statistics
- Min 0.06 | Avg 0.23 | Max 0.39
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