Motif HL_72935.1 Version HL_72935.1 of this group appears in releases 2.0 to 2.0
| #S | Loop id | PDB | Disc | #Non-core | Annotation | Chain(s) | Standardized name | 1 | 2 | 3 | 4 | 5 | 6 | 7 | 8 | 1-7 | 1-8 | 2-7 | 2-8 | 3-6 | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 1 | HL_3J7P_028 | 3J7P | 0.5081 | 0 | GNRA wlth tandem sheared (H) | 5 | LSU rRNA | U | 2006 | G | 2007 | U | 2008 | A | 2009 | A | 2010 | C | 2011 | A | 2012 | A | 2013 | cWW | ntSH | |||
| 2 | HL_3J9W_065 | 3J9W | 0.5052 | 0 | GNRA wlth tandem sheared (H) | BA | LSU rRNA | C | 1138 | G | 1139 | U | 1140 | A | 1141 | A | 1142 | U | 1143 | A | 1144 | G | 1145 | cWW | ||||
| 3 | HL_4KQY_006 | 4KQY | 0.4182 | 1 | A | SAM-I riboswitch | C | 94||||4_555 | U | 95||||4_555 | C | 96||||4_555 | G | 97||||4_555 | A | 98||||4_555 | A | 99||||4_555 | C | 100||||4_555 | G | 102||||4_555 | cWW | |||||
| 4 | HL_4KQY_003 | 4KQY | 0.4182 | 1 | GNRA wlth tandem sheared | A | SAM-I riboswitch | C | 94 | U | 95 | C | 96 | G | 97 | A | 98 | A | 99 | C | 100 | G | 102 | cWW | ||||
| 5 | HL_4V4Q_109 | 4V4Q | 0.4191 | 1 | GNRA related (H) | CA | SSU rRNA | G | 259 | G | 260 | U | 261 | A | 262 | A | 263 | C | 264 | G | 265 | C | 267 | cWW | ||||
| 6 | HL_3J9W_006 | 3J9W | 0.4001 | 1 | GNRA related (H) | AA | SSU rRNA | G | 267 | G | 268 | U | 269 | A | 270 | A | 271 | C | 272 | G | 273 | C | 275 | cWW | ||||
| 7 | HL_4BTS_117 | 4BTS | 0.3797 | 1 | GNRA related (H) | DA | SSU rRNA | U | 321 | G | 322 | U | 323 | A | 324 | U | 325 | U | 326 | G | 327 | A | 329 | cWW | ||||
| 8 | HL_3J7A_006 | 3J7A | 0.3751 | 1 | GNRA related (H) | A | SSU rRNA | G | 336 | G | 337 | U | 338 | A | 339 | U | 340 | U | 341 | G | 342 | C | 344 | cWW | ||||
| 9 | HL_3JAM_008 | 3JAM | 0.3544 | 1 | GNRA related (H) | 2 | SSU rRNA | G | 329 | A | 330 | U | 331 | A | 332 | G | 333 | U | 334 | G | 335 | C | 337 | cWW | ||||
| 10 | HL_4V88_193 | 4V88 | 0.3841 | 1 | GNRA related | A6 | SSU rRNA | G | 330 | A | 331 | U | 332 | A | 333 | G | 334 | U | 335 | G | 336 | C | 338 | cWW | ||||
| 11 | HL_1FJG_006 | 1FJG | 0.3612 | 1 | GNRA related (H) | A | SSU rRNA | G | 259 | G | 260 | U | 261 | A | 262 | A | 263 | U | 264 | G | 265 | C | 267 | cWW | ||||
| 12 | HL_3Q1Q_005 | 3Q1Q | 0.3921 | 1 | B | RNase P RNA | G | 165 | G | 166 | U | 167 | A | 168 | A | 169 | G | 170 | A | 171 | C | 173 | cWW | |||||
