9IOT Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9IOT_001 | 1/A/59:68 | No text annotation | ||
| HL_9IOT_002 | 1/A/87:95 | No text annotation | geometric HL_5J7L_135 NA | |
| HL_9IOT_003 | 1/A/123:128 | No text annotation | geometric HL_5J7L_136 NA | |
| HL_9IOT_004 | 1/A/137:142 | UNCG | geometric HL_6QN3_003 NA | |
| HL_9IOT_005 | 1/A/158:168 | No text annotation | geometric HL_5J7L_138 NA | |
| HL_9IOT_006 | 1/A/194:201 | No text annotation | geometric HL_5J7L_139 NA | |
| HL_9IOT_007 | 1/A/225:230 | No text annotation | geometric HL_5J7L_140 NA | |
| HL_9IOT_008 | 1/A/246:252 | No text annotation | geometric HL_5J7L_141 NA | |
| HL_9IOT_009 | 1/A/305:312 | T-loop with 2 stacked bulged bases | geometric HL_5J7L_142 NA | |
| HL_9IOT_010 | 1/A/319:323 | No text annotation | geometric HL_5J7L_143 NA | |
| HL_9IOT_011 | 1/A/327:335 | T-loop with unstacked turn | geometric HL_5J7L_144 NA | |
| HL_9IOT_012 | 1/A/382:392 | No text annotation | geometric HL_5J7L_145 NA | |
| HL_9IOT_013 | 1/A/410:417 | Pseudoknot geometry | geometric HL_5J7L_146 NA | |
| HL_9IOT_014 | 1/A/462:467 | GNRA | geometric HL_8P9A_175 HL_34789.1 | |
| HL_9IOT_015 | 1/A/487:493 | GNRA | geometric HL_5J7L_148 NA | |
| HL_9IOT_016 | 1/A/544:549 | No text annotation | ||
| HL_9IOT_017 | 1/A/566:575 | T-loop with 2 stacked bulged bases | geometric HL_5J7L_150 NA | |
| HL_9IOT_018 | 1/A/611:617 | GNRA | geometric HL_7KKV_003 HL_34789.1 | |
| HL_9IOT_019 | 1/A/629:634 | GNRA | geometric HL_5J7L_152 NA | |
| HL_9IOT_020 | 1/A/641:647 | No text annotation | geometric HL_5J7L_153 NA | |
| HL_9IOT_021 | 1/A/710:721 | No text annotation | ||
| HL_9IOT_022 | 1/A/744:753 | No text annotation | geometric HL_4WF9_023 HL_50204.1 | |
| HL_9IOT_023 | 1/A/779:785 | No text annotation | geometric HL_5J7L_156 NA | |
| HL_9IOT_024 | 1/A/826:831 | No text annotation | geometric HL_5J7L_157 NA | |
| HL_9IOT_025 | 1/A/885:891 | No text annotation | ||
| HL_9IOT_026 | 1/A/955:962 | GNRA | geometric HL_4WF9_027 HL_34789.1 | |
| HL_9IOT_027 | 1/A/978:985 | No text annotation | geometric HL_5J7L_160 NA | |
| HL_9IOT_028 | 1/A/1222:1227 | GNRA | geometric HL_5J7L_164 NA | |
| HL_9IOT_029 | 1/A/1281:1289 | T-loop with 2 stacked bulged bases | geometric HL_5J7L_165 NA | |
| HL_9IOT_030 | 1/A/1324:1330 | Pseudoknot geometry with 3' bulge | geometric HL_5J7L_166 NA | |
| HL_9IOT_031 | 1/A/1363:1368 | GNRA | geometric HL_5J7L_167 NA | |
| HL_9IOT_032 | 1/A/1389:1398 | No text annotation | geometric HL_5J7L_168 NA | |
| HL_9IOT_033 | 1/A/1451:1459 | Mini UNCG with extended bulge | geometric HL_5J7L_169 NA | |
| HL_9IOT_034 | 1/A/1492:1498 | Pseudoknot geometry with 3' bulge | geometric HL_5J7L_170 NA | |
| HL_9IOT_036 | 1/A/1565:1568 | Mini UNCG | geometric HL_9DFE_037 HL_90436.1 | |
| HL_9IOT_037 | 1/A/1612:1619 | No text annotation | geometric HL_5J7L_173 NA | |
| HL_9IOT_038 | 1/A/1630:1636 | GNRA | geometric HL_5J7L_174 NA | |
| HL_9IOT_039 | 1/A/1691:1696 | UNCG | geometric HL_5J7L_175 NA | |
| HL_9IOT_040 | 1/A/1727:1733 | No text annotation | geometric HL_5J7L_214 NA | |
| HL_9IOT_041 | 1/A/1752:1756 | No text annotation | geometric HL_9DFE_042 HL_80709.4 | |
| HL_9IOT_042 | 1/A/1777:1787 | No text annotation | geometric HL_5J7L_178 NA | |
| HL_9IOT_043 | 1/A/1806:1811 | GNRA related | geometric HL_3OXE_002 HL_37569.1 | |
| HL_9IOT_045 | 1/A/1910:1920 | No text annotation | geometric HL_8CRE_047 NA | |
| HL_9IOT_046 | 1/A/1949:1957 | No text annotation | geometric HL_5J7L_182 NA | |
| HL_9IOT_047 | 1/A/2027:2036 | No text annotation | geometric HL_5J7L_183 NA | |
| HL_9IOT_049 | 1/A/2209:2215 | No text annotation | geometric HL_5J7L_185 NA | |
| HL_9IOT_050 | 1/A/2248:2256 | No text annotation | geometric HL_4WF9_049 HL_11974.1 | |
| HL_9IOT_051 | 1/A/2264:2276 | No text annotation | geometric HL_5J7L_187 NA | |
| HL_9IOT_052 | 1/A/2304:2312 | No text annotation | geometric HL_5J7L_219 NA | |
| HL_9IOT_053 | 1/A/2324:2331 | Pseudoknot geometry | geometric HL_5J7L_189 NA | |
| HL_9IOT_054 | 1/A/2356:2361 | GNRA | geometric HL_5J7L_190 NA | |
| HL_9IOT_055 | 1/A/2374:2379 | GNRA | geometric HL_5J7L_191 NA | |
| HL_9IOT_056 | 1/A/2404:2413 | No text annotation | geometric HL_5J7L_192 NA | |
| HL_9IOT_057 | 1/A/2471:2479 | No text annotation | geometric HL_9DFE_058 HL_52011.1 | |
| HL_9IOT_058 | 1/A/2528:2535 | GNRA variation | geometric HL_5J7L_194 NA | |
| HL_9IOT_059 | 1/A/2551:2557 | No text annotation | geometric HL_5J7L_195 NA | |
| HL_9IOT_060 | 1/A/2594:2599 | GNRA | geometric HL_4V9F_065 HL_34789.1 | |
| HL_9IOT_061 | 1/A/2658:2663 | GNRA | geometric HL_4V9F_066 HL_34789.1 | |
| HL_9IOT_062 | 1/A/2701:2706 | Ribsomal LSU H95 | geometric HL_5J7L_198 NA | |
| HL_9IOT_063 | 1/A/2745:2759 | No text annotation | geometric HL_5J7L_199 NA | |
| HL_9IOT_064 | 1/A/2796:2799 | Mini UNCG | geometric HL_4L8H_001 HL_90436.1 | |
| HL_9IOT_065 | 1/A/2819:2827 | No text annotation | geometric HL_5J7L_201 NA | |
| HL_9IOT_066 | 1/A/2856:2861 | GNRA | geometric HL_5J7L_202 NA | |
| HL_9IOT_067 | 1/B/34:48 | No text annotation | geometric HL_5J7L_215 NA | |
| HL_9IOT_068 | 1/B/38:44 | No text annotation | geometric HL_5J7L_203 NA | |
| HL_9IOT_069 | 1/B/86:90 | Mini UNCG | geometric HL_5J7L_204 NA | |
| HL_9IOT_070 | 1/a/12:22 | No text annotation | geometric HL_4LFB_001 HL_31940.1 | |
| HL_9IOT_072 | 1/a/158:163 | GNRA | geometric HL_8ITS_001 NA | |
| HL_9IOT_073 | 1/a/186:191 | GNRA | geometric HL_4V9F_009 HL_34789.1 | |
| HL_9IOT_074 | 1/a/203:214 | No text annotation | ||
| HL_9IOT_075 | 1/a/259:267 | GNRA related | geometric HL_5J7L_006 NA | |
| HL_9IOT_076 | 1/a/296:301 | GNRA | geometric HL_4LFB_007 HL_34789.1 | |
| HL_9IOT_077 | 1/a/320:333 | No text annotation | geometric HL_5J7L_008 NA | |
| HL_9IOT_078 | 1/a/342:347 | UNCG | geometric HL_4V9F_044 HL_61337.1 | |
| HL_9IOT_079 | 1/a/379:384 | GNRA | geometric HL_5J7L_010 NA | |
| HL_9IOT_080 | 1/a/419:424 | UNCG | geometric HL_5J7L_011 NA | |
| HL_9IOT_081 | 1/a/462:470 | GNRA wlth extra near cWW | geometric HL_5J7L_012 NA | |
| HL_9IOT_082 | 1/a/522:527 | GNRA variation | geometric HL_4LFB_033 HL_34789.1 | |
| HL_9IOT_083 | 1/a/617:623 | GNRA-like with tWH | geometric HL_5J7L_014 NA | |
| HL_9IOT_084 | 1/a/689:698 | No text annotation | geometric HL_5J7L_015 NA | |
| HL_9IOT_085 | 1/a/726:731 | GNRA | geometric HL_8CRE_211 HL_34789.1 | |
| HL_9IOT_086 | 1/a/786:796 | No text annotation | geometric HL_5J7L_017 NA | |
| HL_9IOT_087 | 1/a/862:867 | GNRA | geometric HL_5J7L_019 NA | |
| HL_9IOT_088 | 1/a/897:902 | GNRA | geometric HL_4LFB_020 HL_34789.1 | |
| HL_9IOT_089 | 1/a/963:972 | No text annotation | geometric HL_5J7L_021 NA | |
| HL_9IOT_090 | 1/a/1012:1017 | GNRA | geometric HL_4Y1M_004 HL_34789.1 | |
| HL_9IOT_091 | 1/a/1076:1081 | GNRA | geometric HL_5J7L_023 NA | |
| HL_9IOT_092 | 1/a/1089:1096 | T-loop related | geometric HL_4LFB_025 HL_63894.1 | |
| HL_9IOT_093 | 1/a/1134:1140 | UNCG | geometric HL_7RGU_005 HL_61337.1 | |
| HL_9IOT_094 | 1/a/1165:1171 | GNRA | geometric HL_1U6B_001 HL_34789.1 | |
| HL_9IOT_095 | 1/a/1265:1270 | GNRA | geometric HL_4LFB_024 HL_34789.1 | |
| HL_9IOT_096 | 1/a/1314:1323 | T-loop with 3 stacked bulged bases | geometric HL_5J7L_028 NA | |
| HL_9IOT_097 | 1/a/1356:1366 | No text annotation | geometric HL_4LFB_030 HL_86432.1 | |
| HL_9IOT_098 | 1/a/1449:1454 | No text annotation | geometric HL_5HR7_005 HL_50006.4 | |
| HL_9IOT_099 | 1/a/1515:1520 | GNRA | geometric HL_5J7L_031 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9IOT_035 | No text annotation | ||
| HL_9IOT_044 | No text annotation | ||
| HL_9IOT_048 | No text annotation | ||
| HL_9IOT_071 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9IOT_001 | 1/A/24:30, 1/A/510:516 | Triple sheared with non-canonical cWW | geometric IL_5J7L_245 NA | |
| IL_9IOT_002 | 1/A/36:37, 1/A/442:444 | Single bulged A | geometric IL_5J7L_246 NA | |
| IL_9IOT_003 | 1/A/43:44, 1/A/434:436 | Minor groove platform | geometric IL_5J7L_247 NA | |
| IL_9IOT_004 | 1/A/81:85, 1/A/97:105 | No text annotation | geometric IL_5J7L_248 NA | |
| IL_9IOT_005 | 1/A/183:184, 1/A/212:214 | Single stack bend | geometric IL_5J7L_249 NA | |
| IL_9IOT_006 | 1/A/188:194, 1/A/201:208 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5J7L_250 NA | |
| IL_9IOT_007 | 1/A/239:245, 1/A/253:258 | 7x6 Sarcin-Ricin; G-bulge | geometric IL_5J7L_251 NA | |
| IL_9IOT_008 | 1/A/269:271, 1/A/366:370 | No text annotation | geometric IL_5J7L_252 NA | |
| IL_9IOT_010 | 1/A/293:295, 1/A/343:347 | No text annotation | geometric IL_5J7L_254 NA | |
| IL_9IOT_011 | 1/A/481:484, 1/A/496:509 | No text annotation | geometric IL_5J7L_255 NA | |
| IL_9IOT_012 | 1/A/536:539, 1/A/554:557 | Double sheared | geometric IL_5J7L_256 NA | |
| IL_9IOT_013 | 1/A/564:566, 1/A/575:577 | Isolated non-canonical cWW pair | geometric IL_5J7L_257 NA | |
| IL_9IOT_014 | 1/A/606:610, 1/A/618:622 | AAA cross-strand stack | geometric IL_5J7L_258 NA | |
| IL_9IOT_015 | 1/A/672:674, 1/A/806:808 | Isolated non-canonical cWW pair | geometric IL_5J7L_259 NA | |
| IL_9IOT_016 | 1/A/674:678, 1/A/799:806 | tHW-tHW cross-strand stack | geometric IL_5J7L_260 NA | |
| IL_9IOT_017 | 1/A/697:698, 1/A/763:765 | Single bulged A | geometric IL_5J7L_261 NA | |
| IL_9IOT_018 | 1/A/702:703, 1/A/728:730 | Single bulged G | geometric IL_7A0S_017 IL_28408.1 | |
| IL_9IOT_019 | 1/A/703:707, 1/A/724:728 | Triple sheared | geometric IL_5J7L_263 NA | |
| IL_9IOT_020 | 1/A/738:740, 1/A/757:758 | Major groove platform | geometric IL_5J7L_264 NA | |
| IL_9IOT_021 | 1/A/775:777, 1/A/787:791 | Multiple bulged bases | geometric IL_5J7L_265 NA | |
| IL_9IOT_022 | 1/A/844:847, 1/A/933:934 | 90 degree turn | geometric IL_5J7L_267 NA | |
| IL_9IOT_023 | 1/A/844:848, 1/A/930:934 | No text annotation | geometric IL_5J7L_399 NA | |
| IL_9IOT_024 | 1/A/847:848, 1/A/930:933 | Stack outside cWW | geometric IL_5J7L_268 NA | |
| IL_9IOT_025 | 1/A/850:851, 1/A/926:928 | Single stack bend | geometric IL_5J7L_269 NA | |
| IL_9IOT_026 | 1/A/856:862, 1/A/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_5J7L_270 NA | |
| IL_9IOT_027 | 1/A/862:863, 1/A/913:915 | Single bulged G | geometric IL_5J7L_271 NA | |
| IL_9IOT_028 | 1/A/864:868, 1/A/909:912 | C-loop with bulged stacked A's | geometric IL_5J7L_272 NA | |
| IL_9IOT_029 | 1/A/870:872, 1/A/905:907 | Isolated non-canonical cWW pair | geometric IL_5J7L_273 NA | |
| IL_9IOT_030 | 1/A/875:879, 1/A/898:902 | Double sheared with non-canonical cWW | geometric IL_4WFL_001 IL_87767.1 | |
| IL_9IOT_032 | 1/A/994:996, 1/A/1159:1160 | Single bulged C | geometric IL_5J7L_276 NA | |
| IL_9IOT_033 | 1/A/998:1002, 1/A/1153:1157 | UAA/GAN | geometric IL_5J7L_277 NA | |
| IL_9IOT_034 | 1/A/1004:1011, 1/A/1150:1151 | SSU/LSU pseudoknot | geometric IL_5J7L_278 NA | |
| IL_9IOT_035 | 1/A/1011:1013, 1/A/1149:1150 | Single bulged U | geometric IL_5J7L_279 NA | |
| IL_9IOT_036 | 1/A/1018:1024, 1/A/1140:1144 | Kink-turn related | geometric IL_5J7L_280 NA | |
| IL_9IOT_037 | 1/A/1024:1030, 1/A/1124:1140 | No text annotation | geometric IL_5J7L_281 NA | |
| IL_9IOT_038 | 1/A/1031:1034, 1/A/1121:1123 | Isolated non-canonical cWW pair | geometric IL_5J7L_282 NA | |
| IL_9IOT_039 | 1/A/1038:1041, 1/A/1114:1117 | Tandem non-canonical cWW pairs | geometric IL_5J7L_283 NA | |
| IL_9IOT_040 | 1/A/1196:1198, 1/A/1247:1250 | Isolated cWS basepair | geometric IL_5J7L_286 NA | |
| IL_9IOT_041 | 1/A/1202:1206, 1/A/1240:1243 | No text annotation | geometric IL_5J7L_287 NA | |
| IL_9IOT_042 | 1/A/1208:1215, 1/A/1234:1238 | Kink-turn | geometric IL_5J7L_288 NA | |
| IL_9IOT_043 | 1/A/1262:1269, 1/A/2011:2017 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_5J7L_289 NA | |
| IL_9IOT_044 | 1/A/1310:1313, 1/A/1603:1604 | Major groove platform; stack outside cWW | geometric IL_5J7L_290 NA | |
| IL_9IOT_045 | 1/A/1319:1323, 1/A/1331:1333 | C-loop | geometric IL_5J7L_291 NA | |
| IL_9IOT_046 | 1/A/1351:1355, 1/A/1376:1380 | UAA/GAN | geometric IL_5J7L_292 NA | |
| IL_9IOT_047 | 1/A/1357:1361, 1/A/1370:1374 | tSH-tHW-tHS | geometric IL_5J7L_293 NA | |
| IL_9IOT_048 | 1/A/1415:1416, 1/A/1582:1587 | No text annotation | ||
| IL_9IOT_049 | 1/A/1417:1421, 1/A/1577:1581 | UAA/GAN | geometric IL_5J7L_295 NA | |
| IL_9IOT_050 | 1/A/1432:1435, 1/A/1557:1561 | Tandem non-canonical cWW pairs | geometric IL_5J7L_296 NA | |
| IL_9IOT_051 | 1/A/1437:1440, 1/A/1551:1555 | tSH-tHW | geometric IL_5J7L_297 NA | |
| IL_9IOT_052 | 1/A/1450:1451, 1/A/1459:1461 | Single bulged U | geometric IL_5J7L_298 NA | |
| IL_9IOT_053 | 1/A/1468:1471, 1/A/1520:1524 | No text annotation | geometric IL_5J7L_299 NA | |
| IL_9IOT_054 | 1/A/1474:1478, 1/A/1513:1517 | tSH-tHW-tHS | geometric IL_5J7L_300 NA | |
| IL_9IOT_055 | 1/A/1481:1486, 1/A/1503:1510 | No text annotation | ||
| IL_9IOT_056 | 1/A/1489:1491, 1/A/1499:1500 | Single bulged A | geometric IL_5J7L_302 NA | |
| IL_9IOT_057 | 1/A/1526:1529, 1/A/1542:1546 | UAA/GAN variation | geometric IL_5J7L_303 NA | |
| IL_9IOT_058 | 1/A/1651:1656, 1/A/2004:2006 | No text annotation | geometric IL_5J7L_304 NA | |
| IL_9IOT_059 | 1/A/1663:1665, 1/A/1995:1997 | Isolated tWW turn | geometric IL_5J7L_305 NA | |
| IL_9IOT_060 | 1/A/1666:1669, 1/A/1993:1994 | Major groove platform; stack outside cWW | geometric IL_5J7L_306 NA | |
| IL_9IOT_061 | 1/A/1666:1674, 1/A/1990:1994 | No text annotation | geometric IL_5J7L_386 NA | |
| IL_9IOT_062 | 1/A/1669:1674, 1/A/1990:1993 | Intercalated tWH | geometric IL_5J7L_307 NA | |
| IL_9IOT_063 | 1/A/1686:1691, 1/A/1696:1702 | tSH-tSH-tHH-tHS | geometric IL_5J7L_308 NA | |
| IL_9IOT_064 | 1/A/1712:1718, 1/A/1742:1746 | 6x5 Sarcin-Ricin; G-bulge | geometric IL_5J7L_309 NA | |
| IL_9IOT_065 | 1/A/1720:1724, 1/A/1736:1740 | Triple sheared | geometric IL_5J7L_310 NA | |
| IL_9IOT_066 | 1/A/1770:1771, 1/A/1980:1982 | Single bulged A | geometric IL_5J7L_312 NA | |
| IL_9IOT_067 | 1/A/1798:1804, 1/A/1813:1821 | Kink-turn related | geometric IL_5J7L_313 NA | |
| IL_9IOT_068 | 1/A/1837:1840, 1/A/1902:1903 | Minor groove platform, major groove intercalation | geometric IL_5J7L_314 NA | |
| IL_9IOT_069 | 1/A/1841:1842, 1/A/1898:1901 | Major groove intercalation | geometric IL_5J7L_315 NA | |
| IL_9IOT_070 | 1/A/1846:1849, 1/A/1893:1894 | Major groove minor groove platform; mini C-loop | geometric IL_1S03_003 IL_73108.1 | |
| IL_9IOT_071 | 1/A/1851:1860, 1/A/1882:1891 | No text annotation | geometric IL_5J7L_387 NA | |
| IL_9IOT_072 | 1/A/1864:1867, 1/A/1874:1878 | UAA/GAN related | geometric IL_5J7L_317 NA | |
| IL_9IOT_073 | 1/A/1933:1934, 1/A/1964:1967 | Bulged stacked bases | geometric IL_5J7L_318 NA | |
| IL_9IOT_074 | 1/A/1934:1945, 1/A/1961:1964 | No text annotation | ||
| IL_9IOT_075 | 1/A/2050:2052, 1/A/2617:2618 | Major groove platform | geometric IL_9DFE_078 IL_48076.7 | |
| IL_9IOT_076 | 1/A/2054:2056, 1/A/2612:2615 | No text annotation | geometric IL_5J7L_321 NA | |
| IL_9IOT_077 | 1/A/2067:2069, 1/A/2442:2443 | Single bulged U | geometric IL_5J7L_388 NA | |
| IL_9IOT_078 | 1/A/2070:2071, 1/A/2438:2441 | Minor groove platform | geometric IL_8P9A_322 IL_34520.1 | |
| IL_9IOT_079 | 1/A/2081:2083, 1/A/2236:2239 | Isolated tHS basepair with bulges | geometric IL_5J7L_325 NA | |
| IL_9IOT_080 | 1/A/2085:2087, 1/A/2232:2234 | Isolated non-canonical cWW pair | geometric IL_5J7L_326 NA | |
| IL_9IOT_081 | 1/A/2202:2204, 1/A/2220:2221 | Single bulged U | geometric IL_5J7L_331 NA | |
| IL_9IOT_082 | 1/A/2297:2299, 1/A/2317:2321 | No text annotation | geometric IL_5J7L_332 NA | |
| IL_9IOT_083 | 1/A/2350:2353, 1/A/2364:2367 | Double sheared | geometric IL_5J7L_333 NA | |
| IL_9IOT_084 | 1/A/2401:2403, 1/A/2414:2415 | Single bulged U | geometric IL_6UFG_004 NA | |
| IL_9IOT_085 | 1/A/2453:2454, 1/A/2498:2500 | Single stack bend | geometric IL_5J7L_391 NA | |
| IL_9IOT_086 | 1/A/2454:2455, 1/A/2496:2498 | Major groove platform | geometric IL_5J7L_392 NA | |
| IL_9IOT_087 | 1/A/2457:2459, 1/A/2493:2494 | Major groove platform | geometric IL_9DFE_093 IL_48076.7 | |
| IL_9IOT_088 | 1/A/2459:2461, 1/A/2489:2493 | Major groove minor groove platform with extra cWW | geometric IL_5J7L_337 NA | |
| IL_9IOT_089 | 1/A/2466:2470, 1/A/2480:2484 | Double sheared with non-canonical cWW | geometric IL_5J7L_338 NA | |
| IL_9IOT_090 | 1/A/2507:2508, 1/A/2580:2582 | Major groove platform | geometric IL_4WF9_094 IL_46637.1 | |
| IL_9IOT_091 | 1/A/2510:2512, 1/A/2574:2578 | Isolated non-canonical cWW with bulges | geometric IL_5J7L_340 NA | |
| IL_9IOT_092 | 1/A/2512:2513, 1/A/2571:2574 | No text annotation | geometric IL_5J7L_341 NA | |
| IL_9IOT_093 | 1/A/2522:2523, 1/A/2540:2543 | Major groove platform with intercalation | geometric IL_5J7L_342 NA | |
| IL_9IOT_094 | 1/A/2591:2592, 1/A/2601:2603 | Single bulged A | geometric IL_8CRE_122 NA | |
| IL_9IOT_095 | 1/A/2636:2640, 1/A/2774:2782 | tSH-tHS-tHW | geometric IL_5J7L_345 NA | |
| IL_9IOT_096 | 1/A/2652:2658, 1/A/2663:2668 | Sarcin-Ricin target in LSU H95; G-bulge | geometric IL_7A0S_094 IL_16458.5 | |
| IL_9IOT_097 | 1/A/2680:2684, 1/A/2725:2727 | C-loop | geometric IL_5J7L_347 NA | |
| IL_9IOT_098 | 1/A/2687:2691, 1/A/2718:2722 | UAA/GAN related, with intercalation | geometric IL_5J7L_348 NA | |
| IL_9IOT_099 | 1/A/2695:2696, 1/A/2711:2714 | Multiple bulged bases | geometric IL_5J7L_349 NA | |
| IL_9IOT_100 | 1/A/2737:2742, 1/A/2762:2767 | UAA/GAN with extra cWW | geometric IL_5J7L_350 NA | |
| IL_9IOT_101 | 1/A/2795:2796, 1/A/2799:2801 | Single bulged A | geometric IL_9DFE_058 IL_14190.1 | |
| IL_9IOT_102 | 1/A/2806:2811, 1/A/2889:2892 | No text annotation | geometric IL_5J7L_351 NA | |
| IL_9IOT_103 | 1/A/2838:2839, 1/A/2878:2880 | Major groove intercalation | geometric IL_5J7L_352 NA | |
| IL_9IOT_104 | 1/A/2843:2846, 1/A/2870:2874 | Multiple bulged bases with non-canonical cWW | geometric IL_5J7L_353 NA | |
| IL_9IOT_105 | 1/A/2847:2852, 1/A/2865:2869 | tHS double platform | geometric IL_5J7L_354 NA | |
| IL_9IOT_106 | 1/B/17:18, 1/B/65:67 | Major groove intercalation | geometric IL_5J7L_355 NA | |
| IL_9IOT_107 | 1/B/23:28, 1/B/56:60 | No text annotation | geometric IL_5J7L_356 NA | |
| IL_9IOT_108 | 1/B/30:31, 1/B/51:54 | Major groove minor groove platform; mini C-loop | geometric IL_5J7L_357 NA | |
| IL_9IOT_109 | 1/B/34:38, 1/B/44:48 | Symmetric double minor groove platform | geometric IL_5J7L_358 NA | |
| IL_9IOT_110 | 1/B/71:79, 1/B/97:105 | Bacterial 5S Loop E | geometric IL_5J7L_359 NA | |
| IL_9IOT_111 | 1/a/30:32, 1/a/552:553 | Single bulged G | geometric IL_5J7L_001 NA | |
| IL_9IOT_112 | 1/a/44:45, 1/a/396:398 | Single bulged A | geometric IL_5J7L_002 NA | |
| IL_9IOT_113 | 1/a/47:52, 1/a/359:361 | No text annotation | geometric IL_5J7L_003 NA | |
| IL_9IOT_114 | 1/a/54:56, 1/a/356:357 | Minor groove platform | geometric IL_4LFB_004 IL_34520.1 | |
| IL_9IOT_115 | 1/a/63:66, 1/a/103:104 | Multiple bulged bases | geometric IL_5J7L_005 NA | |
| IL_9IOT_116 | 1/a/67:69, 1/a/99:102 | Minor groove platform with extra cWW | geometric IL_5J7L_006 NA | |
| IL_9IOT_117 | 1/a/70:73, 1/a/97:98 | Minor groove platform | geometric IL_5J7L_007 NA | |
| IL_9IOT_118 | 1/a/75:76, 1/a/93:95 | Single bulged G | geometric IL_5J7L_395 NA | |
| IL_9IOT_119 | 1/a/128:131, 1/a/231:233 | Isolated non-canonical cWW pair | geometric IL_5J7L_009 NA | |
| IL_9IOT_120 | 1/a/132:136, 1/a/227:230 | Minor groove platform related | geometric IL_5J7L_010 NA | |
| IL_9IOT_121 | 1/a/147:153, 1/a/168:175 | tWH-tWH-tHW-tHW | geometric IL_5J7L_012 NA | |
| IL_9IOT_122 | 1/a/242:247, 1/a/277:284 | Kink-turn with non-sequential stacking | geometric IL_4LFB_011 IL_46174.4 | |
| IL_9IOT_123 | 1/a/249:252, 1/a/274:275 | No text annotation | geometric IL_4LFB_012 IL_22002.1 | |
| IL_9IOT_124 | 1/a/292:293, 1/a/304:308 | C-loop | geometric IL_4LFB_013 IL_06671.1 | |
| IL_9IOT_125 | 1/a/367:369, 1/a/392:393 | Single bulged U | geometric IL_5J7L_017 NA | |
| IL_9IOT_126 | 1/a/371:375, 1/a/389:390 | C-loop | geometric IL_5J7L_018 NA | |
| IL_9IOT_127 | 1/a/375:376, 1/a/387:389 | Single bulged G | geometric IL_5J7L_019 NA | |
| IL_9IOT_128 | 1/a/409:416, 1/a/427:433 | No text annotation | geometric IL_5J7L_020 NA | |
| IL_9IOT_129 | 1/a/440:442, 1/a/492:497 | No text annotation | geometric IL_5J7L_021 NA | |
| IL_9IOT_130 | 1/a/446:450, 1/a/483:488 | tSH-tHW-tWW | geometric IL_5J7L_022 NA | |
| IL_9IOT_131 | 1/a/450:455, 1/a/477:483 | No text annotation | geometric IL_5J7L_023 NA | |
| IL_9IOT_132 | 1/a/504:511, 1/a/540:541 | SSU/LSU pseudoknot | geometric IL_4LFB_020 IL_11411.1 | |
| IL_9IOT_133 | 1/a/515:521, 1/a/528:536 | No text annotation | geometric IL_8P9A_404 IL_52042.1 | |
| IL_9IOT_134 | 1/a/569:575, 1/a/880:881 | No text annotation | geometric IL_4LFB_022 IL_20847.1 | |
| IL_9IOT_135 | 1/a/580:584, 1/a/757:761 | tSH-tHW-tHS | geometric IL_5J7L_027 NA | |
| IL_9IOT_136 | 1/a/594:596, 1/a/644:645 | Major groove platform | geometric IL_5J7L_028 NA | |
| IL_9IOT_137 | 1/a/597:598, 1/a/640:643 | Major groove minor groove platform; mini C-loop | geometric IL_5J7L_029 NA | |
| IL_9IOT_138 | 1/a/605:612, 1/a/628:633 | No text annotation | geometric IL_5J7L_030 NA | |
| IL_9IOT_139 | 1/a/654:655, 1/a/751:754 | Major groove platform; stack outside cWW | geometric IL_4LFB_027 IL_74641.1 | |
| IL_9IOT_140 | 1/a/659:660, 1/a/745:747 | Single stack bend | geometric IL_7A0S_054 IL_15011.1 | |
| IL_9IOT_141 | 1/a/662:666, 1/a/740:743 | Tandem non-canonical cWW pairs | geometric IL_5J7L_033 NA | |
| IL_9IOT_142 | 1/a/673:678, 1/a/712:717 | No text annotation | ||
| IL_9IOT_143 | 1/a/684:688, 1/a/699:706 | Kink-turn | geometric IL_5J7L_035 NA | |
| IL_9IOT_144 | 1/a/774:778, 1/a/804:805 | Left turn | geometric IL_4LFB_032 IL_29346.3 | |
| IL_9IOT_145 | 1/a/779:783, 1/a/799:803 | tSH-tHW-tHS | geometric IL_5J7L_037 NA | |
| IL_9IOT_146 | 1/a/887:894, 1/a/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | geometric IL_5J7L_038 NA | |
| IL_9IOT_147 | 1/a/922:923, 1/a/1393:1395 | Single bulged A | geometric IL_5J7L_039 NA | |
| IL_9IOT_148 | 1/a/925:927, 1/a/1390:1391 | Single bulged G | geometric IL_5J7L_040 NA | |
| IL_9IOT_149 | 1/a/933:935, 1/a/1380:1384 | Minor groove platform | geometric IL_5J7L_041 NA | |
| IL_9IOT_150 | 1/a/953:954, 1/a/1226:1228 | Minor groove platform | geometric IL_8CRE_447 IL_34520.1 | |
| IL_9IOT_151 | 1/a/993:997, 1/a/1044:1045 | Minor groove platform | geometric IL_5J7L_043 NA | |
| IL_9IOT_152 | 1/a/998:999, 1/a/1041:1043 | Single stack bend | geometric IL_7A0S_054 IL_15011.1 | |
| IL_9IOT_153 | 1/a/1003:1006, 1/a/1023:1037 | No text annotation | ||
| IL_9IOT_154 | 1/a/1048:1050, 1/a/1208:1209 | Single bulged U | geometric IL_5J7L_046 NA | |
| IL_9IOT_155 | 1/a/1052:1056, 1/a/1204:1206 | Isolated cWS basepair | geometric IL_4LFB_044 IL_82453.1 | |
| IL_9IOT_156 | 1/a/1057:1058, 1/a/1199:1203 | Minor groove platform | geometric IL_5J7L_048 NA | |
| IL_9IOT_157 | 1/a/1060:1061, 1/a/1195:1197 | Single bulged A | geometric IL_5J7L_049 NA | |
| IL_9IOT_158 | 1/a/1061:1063, 1/a/1193:1195 | Isolated non-canonical cWW pair | geometric IL_4LFB_047 IL_68118.1 | |
| IL_9IOT_159 | 1/a/1124:1128, 1/a/1144:1149 | No text annotation | geometric IL_5J7L_051 NA | |
| IL_9IOT_160 | 1/a/1129:1132, 1/a/1142:1143 | Minor groove platform | geometric IL_5J7L_052 NA | |
| IL_9IOT_161 | 1/a/1158:1161, 1/a/1175:1181 | No text annotation | geometric IL_5J7L_053 NA | |
| IL_9IOT_162 | 1/a/1247:1253, 1/a/1284:1290 | No text annotation | geometric IL_5J7L_054 NA | |
| IL_9IOT_163 | 1/a/1255:1258, 1/a/1277:1282 | 180 degree turn | geometric IL_5J7L_055 NA | |
| IL_9IOT_164 | 1/a/1259:1263, 1/a/1272:1276 | Double sheared with non-canonical cWW | geometric IL_5J7L_056 NA | |
| IL_9IOT_165 | 1/a/1303:1308, 1/a/1329:1334 | No text annotation | geometric IL_4LFB_055 IL_57885.1 | |
| IL_9IOT_166 | 1/a/1399:1401, 1/a/1501:1504 | No text annotation | geometric IL_5J7L_058 NA | |
| IL_9IOT_167 | 1/a/1401:1404, 1/a/1497:1501 | No text annotation | geometric IL_5J7L_059 NA | |
| IL_9IOT_168 | 1/a/1405:1407, 1/a/1494:1496 | Isolated non-canonical cWW pair | geometric IL_5J7L_363 NA | |
| IL_9IOT_169 | 1/a/1407:1409, 1/a/1491:1494 | Decoding loop related | geometric IL_2O3X_002 IL_29925.1 | |
| IL_9IOT_170 | 1/a/1412:1414, 1/a/1486:1488 | Isolated non-canonical cWW pair | geometric IL_4LFB_059 IL_01003.1 | |
| IL_9IOT_171 | 1/a/1416:1419, 1/a/1481:1484 | Double sheared | geometric IL_5J7L_062 NA | |
| IL_9IOT_172 | 1/a/1430:1435, 1/a/1466:1470 | Triple sheared related | geometric IL_5J7L_063 NA | |
| IL_9IOT_173 | 1/a/1440:1442, 1/a/1460:1461 | Minor groove platform | geometric IL_8P9A_433 IL_34520.1 | |
| IL_9IOT_174 | 1/a/1445:1448, 1/a/1455:1457 | No text annotation | geometric IL_5J7L_065 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9IOT_009 | No text annotation | ||
| IL_9IOT_031 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9IOT_001 | 1/A/30:31, 1/A/474:481, 1/A/509:510 | No text annotation | geometric J3_5J7L_036 NA | |
| J3_9IOT_002 | 1/A/30:31, 1/A/474:484, 1/A/496:510 | No text annotation | geometric J3_5J7L_066 NA | |
| J3_9IOT_003 | 1/A/32:35, 1/A/445:461, 1/A/468:473 | No text annotation | geometric J3_5J7L_067 NA | |
| J3_9IOT_004 | 1/A/56:57, 1/A/70:76, 1/A/110:114 | No text annotation | geometric J3_5J7L_037 NA | |
| J3_9IOT_005 | 1/A/297:301, 1/A/316:325, 1/A/337:341 | No text annotation | geometric J3_5J7L_068 NA | |
| J3_9IOT_006 | 1/A/683:689, 1/A/773:775, 1/A/791:794 | No text annotation | geometric J3_5J7L_038 NA | |
| J3_9IOT_007 | 1/A/698:700, 1/A/732:736, 1/A/760:763 | No text annotation | geometric J3_5J7L_039 NA | |
| J3_9IOT_008 | 1/A/1298:1303, 1/A/1625:1627, 1/A/1639:1642 | No text annotation | geometric J3_5J7L_041 NA | |
| J3_9IOT_009 | 1/A/1306:1309, 1/A/1605:1611, 1/A/1620:1622 | No text annotation | geometric J3_7A0S_007 J3_47341.1 | |
| J3_9IOT_010 | 1/A/1344:1349, 1/A/1382:1385, 1/A/1402:1403 | No text annotation | geometric J3_5J7L_043 NA | |
| J3_9IOT_011 | 1/A/1424:1429, 1/A/1564:1565, 1/A/1568:1574 | No text annotation | geometric J3_5J7L_069 NA | |
| J3_9IOT_012 | 1/A/2091:2093, 1/A/2196:2200, 1/A/2223:2228 | Kink-turn 3-way junction | geometric J3_5J7L_044 NA | |
| J3_9IOT_013 | 1/A/2282:2284, 1/A/2384:2395, 1/A/2421:2427 | No text annotation | geometric J3_5J7L_070 NA | |
| J3_9IOT_014 | 1/A/2295:2297, 1/A/2321:2323, 1/A/2332:2337 | No text annotation | geometric J3_5J7L_045 NA | |
| J3_9IOT_015 | 1/A/2295:2299, 1/A/2317:2323, 1/A/2332:2337 | No text annotation | geometric J3_5J7L_071 NA | |
| J3_9IOT_016 | 1/A/2517:2520, 1/A/2545:2547, 1/A/2561:2567 | No text annotation | geometric J3_5J7L_046 NA | |
| J3_9IOT_017 | 1/A/2789:2791, 1/A/2805:2806, 1/A/2892:2894 | No text annotation | geometric J3_5J7L_047 NA | |
| J3_9IOT_018 | 1/A/2812:2815, 1/A/2831:2836, 1/A/2882:2888 | No text annotation | ||
| J3_9IOT_019 | 1/B/10:16, 1/B/68:70, 1/B/106:110 | No text annotation | geometric J3_5J7L_049 NA | |
| J3_9IOT_020 | 1/a/46:47, 1/a/361:367, 1/a/393:395 | No text annotation | geometric J3_5J7L_001 NA | |
| J3_9IOT_021 | 1/a/46:52, 1/a/359:367, 1/a/393:395 | No text annotation | ||
| J3_9IOT_022 | 1/a/586:588, 1/a/651:654, 1/a/754:755 | No text annotation | geometric J3_4LFB_011 J3_01633.1 | |
| J3_9IOT_023 | 1/a/586:588, 1/a/651:655, 1/a/751:755 | No text annotation | geometric J3_4LFB_015 J3_17385.5 | |
| J3_9IOT_024 | 1/a/672:673, 1/a/717:725, 1/a/732:734 | No text annotation | geometric J3_5J7L_003 NA | |
| J3_9IOT_025 | 1/a/826:829, 1/a/857:861, 1/a/868:874 | No text annotation | geometric J3_5J7L_004 NA | |
| J3_9IOT_026 | 1/a/936:939, 1/a/1344:1350, 1/a/1372:1379 | No text annotation | geometric J3_5J7L_052 NA | |
| J3_9IOT_027 | 1/a/943:946, 1/a/1235:1237, 1/a/1337:1340 | No text annotation | geometric J3_4LFB_003 J3_44359.1 | |
| J3_9IOT_028 | 1/a/955:962, 1/a/973:984, 1/a/1221:1225 | No text annotation | geometric J3_4LFB_004 J3_88451.1 | |
| J3_9IOT_029 | 1/a/990:993, 1/a/1045:1047, 1/a/1210:1215 | No text annotation | ||
| J3_9IOT_030 | 1/a/990:997, 1/a/1044:1047, 1/a/1210:1215 | No text annotation | ||
| J3_9IOT_031 | 1/a/1063:1068, 1/a/1107:1113, 1/a/1187:1193 | No text annotation | geometric J3_5J7L_008 NA | |
| J3_9IOT_032 | 1/a/1073:1074, 1/a/1083:1086, 1/a/1099:1102 | No text annotation | geometric J3_4LFB_017 J3_11018.1 | |
| J3_9IOT_033 | 1/a/1116:1118, 1/a/1155:1158, 1/a/1181:1184 | No text annotation | geometric J3_5J7L_010 NA | |
| J3_9IOT_034 | 1/a/1116:1118, 1/a/1155:1161, 1/a/1175:1184 | No text annotation | geometric J3_5J7L_054 NA | |
| J3_9IOT_035 | 1/a/1237:1241, 1/a/1296:1303, 1/a/1334:1337 | No text annotation | geometric J3_4LFB_009 J3_03192.1 | |
| J4_9IOT_001 | 1/A/268:269, 1/A/370:375, 1/A/399:406, 1/A/421:424 | No text annotation | ||
| J4_9IOT_002 | 1/A/297:301, 1/A/316:319, 1/A/323:325, 1/A/337:341 | No text annotation | ||
| J4_9IOT_003 | 1/A/601:604, 1/A/624:628, 1/A/635:638, 1/A/650:656 | No text annotation | ||
| J4_9IOT_004 | 1/A/1270:1276, 1/A/1294:1295, 1/A/1645:1648, 1/A/2009:2010 | No text annotation | ||
| J4_9IOT_005 | 1/A/1310:1314, 1/A/1338:1343, 1/A/1404:1405, 1/A/1597:1604 | No text annotation | ||
| J4_9IOT_006 | 1/A/1313:1314, 1/A/1338:1343, 1/A/1404:1405, 1/A/1597:1603 | No text annotation | ||
| J4_9IOT_007 | 1/A/1444:1445, 1/A/1466:1467, 1/A/1525:1526, 1/A/1546:1547 | No text annotation | ||
| J4_9IOT_008 | 1/A/1772:1776, 1/A/1788:1792, 1/A/1827:1830, 1/A/1975:1979 | No text annotation | ||
| J4_9IOT_009 | 1/A/1833:1835, 1/A/1905:1906, 1/A/1924:1933, 1/A/1967:1972 | No text annotation | ||
| J4_9IOT_010 | 1/A/2285:2289, 1/A/2343:2347, 1/A/2370:2372, 1/A/2381:2383 | No text annotation | ||
| J4_9IOT_011 | 1/A/2643:2646, 1/A/2674:2676, 1/A/2731:2735, 1/A/2769:2771 | No text annotation | ||
| J4_9IOT_012 | 1/a/115:122, 1/a/239:240, 1/a/286:289, 1/a/311:312 | No text annotation | ||
| J4_9IOT_013 | 1/a/142:146, 1/a/176:184, 1/a/193:198, 1/a/219:221 | No text annotation | ||
| J4_9IOT_014 | 1/a/575:577, 1/a/764:769, 1/a/810:821, 1/a/879:880 | No text annotation | ||
| J5_9IOT_001 | 1/A/47:54, 1/A/116:121, 1/A/130:131, 1/A/148:150, 1/A/176:178 | No text annotation | ||
| J5_9IOT_002 | 1/A/531:533, 1/A/560:564, 1/A/577:579, 1/A/1261:1262, 1/A/2017:2018 | No text annotation | ||
| J5_9IOT_003 | 1/A/584:589, 1/A/668:671, 1/A/809:812, 1/A/1195:1196, 1/A/1250:1256 | No text annotation | ||
| J5_9IOT_004 | 1/A/1674:1682, 1/A/1706:1707, 1/A/1751:1752, 1/A/1756:1764, 1/A/1988:1990 | No text annotation | ||
| J5_9IOT_005 | 1/A/2057:2064, 1/A/2446:2453, 1/A/2500:2506, 1/A/2583:2588, 1/A/2606:2611 | No text annotation | ||
| J5_9IOT_006 | 1/A/2074:2077, 1/A/2243:2246, 1/A/2258:2259, 1/A/2281:2282, 1/A/2427:2435 | No text annotation | ||
| J5_9IOT_007 | 1/a/36:39, 1/a/403:406, 1/a/436:440, 1/a/497:500, 1/a/545:548 | No text annotation | ||
| J5_9IOT_008 | 1/a/36:39, 1/a/403:406, 1/a/436:442, 1/a/492:500, 1/a/545:548 | No text annotation | ||
| J5_9IOT_009 | 1/a/58:61, 1/a/106:113, 1/a/314:316, 1/a/337:339, 1/a/350:354 | No text annotation | ||
| J6_9IOT_001 | 1/A/45:46, 1/A/179:183, 1/A/214:224, 1/A/231:235, 1/A/262:266, 1/A/426:433 | No text annotation | ||
| J6_9IOT_002 | 1/A/2074:2077, 1/A/2243:2246, 1/A/2258:2259, 1/A/2281:2284, 1/A/2384:2395, 1/A/2421:2435 | No text annotation | ||
| J7_9IOT_001 | 1/A/8:15, 1/A/525:531, 1/A/2018:2023, 1/A/2040:2043, 1/A/2625:2630, 1/A/2788:2789, 1/A/2894:2895 | No text annotation | ||
| J7_9IOT_002 | 1/A/817:822, 1/A/835:838, 1/A/940:946, 1/A/971:976, 1/A/987:991, 1/A/1163:1164, 1/A/1185:1190 | No text annotation |
Problematic loops
No problematic loops
Coloring options: