9MOR Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9MOR_001 | 1/1/59:68 | No text annotation | homologous HL_5J7L_134 NA | |
| HL_9MOR_002 | 1/1/87:95 | No text annotation | homologous HL_5J7L_135 NA | |
| HL_9MOR_003 | 1/1/123:128 | No text annotation | homologous HL_5J7L_136 NA | |
| HL_9MOR_004 | 1/1/137:142 | UNCG | geometric HL_6CK5_001 HL_61337.3 | |
| HL_9MOR_005 | 1/1/158:168 | No text annotation | homologous HL_5J7L_138 NA | |
| HL_9MOR_006 | 1/1/194:201 | No text annotation | homologous HL_4WF9_006 HL_48677.1 | |
| HL_9MOR_007 | 1/1/225:230 | No text annotation | homologous HL_5J7L_140 NA | |
| HL_9MOR_008 | 1/1/246:252 | No text annotation | homologous HL_5J7L_141 NA | |
| HL_9MOR_009 | 1/1/305:312 | T-loop with 2 stacked bulged bases | homologous HL_4WF9_010 HL_13999.3 | |
| HL_9MOR_012 | 1/1/382:392 | No text annotation | homologous HL_7A0S_013 HL_91503.8 | |
| HL_9MOR_013 | 1/1/410:417 | Pseudoknot geometry | homologous HL_4WF9_014 HL_30680.5 | |
| HL_9MOR_014 | 1/1/462:467 | GNRA | homologous HL_4WF9_015 HL_34789.3 | |
| HL_9MOR_015 | 1/1/487:493 | GNRA | homologous HL_5J7L_148 NA | |
| HL_9MOR_016 | 1/1/544:549 | No text annotation | geometric HL_8C3A_054 NA | |
| HL_9MOR_017 | 1/1/566:575 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_150 NA | |
| HL_9MOR_018 | 1/1/611:617 | No text annotation | ||
| HL_9MOR_019 | 1/1/629:634 | GNRA | homologous HL_5J7L_152 NA | |
| HL_9MOR_021 | 1/1/712:719 | GNRA wlth tandem sheared | homologous HL_5J7L_154 NA | |
| HL_9MOR_022 | 1/1/744:753 | No text annotation | homologous HL_4WF9_023 HL_50204.1 | |
| HL_9MOR_023 | 1/1/779:785 | No text annotation | homologous HL_5J7L_156 NA | |
| HL_9MOR_024 | 1/1/826:831 | No text annotation | homologous HL_4WF9_025 HL_27530.1 | |
| HL_9MOR_026 | 1/1/954:963 | No text annotation | homologous HL_5J7L_159 NA | |
| HL_9MOR_027 | 1/1/978:985 | No text annotation | homologous HL_9DFE_026 HL_47171.1 | |
| HL_9MOR_032 | 1/1/1281:1289 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_165 NA | |
| HL_9MOR_033 | 1/1/1324:1330 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_166 NA | |
| HL_9MOR_034 | 1/1/1363:1368 | GNRA | homologous HL_5J7L_167 NA | |
| HL_9MOR_035 | 1/1/1389:1398 | No text annotation | homologous HL_5J7L_168 NA | |
| HL_9MOR_036 | 1/1/1451:1459 | Mini UNCG with extended bulge | homologous HL_5J7L_169 NA | |
| HL_9MOR_037 | 1/1/1492:1498 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_170 NA | |
| HL_9MOR_039 | 1/1/1565:1568 | Mini UNCG | homologous HL_9DFE_037 HL_90436.3 | |
| HL_9MOR_040 | 1/1/1612:1619 | No text annotation | homologous HL_5J7L_173 NA | |
| HL_9MOR_041 | 1/1/1630:1636 | GNRA | homologous HL_5J7L_174 NA | |
| HL_9MOR_042 | 1/1/1691:1696 | UNCG | homologous HL_5J7L_175 NA | |
| HL_9MOR_043 | 1/1/1727:1733 | No text annotation | homologous HL_5J7L_214 NA | |
| HL_9MOR_044 | 1/1/1752:1756 | No text annotation | homologous HL_5J7L_177 NA | |
| HL_9MOR_045 | 1/1/1777:1787 | No text annotation | homologous HL_4WF9_043 HL_87681.1 | |
| HL_9MOR_046 | 1/1/1806:1811 | GNRA related | homologous HL_5J7L_179 NA | |
| HL_9MOR_048 | 1/1/1910:1920 | No text annotation | homologous HL_9DFE_046 HL_82185.1 | |
| HL_9MOR_049 | 1/1/1949:1957 | No text annotation | homologous HL_5J7L_182 NA | |
| HL_9MOR_050 | 1/1/2027:2036 | No text annotation | homologous HL_4WF9_047 HL_78372.1 | |
| HL_9MOR_052 | 1/1/2209:2215 | No text annotation | homologous HL_5J7L_185 NA | |
| HL_9MOR_053 | 1/1/2248:2256 | No text annotation | homologous HL_7A0S_052 HL_11974.2 | |
| HL_9MOR_054 | 1/1/2264:2276 | No text annotation | homologous HL_7A0S_053 HL_02042.1 | |
| HL_9MOR_055 | 1/1/2304:2312 | No text annotation | homologous HL_5J7L_219 NA | |
| HL_9MOR_057 | 1/1/2356:2361 | GNRA | homologous HL_5J7L_190 NA | |
| HL_9MOR_058 | 1/1/2374:2379 | GNRA | homologous HL_4WF9_054 HL_34789.3 | |
| HL_9MOR_059 | 1/1/2404:2413 | No text annotation | homologous HL_5J7L_192 NA | |
| HL_9MOR_060 | 1/1/2470:2480 | No text annotation | ||
| HL_9MOR_061 | 1/1/2527:2536 | No text annotation | ||
| HL_9MOR_062 | 1/1/2551:2557 | No text annotation | ||
| HL_9MOR_063 | 1/1/2594:2599 | GNRA | homologous HL_5J7L_196 NA | |
| HL_9MOR_065 | 1/1/2701:2706 | Ribsomal LSU H95 | homologous HL_5J7L_198 NA | |
| HL_9MOR_066 | 1/1/2745:2759 | No text annotation | homologous HL_5J7L_199 NA | |
| HL_9MOR_069 | 1/1/2856:2861 | GNRA | homologous HL_7A0S_068 HL_34789.3 | |
| HL_9MOR_070 | 1/2/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_9MOR_072 | 1/2/158:163 | GNRA | homologous HL_5J7L_003 NA | |
| HL_9MOR_075 | 1/2/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_9MOR_076 | 1/2/296:301 | GNRA | homologous HL_6CZR_078 NA | |
| HL_9MOR_077 | 1/2/320:333 | No text annotation | homologous HL_4LFB_008 HL_39665.1 | |
| HL_9MOR_078 | 1/2/342:347 | UNCG | homologous HL_4LFB_009 HL_61337.3 | |
| HL_9MOR_082 | 1/2/521:528 | No text annotation | homologous HL_5J7L_013 NA | |
| HL_9MOR_083 | 1/2/617:623 | GNRA-like with tWH | homologous HL_4LFB_014 HL_86621.1 | |
| HL_9MOR_084 | 1/2/689:698 | No text annotation | homologous HL_5J7L_015 NA | |
| HL_9MOR_085 | 1/2/726:731 | GNRA | homologous HL_5J7L_016 NA | |
| HL_9MOR_086 | 1/2/786:796 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_9MOR_088 | 1/2/862:867 | GNRA | homologous HL_4LFB_019 HL_34789.3 | |
| HL_9MOR_089 | 1/2/897:902 | GNRA | homologous HL_4LFB_020 HL_34789.3 | |
| HL_9MOR_092 | 1/2/1076:1081 | GNRA | homologous HL_6CZR_095 NA | |
| HL_9MOR_093 | 1/2/1089:1096 | T-loop related | homologous HL_4LFB_025 HL_63894.2 | |
| HL_9MOR_097 | 1/2/1314:1323 | T-loop with 3 stacked bulged bases | homologous HL_4LFB_029 HL_93658.1 | |
| HL_9MOR_100 | 1/2/1515:1520 | GNRA | homologous HL_5J7L_031 NA | |
| HL_9MOR_101 | 1/4/38:44 | No text annotation | homologous HL_4WF9_066 HL_59381.2 | |
| HL_9MOR_103 | 1/5/12:22 | tRNA D-loop | homologous HL_5UD5_001 HL_89167.2 | |
| HL_9MOR_104 | 1/5/31:39 | tRNA anticodon loop | homologous HL_6UFM_002 HL_81376.3 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9MOR_010 | No text annotation | ||
| HL_9MOR_011 | T-loop with unstacked turn | ||
| HL_9MOR_020 | No text annotation | ||
| HL_9MOR_025 | No text annotation | ||
| HL_9MOR_028 | No text annotation | ||
| HL_9MOR_029 | No text annotation | ||
| HL_9MOR_030 | No text annotation | ||
| HL_9MOR_031 | GNRA | ||
| HL_9MOR_038 | UNCG | ||
| HL_9MOR_047 | GNRA variation | ||
| HL_9MOR_051 | UNCG | ||
| HL_9MOR_056 | Pseudoknot geometry | ||
| HL_9MOR_064 | GNRA | ||
| HL_9MOR_067 | UNCG variation | ||
| HL_9MOR_068 | No text annotation | ||
| HL_9MOR_071 | No text annotation | ||
| HL_9MOR_073 | GNRA | ||
| HL_9MOR_074 | UNCG | ||
| HL_9MOR_079 | GNRA | ||
| HL_9MOR_080 | UNCG | ||
| HL_9MOR_081 | GNRA wlth extra near cWW | ||
| HL_9MOR_087 | No text annotation | ||
| HL_9MOR_090 | No text annotation | ||
| HL_9MOR_091 | GNRA | ||
| HL_9MOR_094 | No text annotation | ||
| HL_9MOR_095 | GNRA | ||
| HL_9MOR_096 | No text annotation | ||
| HL_9MOR_098 | No text annotation | ||
| HL_9MOR_099 | UNCG | ||
| HL_9MOR_102 | Mini UNCG | ||
| HL_9MOR_105 | T-loop with 2 stacked bulged bases | ||
| HL_9MOR_106 | No text annotation | ||
| HL_9MOR_107 | tRNA anticodon loop | ||
| HL_9MOR_108 | T-loop with 2 stacked bulged bases |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9MOR_001 | 1/1/24:30, 1/1/510:516 | No text annotation | homologous IL_9DFE_001 IL_22311.1 | |
| IL_9MOR_002 | 1/1/36:37, 1/1/442:444 | Single bulged A | homologous IL_5J7L_246 NA | |
| IL_9MOR_003 | 1/1/43:44, 1/1/434:436 | Minor groove platform | homologous IL_5J7L_247 NA | |
| IL_9MOR_004 | 1/1/81:85, 1/1/97:105 | No text annotation | homologous IL_5J7L_248 NA | |
| IL_9MOR_005 | 1/1/183:184, 1/1/212:214 | Single stack bend | homologous IL_7A0S_005 IL_15011.2 | |
| IL_9MOR_006 | 1/1/188:194, 1/1/201:208 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_250 NA | |
| IL_9MOR_007 | 1/1/239:245, 1/1/253:258 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5J7L_251 NA | |
| IL_9MOR_008 | 1/1/269:271, 1/1/366:370 | No text annotation | homologous IL_5J7L_252 NA | |
| IL_9MOR_010 | 1/1/293:295, 1/1/343:347 | No text annotation | homologous IL_4WF9_014 IL_76658.1 | |
| IL_9MOR_011 | 1/1/481:484, 1/1/496:509 | No text annotation | homologous IL_9DFE_012 IL_44923.1 | |
| IL_9MOR_013 | 1/1/564:566, 1/1/575:577 | Isolated non-canonical cWW pair | homologous IL_5J7L_257 NA | |
| IL_9MOR_014 | 1/1/606:610, 1/1/618:622 | No text annotation | homologous IL_9DFE_014 IL_66798.3 | |
| IL_9MOR_015 | 1/1/672:674, 1/1/806:808 | Isolated non-canonical cWW pair | homologous IL_7A0S_014 IL_01003.3 | |
| IL_9MOR_016 | 1/1/674:678, 1/1/799:806 | tHW-tHW cross-strand stack | homologous IL_5J7L_260 NA | |
| IL_9MOR_017 | 1/1/697:698, 1/1/763:765 | Single bulged A | homologous IL_5J7L_261 NA | |
| IL_9MOR_018 | 1/1/702:703, 1/1/728:730 | Single bulged G | homologous IL_5J7L_262 NA | |
| IL_9MOR_019 | 1/1/703:707, 1/1/724:728 | Triple sheared | homologous IL_5J7L_263 NA | |
| IL_9MOR_020 | 1/1/738:740, 1/1/757:758 | Major groove platform | homologous IL_5J7L_264 NA | |
| IL_9MOR_021 | 1/1/775:777, 1/1/787:791 | Multiple bulged bases | geometric IL_5J7L_265 NA | |
| IL_9MOR_024 | 1/1/856:862, 1/1/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | homologous IL_5J7L_270 NA | |
| IL_9MOR_025 | 1/1/862:863, 1/1/913:915 | Single bulged G | homologous IL_5J7L_271 NA | |
| IL_9MOR_026 | 1/1/864:869, 1/1/908:912 | No text annotation | ||
| IL_9MOR_027 | 1/1/870:872, 1/1/905:907 | Isolated non-canonical cWW pair | homologous IL_5J7L_273 NA | |
| IL_9MOR_030 | 1/1/994:996, 1/1/1159:1160 | Single bulged C | homologous IL_4WF9_035 IL_05642.2 | |
| IL_9MOR_031 | 1/1/998:1002, 1/1/1153:1157 | UAA/GAN | homologous IL_4WF9_036 IL_08938.1 | |
| IL_9MOR_032 | 1/1/1004:1013, 1/1/1149:1151 | No text annotation | ||
| IL_9MOR_033 | 1/1/1018:1024, 1/1/1140:1144 | No text annotation | homologous IL_9DFE_038 IL_57188.6 | |
| IL_9MOR_034 | 1/1/1024:1030, 1/1/1124:1140 | No text annotation | ||
| IL_9MOR_035 | 1/1/1031:1034, 1/1/1121:1123 | Isolated non-canonical cWW pair | homologous IL_9DFE_040 IL_76400.1 | |
| IL_9MOR_040 | 1/1/1196:1198, 1/1/1247:1250 | Isolated cWS basepair | homologous IL_4WF9_044 IL_42997.5 | |
| IL_9MOR_042 | 1/1/1208:1215, 1/1/1234:1238 | Kink-turn | homologous IL_9DFE_046 IL_90775.2 | |
| IL_9MOR_043 | 1/1/1262:1269, 1/1/2011:2017 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 NA | |
| IL_9MOR_044 | 1/1/1310:1313, 1/1/1603:1604 | Major groove platform; stack outside cWW | geometric IL_8VTW_049 NA | |
| IL_9MOR_045 | 1/1/1319:1323, 1/1/1331:1333 | C-loop | homologous IL_5J7L_291 NA | |
| IL_9MOR_046 | 1/1/1351:1355, 1/1/1376:1380 | UAA/GAN | homologous IL_5J7L_292 NA | |
| IL_9MOR_047 | 1/1/1357:1361, 1/1/1370:1374 | tSH-tHW-tHS | homologous IL_5J7L_293 NA | |
| IL_9MOR_048 | 1/1/1415:1416, 1/1/1582:1587 | No text annotation | homologous IL_5J7L_294 NA | |
| IL_9MOR_049 | 1/1/1417:1421, 1/1/1577:1581 | UAA/GAN | homologous IL_5J7L_295 NA | |
| IL_9MOR_050 | 1/1/1432:1435, 1/1/1557:1561 | Tandem non-canonical cWW pairs | homologous IL_5J7L_296 NA | |
| IL_9MOR_051 | 1/1/1437:1440, 1/1/1551:1555 | tSH-tHW | homologous IL_5J7L_297 NA | |
| IL_9MOR_052 | 1/1/1450:1451, 1/1/1459:1461 | Single bulged U | homologous IL_5J7L_298 NA | |
| IL_9MOR_053 | 1/1/1468:1471, 1/1/1520:1524 | No text annotation | homologous IL_5J7L_299 NA | |
| IL_9MOR_054 | 1/1/1474:1478, 1/1/1513:1517 | tSH-tHW-tHS | homologous IL_5J7L_300 NA | |
| IL_9MOR_055 | 1/1/1481:1482, 1/1/1507:1510 | 180 degree turn | homologous IL_5J7L_301 NA | |
| IL_9MOR_056 | 1/1/1489:1491, 1/1/1499:1500 | Single bulged A | homologous IL_5J7L_302 NA | |
| IL_9MOR_057 | 1/1/1526:1529, 1/1/1542:1546 | UAA/GAN variation | homologous IL_5J7L_303 NA | |
| IL_9MOR_058 | 1/1/1651:1656, 1/1/2004:2006 | No text annotation | homologous IL_5J7L_304 NA | |
| IL_9MOR_059 | 1/1/1663:1665, 1/1/1995:1997 | Isolated tWW turn | homologous IL_4WF9_063 IL_10432.1 | |
| IL_9MOR_060 | 1/1/1666:1669, 1/1/1993:1994 | Major groove platform; stack outside cWW | geometric IL_5J7L_306 NA | |
| IL_9MOR_061 | 1/1/1666:1674, 1/1/1990:1994 | No text annotation | geometric IL_4WF9_117 IL_80252.1 | |
| IL_9MOR_062 | 1/1/1669:1674, 1/1/1990:1993 | Intercalated tWH | homologous IL_4WF9_065 IL_28217.1 | |
| IL_9MOR_063 | 1/1/1686:1691, 1/1/1696:1702 | tSH-tSH-tHH-tHS | homologous IL_5J7L_308 NA | |
| IL_9MOR_064 | 1/1/1712:1718, 1/1/1742:1746 | 6x5 Sarcin-Ricin; G-bulge | homologous IL_5J7L_309 NA | |
| IL_9MOR_065 | 1/1/1720:1724, 1/1/1736:1740 | Triple sheared | homologous IL_5J7L_310 NA | |
| IL_9MOR_066 | 1/1/1770:1771, 1/1/1980:1982 | Single bulged A | homologous IL_5J7L_312 NA | |
| IL_9MOR_067 | 1/1/1798:1804, 1/1/1813:1821 | Kink-turn related | homologous IL_5J7L_313 NA | |
| IL_9MOR_068 | 1/1/1837:1840, 1/1/1902:1903 | Minor groove platform, major groove intercalation | homologous IL_5J7L_314 NA | |
| IL_9MOR_069 | 1/1/1841:1842, 1/1/1898:1901 | Major groove intercalation | homologous IL_5J7L_315 NA | |
| IL_9MOR_070 | 1/1/1846:1849, 1/1/1893:1894 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_316 NA | |
| IL_9MOR_071 | 1/1/1851:1860, 1/1/1882:1891 | No text annotation | homologous IL_5J7L_387 NA | |
| IL_9MOR_073 | 1/1/1933:1934, 1/1/1964:1967 | Bulged stacked bases | geometric IL_7A0S_071 IL_24886.2 | |
| IL_9MOR_074 | 1/1/1934:1945, 1/1/1961:1964 | No text annotation | homologous IL_5J7L_319 NA | |
| IL_9MOR_075 | 1/1/2050:2052, 1/1/2617:2618 | Major groove platform | homologous IL_5J7L_320 NA | |
| IL_9MOR_076 | 1/1/2054:2056, 1/1/2612:2615 | No text annotation | homologous IL_5J7L_321 NA | |
| IL_9MOR_077 | 1/1/2067:2069, 1/1/2442:2443 | Single bulged U | homologous IL_4WF9_080 IL_97561.3 | |
| IL_9MOR_078 | 1/1/2070:2071, 1/1/2438:2441 | Minor groove platform | homologous IL_5J7L_324 NA | |
| IL_9MOR_079 | 1/1/2081:2083, 1/1/2236:2239 | Isolated tHS basepair with bulges | homologous IL_5J7L_325 NA | |
| IL_9MOR_080 | 1/1/2085:2087, 1/1/2232:2234 | Isolated non-canonical cWW pair | homologous IL_5J7L_326 NA | |
| IL_9MOR_086 | 1/1/2202:2204, 1/1/2220:2221 | Single bulged U | homologous IL_5J7L_331 NA | |
| IL_9MOR_089 | 1/1/2457:2459, 1/1/2493:2494 | Major groove platform | homologous IL_7A0S_085 IL_48076.8 | |
| IL_9MOR_090 | 1/1/2459:2461, 1/1/2489:2493 | Major groove minor groove platform with extra cWW | homologous IL_5J7L_337 NA | |
| IL_9MOR_091 | 1/1/2465:2470, 1/1/2480:2485 | No text annotation | ||
| IL_9MOR_092 | 1/1/2507:2508, 1/1/2580:2582 | Major groove platform | homologous IL_4WF9_094 IL_46637.2 | |
| IL_9MOR_093 | 1/1/2510:2512, 1/1/2574:2578 | Isolated non-canonical cWW with bulges | homologous IL_9DFE_097 IL_68118.3 | |
| IL_9MOR_094 | 1/1/2512:2513, 1/1/2571:2574 | Multiple bulged bases | homologous IL_7A0S_090 IL_44609.2 | |
| IL_9MOR_095 | 1/1/2521:2523, 1/1/2540:2544 | No text annotation | ||
| IL_9MOR_096 | 1/1/2591:2592, 1/1/2601:2603 | Single bulged A | homologous IL_5J7L_344 NA | |
| IL_9MOR_099 | 1/1/2680:2684, 1/1/2725:2727 | No text annotation | ||
| IL_9MOR_100 | 1/1/2687:2691, 1/1/2718:2722 | UAA/GAN related, with intercalation | homologous IL_5J7L_348 NA | |
| IL_9MOR_101 | 1/1/2695:2696, 1/1/2711:2714 | Multiple bulged bases | homologous IL_5J7L_349 NA | |
| IL_9MOR_102 | 1/1/2737:2742, 1/1/2762:2767 | UAA/GAN with extra cWW | homologous IL_5J7L_350 NA | |
| IL_9MOR_103 | 1/1/2806:2811, 1/1/2889:2892 | No text annotation | homologous IL_5J7L_351 NA | |
| IL_9MOR_104 | 1/1/2838:2839, 1/1/2878:2880 | Major groove intercalation | homologous IL_5J7L_352 NA | |
| IL_9MOR_105 | 1/1/2843:2846, 1/1/2870:2874 | Multiple bulged bases with non-canonical cWW | homologous IL_5J7L_353 NA | |
| IL_9MOR_106 | 1/1/2847:2852, 1/1/2865:2869 | tHS double platform | homologous IL_5J7L_354 NA | |
| IL_9MOR_107 | 1/2/30:32, 1/2/552:553 | Single bulged G | homologous IL_5J7L_001 NA | |
| IL_9MOR_108 | 1/2/44:45, 1/2/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_9MOR_109 | 1/2/47:52, 1/2/359:361 | No text annotation | geometric IL_5J7L_003 NA | |
| IL_9MOR_110 | 1/2/54:56, 1/2/356:357 | Minor groove platform | homologous IL_4LFB_004 IL_34520.3 | |
| IL_9MOR_115 | 1/2/128:131, 1/2/231:233 | Isolated non-canonical cWW pair | homologous IL_5J7L_009 NA | |
| IL_9MOR_117 | 1/2/144:146, 1/2/176:178 | Isolated cWH basepair | homologous IL_5J7L_011 NA | |
| IL_9MOR_118 | 1/2/147:153, 1/2/168:175 | tWH-tWH-tHW-tHW | homologous IL_5J7L_012 NA | |
| IL_9MOR_120 | 1/2/242:247, 1/2/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_9MOR_121 | 1/2/249:252, 1/2/274:275 | No text annotation | homologous IL_5J7L_015 NA | |
| IL_9MOR_122 | 1/2/292:294, 1/2/303:308 | No text annotation | ||
| IL_9MOR_123 | 1/2/367:369, 1/2/392:393 | Single bulged U | homologous IL_5J7L_017 NA | |
| IL_9MOR_125 | 1/2/375:377, 1/2/386:389 | Single bulged G, near cWW | homologous IL_6CZR_128 NA | |
| IL_9MOR_129 | 1/2/450:455, 1/2/477:483 | No text annotation | homologous IL_5J7L_023 NA | |
| IL_9MOR_130 | 1/2/504:511, 1/2/540:541 | SSU/LSU pseudoknot | homologous IL_5J7L_024 NA | |
| IL_9MOR_131 | 1/2/515:521, 1/2/528:536 | Kink-turn related | homologous IL_6CZR_133 NA | |
| IL_9MOR_132 | 1/2/569:575, 1/2/880:881 | No text annotation | homologous IL_6CZR_134 NA | |
| IL_9MOR_133 | 1/2/580:584, 1/2/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_9MOR_134 | 1/2/594:596, 1/2/644:645 | Major groove platform | homologous IL_5J7L_028 NA | |
| IL_9MOR_135 | 1/2/597:598, 1/2/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_029 NA | |
| IL_9MOR_136 | 1/2/605:612, 1/2/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_9MOR_137 | 1/2/654:655, 1/2/751:754 | Major groove platform; stack outside cWW | geometric IL_4LFB_027 IL_74641.2 | |
| IL_9MOR_138 | 1/2/658:659, 1/2/746:748 | Single stack bend | homologous IL_5J7L_032 NA | |
| IL_9MOR_139 | 1/2/662:666, 1/2/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_9MOR_140 | 1/2/673:677, 1/2/713:717 | Triple non-canonical cWW pairs | homologous IL_4LFB_065 IL_71154.3 | |
| IL_9MOR_141 | 1/2/684:688, 1/2/699:706 | Kink-turn | homologous IL_5J7L_035 NA | |
| IL_9MOR_142 | 1/2/774:778, 1/2/804:805 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_9MOR_143 | 1/2/779:783, 1/2/799:803 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_9MOR_144 | 1/2/887:894, 1/2/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_9MOR_145 | 1/2/922:923, 1/2/1393:1395 | Single bulged A | homologous IL_5J7L_039 NA | |
| IL_9MOR_146 | 1/2/924:927, 1/2/1390:1392 | Isolated non-canonical cWW pair | geometric IL_1MFQ_003 IL_01003.3 | |
| IL_9MOR_147 | 1/2/933:935, 1/2/1380:1384 | Minor groove platform | homologous IL_4LFB_037 IL_61370.1 | |
| IL_9MOR_152 | 1/2/1048:1050, 1/2/1208:1209 | Single bulged U | homologous IL_5J7L_046 NA | |
| IL_9MOR_153 | 1/2/1052:1056, 1/2/1204:1206 | No text annotation | homologous IL_6CZR_154 NA | |
| IL_9MOR_154 | 1/2/1057:1058, 1/2/1199:1203 | Minor groove platform | homologous IL_4LFB_045 IL_24264.1 | |
| IL_9MOR_156 | 1/2/1061:1063, 1/2/1193:1195 | Isolated non-canonical cWW pair | homologous IL_5J7L_050 NA | |
| IL_9MOR_159 | 1/2/1158:1161, 1/2/1175:1181 | No text annotation | geometric IL_5J7L_053 NA | |
| IL_9MOR_162 | 1/2/1259:1263, 1/2/1272:1276 | Double sheared with non-canonical cWW | homologous IL_5J7L_056 NA | |
| IL_9MOR_164 | 1/2/1399:1401, 1/2/1501:1504 | No text annotation | homologous IL_5J7L_058 NA | |
| IL_9MOR_165 | 1/2/1401:1404, 1/2/1497:1501 | No text annotation | homologous IL_5J7L_059 NA | |
| IL_9MOR_166 | 1/2/1405:1407, 1/2/1494:1496 | Isolated non-canonical cWW pair | homologous IL_5J7L_363 NA | |
| IL_9MOR_167 | 1/2/1407:1409, 1/2/1491:1494 | Isolated non-canonical cWW pair | geometric IL_5J7L_009 NA | |
| IL_9MOR_168 | 1/2/1412:1414, 1/2/1486:1488 | Isolated non-canonical cWW pair | homologous IL_5J7L_061 NA | |
| IL_9MOR_169 | 1/2/1416:1419, 1/2/1481:1484 | Double sheared | homologous IL_5J7L_062 NA | |
| IL_9MOR_170 | 1/2/1430:1435, 1/2/1466:1470 | Triple sheared related | homologous IL_5J7L_063 NA | |
| IL_9MOR_174 | 1/4/23:28, 1/4/56:60 | No text annotation | homologous IL_9DFE_111 IL_18472.5 | |
| IL_9MOR_177 | 1/4/71:79, 1/4/97:105 | Bacterial 5S Loop E | homologous IL_7A0S_106 IL_71138.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9MOR_009 | No text annotation | ||
| IL_9MOR_012 | No text annotation | ||
| IL_9MOR_022 | No text annotation | ||
| IL_9MOR_023 | Single stack bend | ||
| IL_9MOR_028 | Double sheared with non-canonical cWW | ||
| IL_9MOR_029 | Single bulged A | ||
| IL_9MOR_036 | Tandem non-canonical cWW pairs | ||
| IL_9MOR_037 | Kink-turn | ||
| IL_9MOR_038 | No text annotation | ||
| IL_9MOR_039 | No text annotation | ||
| IL_9MOR_041 | No text annotation | ||
| IL_9MOR_072 | UAA/GAN related | ||
| IL_9MOR_081 | No text annotation | ||
| IL_9MOR_082 | Isolated non-canonical cWW pair | ||
| IL_9MOR_083 | Isolated non-canonical cWW pair | ||
| IL_9MOR_084 | No text annotation | ||
| IL_9MOR_085 | Kink-turn | ||
| IL_9MOR_087 | No text annotation | ||
| IL_9MOR_088 | No text annotation | ||
| IL_9MOR_097 | No text annotation | ||
| IL_9MOR_098 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_9MOR_111 | Multiple bulged bases | ||
| IL_9MOR_112 | Minor groove platform with extra cWW | ||
| IL_9MOR_113 | Minor groove platform | ||
| IL_9MOR_114 | Single bulged G | ||
| IL_9MOR_116 | No text annotation | ||
| IL_9MOR_119 | No text annotation | ||
| IL_9MOR_124 | C-loop | ||
| IL_9MOR_126 | No text annotation | ||
| IL_9MOR_127 | No text annotation | ||
| IL_9MOR_128 | tSH-tHW-tWW | ||
| IL_9MOR_148 | No text annotation | ||
| IL_9MOR_149 | Minor groove platform | ||
| IL_9MOR_150 | No text annotation | ||
| IL_9MOR_151 | No text annotation | ||
| IL_9MOR_155 | Single bulged A | ||
| IL_9MOR_157 | No text annotation | ||
| IL_9MOR_158 | Minor groove platform | ||
| IL_9MOR_160 | No text annotation | ||
| IL_9MOR_161 | 180 degree turn | ||
| IL_9MOR_163 | No text annotation | ||
| IL_9MOR_171 | Single bulged A | ||
| IL_9MOR_172 | No text annotation | ||
| IL_9MOR_173 | Major groove intercalation | ||
| IL_9MOR_175 | Major groove minor groove platform; mini C-loop | ||
| IL_9MOR_176 | Symmetric double minor groove platform |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9MOR_001 | 1/1/30:31, 1/1/474:481, 1/1/509:510 | No text annotation | ||
| J3_9MOR_002 | 1/1/32:35, 1/1/445:461, 1/1/468:473 | No text annotation | homologous J3_5J7L_067 NA | |
| J3_9MOR_003 | 1/1/56:57, 1/1/70:76, 1/1/110:114 | No text annotation | homologous J3_9DFE_004 J3_01004.1 | |
| J3_9MOR_004 | 1/1/683:689, 1/1/773:775, 1/1/791:794 | No text annotation | homologous J3_5J7L_038 NA | |
| J3_9MOR_005 | 1/1/698:700, 1/1/732:736, 1/1/760:763 | No text annotation | homologous J3_4WF9_003 J3_69816.1 | |
| J3_9MOR_007 | 1/1/1298:1303, 1/1/1625:1627, 1/1/1639:1642 | No text annotation | homologous J3_5J7L_041 NA | |
| J3_9MOR_008 | 1/1/1306:1309, 1/1/1605:1611, 1/1/1620:1622 | No text annotation | homologous J3_7A0S_007 J3_47341.1 | |
| J3_9MOR_009 | 1/1/1344:1349, 1/1/1382:1385, 1/1/1402:1403 | No text annotation | homologous J3_5J7L_043 NA | |
| J3_9MOR_010 | 1/1/1424:1429, 1/1/1564:1565, 1/1/1568:1574 | No text annotation | homologous J3_5J7L_069 NA | |
| J3_9MOR_011 | 1/1/2091:2093, 1/1/2196:2200, 1/1/2223:2228 | Kink-turn 3-way junction | homologous J3_5J7L_044 NA | |
| J3_9MOR_012 | 1/1/2282:2284, 1/1/2384:2395, 1/1/2421:2427 | No text annotation | homologous J3_5J7L_070 NA | |
| J3_9MOR_014 | 1/1/2517:2520, 1/1/2545:2547, 1/1/2561:2567 | No text annotation | homologous J3_9DFE_017 J3_32601.6 | |
| J3_9MOR_015 | 1/1/2789:2791, 1/1/2805:2806, 1/1/2892:2894 | No text annotation | homologous J3_5J7L_047 NA | |
| J3_9MOR_016 | 1/1/2812:2815, 1/1/2831:2836, 1/1/2882:2888 | No text annotation | homologous J3_5J7L_048 NA | |
| J3_9MOR_017 | 1/2/46:47, 1/2/361:367, 1/2/393:395 | No text annotation | geometric J3_5J7L_001 NA | |
| J3_9MOR_018 | 1/2/46:52, 1/2/359:367, 1/2/393:395 | No text annotation | homologous J3_5J7L_050 NA | |
| J3_9MOR_019 | 1/2/586:588, 1/2/651:654, 1/2/754:755 | No text annotation | geometric J3_4LFB_011 J3_01633.1 | |
| J3_9MOR_020 | 1/2/586:588, 1/2/651:655, 1/2/751:755 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_9MOR_021 | 1/2/672:673, 1/2/717:725, 1/2/732:734 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_9MOR_022 | 1/2/826:829, 1/2/857:861, 1/2/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_9MOR_023 | 1/2/936:939, 1/2/1344:1350, 1/2/1372:1379 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_9MOR_027 | 1/2/1063:1068, 1/2/1107:1113, 1/2/1187:1193 | No text annotation | homologous J3_6CZR_023 NA | |
| J3_9MOR_028 | 1/2/1073:1076, 1/2/1081:1086, 1/2/1099:1102 | No text annotation | ||
| J3_9MOR_030 | 1/2/1116:1118, 1/2/1155:1161, 1/2/1175:1184 | No text annotation | homologous J3_4LFB_018 J3_40706.1 | |
| J4_9MOR_001 | 1/1/268:269, 1/1/370:375, 1/1/399:406, 1/1/421:424 | No text annotation | homologous J4_5J7L_018 NA | |
| J4_9MOR_002 | 1/1/297:301, 1/1/316:319, 1/1/323:325, 1/1/337:341 | No text annotation | homologous J4_9DFE_002 J4_16174.1 | |
| J4_9MOR_004 | 1/1/1270:1276, 1/1/1294:1295, 1/1/1645:1648, 1/1/2009:2010 | No text annotation | homologous J4_5J7L_021 NA | |
| J4_9MOR_005 | 1/1/1310:1314, 1/1/1338:1343, 1/1/1404:1405, 1/1/1597:1604 | No text annotation | homologous J4_5J7L_022 NA | |
| J4_9MOR_006 | 1/1/1313:1314, 1/1/1338:1343, 1/1/1404:1405, 1/1/1597:1603 | No text annotation | homologous J4_5J7L_023 NA | |
| J4_9MOR_007 | 1/1/1444:1445, 1/1/1466:1467, 1/1/1525:1526, 1/1/1546:1547 | No text annotation | homologous J4_5J7L_024 NA | |
| J4_9MOR_008 | 1/1/1772:1776, 1/1/1788:1792, 1/1/1827:1830, 1/1/1975:1979 | No text annotation | homologous J4_5J7L_025 NA | |
| J4_9MOR_009 | 1/1/1833:1835, 1/1/1905:1906, 1/1/1924:1933, 1/1/1967:1972 | No text annotation | homologous J4_9DFE_008 J4_42306.1 | |
| J4_9MOR_010 | 1/1/2285:2289, 1/1/2343:2347, 1/1/2370:2372, 1/1/2381:2383 | No text annotation | homologous J4_5J7L_027 NA | |
| J4_9MOR_011 | 1/1/2643:2646, 1/1/2674:2676, 1/1/2731:2736, 1/1/2768:2771 | No text annotation | ||
| J4_9MOR_012 | 1/2/115:122, 1/2/239:240, 1/2/286:289, 1/2/311:312 | No text annotation | homologous J4_5J7L_001 NA | |
| J4_9MOR_013 | 1/2/142:144, 1/2/178:184, 1/2/193:198, 1/2/219:221 | No text annotation | homologous J4_5J7L_002 NA | |
| J4_9MOR_014 | 1/2/575:577, 1/2/764:769, 1/2/810:821, 1/2/879:880 | No text annotation | homologous J4_5J7L_003 NA | |
| J4_9MOR_015 | 1/5/6:9, 1/5/25:27, 1/5/43:49, 1/5/65:66 | tRNA junction | homologous J4_3TUP_001 J4_95067.1 | |
| J5_9MOR_001 | 1/1/47:54, 1/1/116:121, 1/1/130:131, 1/1/148:150, 1/1/176:178 | No text annotation | homologous J5_5J7L_013 NA | |
| J5_9MOR_002 | 1/1/531:533, 1/1/560:564, 1/1/577:579, 1/1/1261:1262, 1/1/2017:2018 | No text annotation | homologous J5_5J7L_014 NA | |
| J5_9MOR_003 | 1/1/584:589, 1/1/668:671, 1/1/809:812, 1/1/1195:1196, 1/1/1250:1256 | No text annotation | homologous J5_7A0S_004 J5_74302.6 | |
| J5_9MOR_004 | 1/1/1674:1682, 1/1/1706:1707, 1/1/1751:1752, 1/1/1756:1764, 1/1/1988:1990 | No text annotation | homologous J5_5J7L_016 NA | |
| J5_9MOR_005 | 1/1/2057:2064, 1/1/2446:2455, 1/1/2496:2506, 1/1/2583:2588, 1/1/2606:2611 | No text annotation | ||
| J5_9MOR_006 | 1/1/2074:2077, 1/1/2243:2246, 1/1/2258:2259, 1/1/2281:2282, 1/1/2427:2435 | No text annotation | homologous J5_9DFE_007 J5_39529.2 | |
| J5_9MOR_007 | 1/2/36:39, 1/2/403:406, 1/2/436:440, 1/2/497:500, 1/2/545:548 | No text annotation | homologous J5_5J7L_001 NA | |
| J5_9MOR_008 | 1/2/36:39, 1/2/403:406, 1/2/436:442, 1/2/492:500, 1/2/545:548 | No text annotation | homologous J5_5J7L_002 NA | |
| J5_9MOR_009 | 1/2/58:61, 1/2/106:113, 1/2/314:316, 1/2/337:339, 1/2/350:354 | No text annotation | homologous J5_5J7L_003 NA | |
| J6_9MOR_001 | 1/1/45:46, 1/1/179:183, 1/1/214:224, 1/1/231:235, 1/1/262:266, 1/1/426:433 | No text annotation | ||
| J7_9MOR_001 | 1/1/8:15, 1/1/525:531, 1/1/2018:2023, 1/1/2040:2043, 1/1/2625:2630, 1/1/2788:2789, 1/1/2894:2895 | No text annotation | ||
| J7_9MOR_002 | 1/1/817:822, 1/1/835:838, 1/1/940:946, 1/1/971:976, 1/1/987:991, 1/1/1163:1164, 1/1/1185:1190 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_9MOR_006 | No text annotation | ||
| J3_9MOR_013 | No text annotation | ||
| J3_9MOR_024 | No text annotation | ||
| J3_9MOR_025 | No text annotation | ||
| J3_9MOR_026 | No text annotation | ||
| J3_9MOR_029 | No text annotation | ||
| J3_9MOR_031 | No text annotation | ||
| J3_9MOR_032 | No text annotation | ||
| J4_9MOR_003 | No text annotation | ||
| J4_9MOR_016 | tRNA junction |
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