| 13 | HL_1U9S_003 | 1U9S | 0.3555 | 1 | A | RIBONUCLEASE P | G | 181 | G | 182 | U | 183 | A | 184 | A | 185 | G | 186 | A | 187 | C | 189 | cWW | |||||
| 14 | HL_5FDU_021 | 5FDU | 0.3420 | 0 | 1A | LSU rRNA | G | 759 | G | 760 | U | 761 | G | 762 | A | 763 | G | 764 | A | 765 | C | 766 | cWW | ntSH | ||||
| 15 | HL_3HHN_010 | 3HHN | 0.2705 | 0 | GNRA wlth tandem sheared | E | Class I ligase ribozyme, self-ligation product | G | 92 | U | 93 | U | 94 | A | 95 | A | 96 | A | 97 | A | 98 | C | 99 | cWW | ntSH | |||
| 16 | HL_3JAN_004 | 3JAN | 0.2540 | 0 | 4 | SRP RNA | G | 10 | G | 11 | U | 12 | G | 13 | G | 14 | C | 15 | G | 16 | C | 17 | cWW | ntSH | ntSHa | |||
| 17 | HL_1E8O_001 | 1E8O | 0.2336 | 0 | GNRA wlth tandem sheared | E | 7SL RNA | G | 110 | G | 111 | U | 112 | G | 113 | G | 114 | C | 115 | G | 116 | C | 117 | cWW | ntSH | ntSHa | ||
| 18 | HL_5AOX_001 | 5AOX | 0.0000 | 0 | GNRA wlth tandem sheared | C | ALU JO CONSENSUS RNA | G | 11 | G | 12 | U | 13 | G | 14 | G | 15 | C | 16 | U | 17 | C | 18 | cWW | ntSH | |||
| 19 | HL_3J9W_039 | 3J9W | 0.2003 | 0 | GNRA wlth tandem sheared (H) | BA | LSU rRNA | C | 136 | G | 137 | U | 138 | A | 139 | A | 140 | U | 141 | G | 142 | G | 143 | cWW | tSH | |||
| 20 | HL_5J7L_154 | 5J7L | 0.2583 | 0 | GNRA wlth tandem sheared | DA | LSU rRNA | G | 712 | G | 713 | U | 714 | A | 715 | A | 716 | C | 717 | A | 718 | C | 719 | cWW | tSH | |||
| 21 | HL_1QA6_004 | 1QA6 | 0.3830 | 0 | D | 58 NUCLEOTIDE RIBOSOMAL RNA DOMAIN | C | 142 | G | 143 | U | 144 | A | 145 | A | 146 | U | 147 | A | 148 | G | 149 | cWW | tSH | ||||
| 22 | HL_1MMS_004 | 1MMS | 0.3514 | 0 | D | 23S RIBOSOMAL RNA | C | 1092 | G | 1093 | U | 1094 | A | 1095 | A | 1096 | C | 1097 | A | 1098 | G | 1099 | cWW | tSH | ntSHa | |||
| 23 | HL_5D8H_002 | 5D8H | 0.3530 | 0 | GNRA wlth tandem sheared | A | LSU rRNA | C | 1202 | G | 1203 | U | 1204 | A | 1205 | A | 1206 | C | 1207 | A | 1208 | G | 1209 | cWW | tSH | |||
| 24 | HL_4V88_141 | 4V88 | 0.3210 | 0 | GNRA wlth tandem sheared (H) | A5 | LSU rRNA | U | 1267 | G | 1268 | U | 1269 | A | 1270 | A | 1271 | C | 1272 | A | 1273 | A | 1274 | cWW | tSH | ntSHa | ||
| 25 | HL_4V19_015 | 4V19 | 0.3314 | 0 | GNRA wlth tandem sheared (H) | A | LSU rRNA | C | 534 | G | 535 | U | 536 | U | 537 | A | 538 | A | 539 | A | 540 | G | 541 | cWW | tSH | |||
| 26 | HL_3J7Y_016 | 3J7Y | 0.4102 | 0 | GNRA wlth tandem sheared (H) | A | LSU rRNA | C | 2202 | G | 2203 | U | 2204 | U | 2205 | C | 2206 | A | 2207 | A | 2208 | G | 2209 | ncWW | tSH | |||
| 27 | HL_4V8P_172 | 4V8P | 0.3124 | 0 | F1 | LSU rRNA | C | 486 | G | 487 | U | 488 | A | 489 | A | 490 | A | 491 | A | 492 | G | 493 | cWW | ntSH | ||||
| 28 | HL_5AN9_005 | 5AN9 | 0.4240 | 0 | GNRA wlth tandem sheared (H) | N | LSU rRNA | U | 1502 | G | 1503 | U | 1504 | A | 1505 | A | 1506 | C | 1507 | A | 1508 | A | 1509 | cWW | ntSH | |||
| 29 | HL_4V19_031 | 4V19 | 0.4768 | 0 | A | LSU rRNA | C | 1196 | A | 1197 | A | 1198 | A | 1199 | C | 1200 | C | 1201 | A | 1202 | G | 1203 | cWW | |||||
| 30 | HL_5FDU_056 | 5FDU | 0.4786 | 0 | 1A | LSU rRNA | C | 2367 | C | 2368 | U | 2369 | G | 2370 | C | 2371 | A | 2372 | A | 2373 | G | 2374 | cWW | ncWW | ||||
| 31 | HL_4V9F_031 | 4V9F | 0.5127 | 0 | 0 | LSU rRNA | C | 1196 | G | 1197 | U | 1198 | A | 1199 | A | 1200 | C | 1201 | A | 1202 | G | 1203 | cWW | ntSHa | ||||
| 32 | HL_4V91_039 | 4V91 | 0.6519 | 0 | 1 | LSU rRNA | C | 1759 | A | 1760 | C | 1761 | C | 1762 | U | 1763 | U | 1764 | U | 1765 | G | 1766 | cWW | ncWW | ||||
| 33 | HL_4IOA_056 | 4IOA | 0.3849 | 0 | GNRA with extra cWW (H) | X | LSU rRNA | C | 2334 | U | 2335 | G | 2336 | A | 2337 | C | 2338 | A | 2339 | C | 2340 | G | 2341 | cWW | ntSH | |||
| 34 | HL_4V8P_192 | 4V8P | 0.4358 | 0 | F1 | LSU rRNA | G | 1569 | U | 1570 | U | 1571 | A | 1572 | A | 1573 | C | 1574 | U | 1575 | C | 1576 | cWW | ncwW | ntSHa | |||
| 35 | HL_3J79_048 | 3J79 | 0.4538 | 0 | A | LSU rRNA | A | 2512 | U | 2513 | G | 2514 | A | 2515 | A | 2516 | A | 2517 | U | 2518 | U | 2519 | cWW | |||||
| 36 | HL_2IL9_006 | 2IL9 | 0.6036 | 0 | M | Ribosomal Binding Domain of the IRES RNA | G | 6118 | C | 6119 | G | 6119|||A | A | 6119|||B | A | 6119|||C | A | 6119|||D | G | 6119|||E | C | 6124 | cWW | ncWW | tSH | |||
| 37 | HL_5G2X_015 | 5G2X | 0.5666 | 0 | A | Group II catalytic intron | C | 2457 | A | 2458 | G | 2459 | U | 2460 | A | 2461 | A | 2462 | U | 2463 | G | 2464 | cWW | |||||
| 38 | HL_4V91_052 | 4V91 | 0.5112 | 0 | 1 | LSU rRNA | G | 2469 | C | 2470 | G | 2471 | C | 2472 | A | 2473 | A | 2474 | G | 2475 | C | 2476 | ncWW | cwW | ntSH | |||
| 39 | HL_3J9W_018 | 3J9W | 0.5670 | 0 | AA | SSU rRNA | G | 849 | U | 850 | U | 851 | U | 852 | C | 853 | C | 854 | G | 855 | C | 856 | cWW | ncBW | ntSH | |||
| 40 | HL_3JCS_039 | 3JCS | 0.6347 | 0 | 2 | LSU rRNA | A | 465 | C | 466 | G | 467 | A | 468 | G | 469 | A | 470 | U | 471 | U | 472 | cWW | cWW | ||||
| 41 | HL_3J7P_090 | 3J7P | 0.7001 | 0 | S2 | SSU rRNA | G | 617 | C | 618 | A | 619 | G | 620 | C | 621 | C | 622 | G | 623 | C | 624 | ncWw | ncWW | ||||
| 42 | HL_3J79_004 | 3J79 | 0.6752 | 0 | A | LSU rRNA | G | 135 | U | 136 | G | 137 | C | 138 | A | 139 | A | 140 | A | 141 | C | 142 | cWW | ncHW |
3D structures
Complete motif including flanking bases
| Sequence | Counts |
|---|---|
| UGUAACAA | 3 |
| CGUAACAG | 3 |
| CGUAAUAG | 2 |
| CUCGAACAG | 2 |
| GGUAACGGC | 2 |
| GAUAGUGGC | 2 |
| GGUAAGAGC | 2 |
| GGUGGCGC | 2 |
| UGUAUUGGA | 1 |
| GGUAUUGGC | 1 |
| GGUAAUGGC | 1 |
| GGUGAGAC | 1 |
| GUUAAAAC | 1 |
| GGUGGCUC | 1 |
| CGUAAUGG | 1 |
| GGUAACAC | 1 |
| CGUUAAAG | 1 |
| CGUUCAAG | 1 |
| CGUAAAAG | 1 |
| CAAACCAG | 1 |
| CCUGCAAG | 1 |
| CACCUUUG | 1 |
| CUGACACG | 1 |
| GUUAACUC | 1 |
| AUGAAAUU | 1 |
| GCGAAAGC | 1 |
| CAGUAAUG | 1 |
| GCGCAAGC | 1 |
| GUUUCCGC | 1 |
| ACGAGAUU | 1 |
| GCAGCCGC | 1 |
| GUGCAAAC | 1 |
Non-Watson-Crick part of the motif
| Sequence | Counts |
|---|---|
| GUAACA | 7 |
| GUAAUA | 2 |
| UCGAACA | 2 |
| GUAACGG | 2 |
| GUAUUGG | 2 |
| AUAGUGG | 2 |
| GUAAGAG | 2 |
| GUGGCG | 2 |
| GUAAUGG | 1 |
| GUGAGA | 1 |
| UUAAAA | 1 |
| GUGGCU | 1 |
| GUAAUG | 1 |
| GUUAAA | 1 |
| GUUCAA | 1 |
| GUAAAA | 1 |
| AAACCA | 1 |
| CUGCAA | 1 |
| ACCUUU | 1 |
| UGACAC | 1 |
| UUAACU | 1 |
| UGAAAU | 1 |
| CGAAAG | 1 |
| AGUAAU | 1 |
| CGCAAG | 1 |
| UUUCCG | 1 |
| CGAGAU | 1 |
| CAGCCG | 1 |
| UGCAAA | 1 |
Release history
| Release | 2.0 |
|---|---|
| Date | 2017-04-24 |
| Status | New id, 1 parent |
Parent motifs
This motif has no parent motifs.
Children motifs
This motif has no children motifs.- Annotations
-
- (21)
- GNRA wlth tandem sheared (H) (7)
- GNRA wlth tandem sheared (6)
- GNRA related (H) (6)
- GNRA with extra cWW (H) (1)
- GNRA related (1)
- Basepair signature
- cWW-tSH-R-R-R-R
- Heat map statistics
- Min 0.07 | Avg 0.51 | Max 0.88
Coloring options: