6O9J Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6O9J_002 | 1/A/86:90 | Mini UNCG | homologous HL_5J7L_204 NA | |
| HL_6O9J_003 | 1/B/59:68 | No text annotation | homologous HL_7RQB_001 NA | |
| HL_6O9J_005 | 1/B/123:128 | No text annotation | homologous HL_4WF9_003 HL_75660.6 | |
| HL_6O9J_008 | 1/B/194:201 | No text annotation | geometric HL_4WF9_006 HL_48677.1 | |
| HL_6O9J_009 | 1/B/225:230 | No text annotation | homologous HL_5J7L_140 NA | |
| HL_6O9J_010 | 1/B/246:252 | No text annotation | homologous HL_4WF9_008 HL_76371.1 | |
| HL_6O9J_011 | 1/B/305:312 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_142 NA | |
| HL_6O9J_012 | 1/B/319:323 | No text annotation | homologous HL_7A0S_011 HL_75660.6 | |
| HL_6O9J_013 | 1/B/327:335 | T-loop with unstacked turn | homologous HL_7RQB_012 NA | |
| HL_6O9J_014 | 1/B/382:392 | No text annotation | homologous HL_5J7L_145 NA | |
| HL_6O9J_015 | 1/B/410:417 | Pseudoknot geometry | homologous HL_5J7L_146 NA | |
| HL_6O9J_016 | 1/B/462:467 | GNRA | homologous HL_5J7L_147 NA | |
| HL_6O9J_017 | 1/B/487:493 | GNRA | homologous HL_5J7L_148 NA | |
| HL_6O9J_019 | 1/B/566:575 | T-loop with 2 stacked bulged bases | geometric HL_5J7L_150 NA | |
| HL_6O9J_021 | 1/B/629:634 | GNRA | homologous HL_5J7L_152 NA | |
| HL_6O9J_024 | 1/B/744:753 | No text annotation | homologous HL_4WF9_023 HL_50204.1 | |
| HL_6O9J_025 | 1/B/779:785 | UNCG variation | homologous HL_7A0S_023 HL_51020.1 | |
| HL_6O9J_026 | 1/B/826:831 | No text annotation | homologous HL_7RQB_025 NA | |
| HL_6O9J_028 | 1/B/955:962 | GNRA | homologous HL_4WF9_027 HL_34789.1 | |
| HL_6O9J_029 | 1/B/978:985 | No text annotation | homologous HL_7A0S_027 HL_47171.1 | |
| HL_6O9J_034 | 1/B/1281:1289 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_165 NA | |
| HL_6O9J_035 | 1/B/1324:1330 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_166 NA | |
| HL_6O9J_036 | 1/B/1363:1368 | GNRA | homologous HL_5J7L_167 NA | |
| HL_6O9J_037 | 1/B/1389:1398 | No text annotation | homologous HL_5J7L_168 NA | |
| HL_6O9J_038 | 1/B/1449:1462 | No text annotation | ||
| HL_6O9J_041 | 1/B/1565:1568 | No text annotation | homologous HL_7RQB_039 NA | |
| HL_6O9J_042 | 1/B/1612:1619 | No text annotation | homologous HL_7RQB_040 NA | |
| HL_6O9J_043 | 1/B/1630:1636 | GNRA | homologous HL_5J7L_174 NA | |
| HL_6O9J_044 | 1/B/1691:1696 | UNCG | homologous HL_5J7L_175 NA | |
| HL_6O9J_047 | 1/B/1777:1787 | No text annotation | homologous HL_4WF9_043 HL_87681.1 | |
| HL_6O9J_048 | 1/B/1806:1811 | GNRA related | homologous HL_5J7L_179 NA | |
| HL_6O9J_050 | 1/B/1910:1920 | No text annotation | geometric HL_5TBW_049 NA | |
| HL_6O9J_051 | 1/B/1949:1957 | No text annotation | homologous HL_7RQB_049 NA | |
| HL_6O9J_052 | 1/B/2027:2036 | No text annotation | homologous HL_4WF9_047 HL_78372.1 | |
| HL_6O9J_054 | 1/B/2209:2215 | No text annotation | homologous HL_4WF9_048 HL_81964.1 | |
| HL_6O9J_055 | 1/B/2248:2256 | No text annotation | homologous HL_5J7L_186 NA | |
| HL_6O9J_056 | 1/B/2264:2276 | No text annotation | homologous HL_5J7L_187 NA | |
| HL_6O9J_059 | 1/B/2356:2361 | GNRA | homologous HL_5J7L_190 NA | |
| HL_6O9J_060 | 1/B/2374:2379 | GNRA | homologous HL_5J7L_191 NA | |
| HL_6O9J_061 | 1/B/2404:2413 | No text annotation | homologous HL_5J7L_192 NA | |
| HL_6O9J_062 | 1/B/2471:2479 | No text annotation | homologous HL_5J7L_193 NA | |
| HL_6O9J_063 | 1/B/2528:2535 | GNRA variation | homologous HL_5J7L_194 NA | |
| HL_6O9J_064 | 1/B/2551:2557 | No text annotation | homologous HL_4WF9_058 HL_48677.1 | |
| HL_6O9J_065 | 1/B/2594:2599 | GNRA | homologous HL_5J7L_196 NA | |
| HL_6O9J_067 | 1/B/2701:2706 | Ribsomal LSU H95 | homologous HL_5J7L_198 NA | |
| HL_6O9J_070 | 1/B/2819:2827 | No text annotation | homologous HL_5J7L_201 NA | |
| HL_6O9J_071 | 1/B/2856:2861 | GNRA | homologous HL_5J7L_202 NA | |
| HL_6O9J_072 | 1/a/12:22 | No text annotation | homologous HL_5J7L_001 NA | |
| HL_6O9J_077 | 1/a/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_6O9J_078 | 1/a/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_6O9J_079 | 1/a/320:333 | No text annotation | homologous HL_5J7L_008 NA | |
| HL_6O9J_080 | 1/a/342:347 | UNCG | homologous HL_4LFB_009 HL_61337.1 | |
| HL_6O9J_084 | 1/a/522:527 | No text annotation | geometric HL_5J7L_143 NA | |
| HL_6O9J_085 | 1/a/617:623 | GNRA-like with tWH | homologous HL_5J7L_014 NA | |
| HL_6O9J_086 | 1/a/689:698 | No text annotation | homologous HL_5J7L_015 NA | |
| HL_6O9J_088 | 1/a/786:796 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_6O9J_090 | 1/a/862:867 | GNRA | homologous HL_4LFB_019 HL_34789.1 | |
| HL_6O9J_091 | 1/a/897:902 | GNRA | homologous HL_4LFB_020 HL_34789.1 | |
| HL_6O9J_095 | 1/a/1076:1081 | GNRA | homologous HL_5J7L_023 NA | |
| HL_6O9J_103 | 1/a/1515:1520 | GNRA | homologous HL_4LFB_032 HL_34789.1 | |
| HL_6O9J_105 | 1/v/31:39 | tRNA anticodon loop | homologous HL_4TUE_034 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6O9J_107 | No text annotation | ||
| HL_6O9J_001 | No text annotation | ||
| HL_6O9J_004 | No text annotation | ||
| HL_6O9J_006 | No text annotation | ||
| HL_6O9J_007 | No text annotation | ||
| HL_6O9J_018 | No text annotation | ||
| HL_6O9J_020 | No text annotation | ||
| HL_6O9J_022 | GNRA | ||
| HL_6O9J_023 | GNRA wlth tandem sheared | ||
| HL_6O9J_027 | Externally structured | ||
| HL_6O9J_030 | No text annotation | ||
| HL_6O9J_031 | GNRA wlth tandem sheared | ||
| HL_6O9J_032 | No text annotation | ||
| HL_6O9J_033 | GNRA | ||
| HL_6O9J_039 | Pseudoknot geometry with 3' bulge | ||
| HL_6O9J_040 | UNCG | ||
| HL_6O9J_045 | No text annotation | ||
| HL_6O9J_046 | No text annotation | ||
| HL_6O9J_049 | GNRA variation | ||
| HL_6O9J_053 | No text annotation | ||
| HL_6O9J_057 | No text annotation | ||
| HL_6O9J_109 | No text annotation | ||
| HL_6O9J_058 | Pseudoknot geometry | ||
| HL_6O9J_066 | GNRA | ||
| HL_6O9J_068 | No text annotation | ||
| HL_6O9J_069 | Externally structured | ||
| HL_6O9J_073 | No text annotation | ||
| HL_6O9J_074 | GNRA | ||
| HL_6O9J_075 | GNRA | ||
| HL_6O9J_076 | UNCG | ||
| HL_6O9J_081 | GNRA | ||
| HL_6O9J_082 | UNCG | ||
| HL_6O9J_083 | No text annotation | ||
| HL_6O9J_087 | GNRA | ||
| HL_6O9J_089 | No text annotation | ||
| HL_6O9J_092 | No text annotation | ||
| HL_6O9J_093 | GNRA | ||
| HL_6O9J_094 | No text annotation | ||
| HL_6O9J_096 | T-loop related | ||
| HL_6O9J_097 | No text annotation | ||
| HL_6O9J_098 | GNRA | ||
| HL_6O9J_099 | GNRA | ||
| HL_6O9J_100 | T-loop with 3 stacked bulged bases | ||
| HL_6O9J_101 | No text annotation | ||
| HL_6O9J_102 | UNCG | ||
| HL_6O9J_104 | No text annotation | ||
| HL_6O9J_108 | No text annotation | ||
| HL_6O9J_106 | T-loop with 2 stacked bulged bases |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6O9J_005 | 1/A/71:79, 1/A/97:105 | Bacterial 5S Loop E | homologous IL_5J7L_359 NA | |
| IL_6O9J_006 | 1/B/24:30, 1/B/510:516 | Triple sheared with non-canonical cWW | geometric IL_5J7L_245 NA | |
| IL_6O9J_007 | 1/B/36:37, 1/B/442:444 | Single bulged A | homologous IL_7A0S_002 IL_14190.1 | |
| IL_6O9J_010 | 1/B/183:184, 1/B/212:214 | Single stack bend | homologous IL_5J7L_249 NA | |
| IL_6O9J_011 | 1/B/188:194, 1/B/201:208 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_250 NA | |
| IL_6O9J_012 | 1/B/239:245, 1/B/253:258 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5J7L_251 NA | |
| IL_6O9J_013 | 1/B/269:271, 1/B/366:370 | No text annotation | homologous IL_5J7L_252 NA | |
| IL_6O9J_016 | 1/B/481:484, 1/B/496:509 | No text annotation | homologous IL_5J7L_255 NA | |
| IL_6O9J_017 | 1/B/536:539, 1/B/554:557 | Double sheared | homologous IL_5J7L_256 NA | |
| IL_6O9J_018 | 1/B/564:566, 1/B/575:577 | Isolated non-canonical cWW pair | homologous IL_4WF9_017 IL_71625.1 | |
| IL_6O9J_019 | 1/B/606:610, 1/B/618:622 | AAA cross-strand stack | homologous IL_5J7L_258 NA | |
| IL_6O9J_020 | 1/B/672:674, 1/B/806:808 | Isolated non-canonical cWW pair | geometric IL_5J7L_259 NA | |
| IL_6O9J_021 | 1/B/674:678, 1/B/799:806 | tHW-tHW cross-strand stack | homologous IL_5J7L_260 NA | |
| IL_6O9J_022 | 1/B/697:698, 1/B/763:765 | Single bulged A | homologous IL_5J7L_261 NA | |
| IL_6O9J_023 | 1/B/702:703, 1/B/728:730 | Single bulged G | homologous IL_5J7L_262 NA | |
| IL_6O9J_024 | 1/B/703:707, 1/B/724:728 | Triple sheared | geometric IL_5J7L_263 NA | |
| IL_6O9J_025 | 1/B/738:740, 1/B/757:758 | Major groove platform | homologous IL_5J7L_264 NA | |
| IL_6O9J_026 | 1/B/775:777, 1/B/787:791 | Multiple bulged bases | homologous IL_5J7L_265 NA | |
| IL_6O9J_027 | 1/B/837:838, 1/B/940:942 | Single stack bend | homologous IL_4WF9_028 IL_15011.1 | |
| IL_6O9J_028 | 1/B/844:848, 1/B/930:934 | No text annotation | homologous IL_5J7L_399 NA | |
| IL_6O9J_029 | 1/B/850:851, 1/B/926:928 | Single stack bend | homologous IL_5J7L_269 NA | |
| IL_6O9J_031 | 1/B/858:862, 1/B/915:919 | 5x5 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_4V9F_033 IL_38862.5 | |
| IL_6O9J_032 | 1/B/862:863, 1/B/913:915 | Single bulged G | homologous IL_5J7L_271 NA | |
| IL_6O9J_033 | 1/B/864:868, 1/B/909:912 | C-loop with bulged stacked A's | homologous IL_5J7L_272 NA | |
| IL_6O9J_034 | 1/B/870:872, 1/B/905:907 | Isolated non-canonical cWW pair | homologous IL_5J7L_273 NA | |
| IL_6O9J_035 | 1/B/994:996, 1/B/1159:1160 | Single bulged C | homologous IL_7RQB_035 NA | |
| IL_6O9J_036 | 1/B/998:1002, 1/B/1153:1157 | UAA/GAN | homologous IL_4WF9_036 IL_08938.1 | |
| IL_6O9J_037 | 1/B/1004:1011, 1/B/1150:1151 | SSU/LSU pseudoknot | geometric IL_5J7L_278 NA | |
| IL_6O9J_038 | 1/B/1011:1013, 1/B/1149:1150 | Single bulged U | homologous IL_5J7L_279 NA | |
| IL_6O9J_039 | 1/B/1018:1024, 1/B/1140:1144 | Kink-turn related | geometric IL_4WF9_039 IL_57188.6 | |
| IL_6O9J_040 | 1/B/1024:1030, 1/B/1124:1140 | No text annotation | geometric IL_5J7L_281 NA | |
| IL_6O9J_041 | 1/B/1031:1034, 1/B/1121:1123 | Isolated non-canonical cWW pair | homologous IL_5J7L_282 NA | |
| IL_6O9J_046 | 1/B/1196:1198, 1/B/1247:1250 | Isolated cWS basepair | homologous IL_5J7L_286 NA | |
| IL_6O9J_047 | 1/B/1202:1206, 1/B/1240:1243 | No text annotation | homologous IL_5J7L_287 NA | |
| IL_6O9J_048 | 1/B/1208:1215, 1/B/1234:1238 | Kink-turn | homologous IL_5J7L_288 NA | |
| IL_6O9J_049 | 1/B/1262:1269, 1/B/2011:2017 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 NA | |
| IL_6O9J_050 | 1/B/1310:1313, 1/B/1603:1604 | Major groove platform; stack outside cWW | homologous IL_7RQB_050 NA | |
| IL_6O9J_051 | 1/B/1319:1323, 1/B/1331:1333 | C-loop | homologous IL_5J7L_291 NA | |
| IL_6O9J_052 | 1/B/1351:1355, 1/B/1376:1380 | UAA/GAN | homologous IL_5J7L_292 NA | |
| IL_6O9J_053 | 1/B/1357:1361, 1/B/1370:1374 | tSH-tHW-tHS | homologous IL_5J7L_293 NA | |
| IL_6O9J_056 | 1/B/1432:1435, 1/B/1557:1561 | Tandem non-canonical cWW pairs | homologous IL_5J7L_296 NA | |
| IL_6O9J_057 | 1/B/1437:1440, 1/B/1551:1555 | No text annotation | ||
| IL_6O9J_058 | 1/B/1468:1471, 1/B/1520:1524 | No text annotation | homologous IL_5J7L_299 NA | |
| IL_6O9J_062 | 1/B/1526:1529, 1/B/1542:1546 | UAA/GAN variation | homologous IL_5J7L_303 NA | |
| IL_6O9J_063 | 1/B/1651:1656, 1/B/2004:2006 | No text annotation | homologous IL_5J7L_304 NA | |
| IL_6O9J_064 | 1/B/1663:1665, 1/B/1995:1997 | Isolated tWW turn | homologous IL_5J7L_305 NA | |
| IL_6O9J_065 | 1/B/1666:1669, 1/B/1993:1994 | Major groove platform; stack outside cWW | homologous IL_7RQB_066 NA | |
| IL_6O9J_178 | 1/B/1666:1674, 1/B/1990:1994 | No text annotation | homologous IL_5J7L_386 NA | |
| IL_6O9J_066 | 1/B/1669:1674, 1/B/1990:1993 | Intercalated tWH | geometric IL_5J7L_307 NA | |
| IL_6O9J_067 | 1/B/1686:1691, 1/B/1696:1702 | tSH-tSH-tHH-tHS | geometric IL_5J7L_308 NA | |
| IL_6O9J_068 | 1/B/1712:1718, 1/B/1742:1746 | 6x5 Sarcin-Ricin; G-bulge | homologous IL_5J7L_309 NA | |
| IL_6O9J_071 | 1/B/1770:1771, 1/B/1980:1982 | Single bulged A | homologous IL_5J7L_312 NA | |
| IL_6O9J_072 | 1/B/1798:1804, 1/B/1813:1821 | Kink-turn related | homologous IL_5J7L_313 NA | |
| IL_6O9J_073 | 1/B/1837:1840, 1/B/1902:1903 | Minor groove platform, major groove intercalation | homologous IL_5J7L_314 NA | |
| IL_6O9J_074 | 1/B/1841:1842, 1/B/1898:1901 | Major groove intercalation | homologous IL_5J7L_315 NA | |
| IL_6O9J_075 | 1/B/1846:1849, 1/B/1893:1894 | Minor groove platform | homologous IL_7RQB_073 NA | |
| IL_6O9J_179 | 1/B/1851:1860, 1/B/1882:1891 | No text annotation | homologous IL_5J7L_387 NA | |
| IL_6O9J_077 | 1/B/1933:1934, 1/B/1964:1967 | Bulged stacked bases | homologous IL_5J7L_318 NA | |
| IL_6O9J_078 | 1/B/1934:1945, 1/B/1961:1964 | No text annotation | geometric IL_7A0S_072 IL_04332.3 | |
| IL_6O9J_079 | 1/B/2050:2052, 1/B/2617:2618 | Major groove platform | homologous IL_5J7L_320 NA | |
| IL_6O9J_080 | 1/B/2054:2056, 1/B/2612:2615 | No text annotation | homologous IL_5J7L_321 NA | |
| IL_6O9J_082 | 1/B/2070:2071, 1/B/2438:2441 | Minor groove platform | homologous IL_5J7L_324 NA | |
| IL_6O9J_083 | 1/B/2081:2083, 1/B/2236:2239 | Isolated tHS basepair with bulges | homologous IL_5J7L_325 NA | |
| IL_6O9J_084 | 1/B/2085:2087, 1/B/2232:2234 | Isolated non-canonical cWW pair | homologous IL_5J7L_326 NA | |
| IL_6O9J_087 | 1/B/2202:2204, 1/B/2220:2221 | Single bulged U | homologous IL_5J7L_331 NA | |
| IL_6O9J_088 | 1/B/2350:2353, 1/B/2364:2367 | Double sheared | homologous IL_5J7L_333 NA | |
| IL_6O9J_090 | 1/B/2453:2454, 1/B/2498:2500 | Single stack bend | homologous IL_4WF9_089 IL_15011.1 | |
| IL_6O9J_091 | 1/B/2454:2455, 1/B/2496:2498 | Major groove platform | geometric IL_7RQB_092 NA | |
| IL_6O9J_092 | 1/B/2457:2459, 1/B/2493:2494 | Major groove platform | homologous IL_4WF9_091 IL_48076.7 | |
| IL_6O9J_093 | 1/B/2459:2461, 1/B/2489:2493 | Major groove minor groove platform with extra cWW | geometric IL_5J7L_337 NA | |
| IL_6O9J_094 | 1/B/2466:2470, 1/B/2480:2484 | Double sheared with non-canonical cWW | homologous IL_5J7L_338 NA | |
| IL_6O9J_095 | 1/B/2507:2508, 1/B/2580:2582 | Major groove platform | homologous IL_4WF9_094 IL_46637.1 | |
| IL_6O9J_096 | 1/B/2510:2512, 1/B/2574:2578 | Isolated non-canonical cWW with bulges | homologous IL_5J7L_340 NA | |
| IL_6O9J_097 | 1/B/2512:2513, 1/B/2571:2574 | No text annotation | geometric IL_5J7L_341 NA | |
| IL_6O9J_098 | 1/B/2522:2523, 1/B/2540:2543 | Major groove platform with intercalation | homologous IL_5J7L_342 NA | |
| IL_6O9J_100 | 1/B/2636:2640, 1/B/2774:2782 | tSH-tHS-tHW | homologous IL_5J7L_345 NA | |
| IL_6O9J_102 | 1/B/2680:2684, 1/B/2725:2727 | C-loop | homologous IL_5J7L_347 NA | |
| IL_6O9J_103 | 1/B/2687:2691, 1/B/2718:2722 | UAA/GAN related, with intercalation | homologous IL_5J7L_348 NA | |
| IL_6O9J_104 | 1/B/2695:2696, 1/B/2711:2714 | Multiple bulged bases | homologous IL_5J7L_349 NA | |
| IL_6O9J_105 | 1/B/2737:2742, 1/B/2762:2767 | UAA/GAN with extra cWW | homologous IL_5J7L_350 NA | |
| IL_6O9J_106 | 1/B/2806:2811, 1/B/2889:2892 | No text annotation | homologous IL_5J7L_351 NA | |
| IL_6O9J_108 | 1/B/2843:2846, 1/B/2870:2874 | Multiple bulged bases with non-canonical cWW | homologous IL_5J7L_353 NA | |
| IL_6O9J_109 | 1/B/2847:2852, 1/B/2865:2869 | No text annotation | homologous IL_7A0S_101 IL_48489.1 | |
| IL_6O9J_110 | 1/a/30:32, 1/a/552:553 | Single bulged G | homologous IL_5J7L_001 NA | |
| IL_6O9J_111 | 1/a/44:45, 1/a/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_6O9J_112 | 1/a/47:52, 1/a/359:361 | No text annotation | homologous IL_5J7L_003 NA | |
| IL_6O9J_113 | 1/a/54:56, 1/a/356:357 | Minor groove platform | homologous IL_5J7L_004 NA | |
| IL_6O9J_114 | 1/a/63:66, 1/a/103:104 | Multiple bulged bases | homologous IL_5J7L_005 NA | |
| IL_6O9J_119 | 1/a/132:136, 1/a/227:230 | Minor groove platform related | homologous IL_5J7L_010 NA | |
| IL_6O9J_124 | 1/a/249:252, 1/a/274:275 | No text annotation | homologous IL_5J7L_015 NA | |
| IL_6O9J_125 | 1/a/292:293, 1/a/304:308 | C-loop | homologous IL_6CZR_125 NA | |
| IL_6O9J_126 | 1/a/367:369, 1/a/392:393 | Single bulged U | geometric IL_5J7L_017 NA | |
| IL_6O9J_127 | 1/a/371:375, 1/a/389:390 | C-loop | geometric IL_4LFB_015 IL_26900.1 | |
| IL_6O9J_128 | 1/a/375:376, 1/a/387:389 | Single bulged G | homologous IL_5J7L_019 NA | |
| IL_6O9J_132 | 1/a/450:454, 1/a/479:483 | No text annotation | ||
| IL_6O9J_136 | 1/a/504:511, 1/a/540:541 | SSU/LSU pseudoknot | homologous IL_5J7L_024 NA | |
| IL_6O9J_137 | 1/a/515:521, 1/a/528:536 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_6O9J_138 | 1/a/569:575, 1/a/880:881 | No text annotation | homologous IL_5J7L_026 NA | |
| IL_6O9J_139 | 1/a/580:584, 1/a/757:761 | tSH-tHW-tHS | homologous IL_5J7L_027 NA | |
| IL_6O9J_141 | 1/a/597:598, 1/a/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_5J7L_029 NA | |
| IL_6O9J_142 | 1/a/605:612, 1/a/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_6O9J_143 | 1/a/654:655, 1/a/751:754 | Major groove platform; stack outside cWW | homologous IL_5J7L_031 NA | |
| IL_6O9J_145 | 1/a/662:666, 1/a/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_6O9J_181 | 1/a/673:677, 1/a/713:717 | Triple non-canonical cWW pairs | homologous IL_4LFB_065 IL_71154.1 | |
| IL_6O9J_147 | 1/a/684:688, 1/a/699:706 | Kink-turn | homologous IL_5J7L_035 NA | |
| IL_6O9J_148 | 1/a/774:778, 1/a/804:805 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_6O9J_149 | 1/a/779:783, 1/a/799:803 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_6O9J_150 | 1/a/887:894, 1/a/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_6O9J_151 | 1/a/922:923, 1/a/1393:1395 | Single bulged A | homologous IL_5J7L_039 NA | |
| IL_6O9J_169 | 1/a/1399:1401, 1/a/1501:1504 | No text annotation | geometric IL_5J7L_058 NA | |
| IL_6O9J_170 | 1/a/1401:1404, 1/a/1497:1501 | No text annotation | geometric IL_4V88_464 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6O9J_001 | Major groove intercalation | ||
| IL_6O9J_002 | No text annotation | ||
| IL_6O9J_003 | Minor groove platform | ||
| IL_6O9J_004 | Symmetric double minor groove platform | ||
| IL_6O9J_008 | Minor groove platform | ||
| IL_6O9J_009 | No text annotation | ||
| IL_6O9J_014 | No text annotation | ||
| IL_6O9J_015 | No text annotation | ||
| IL_6O9J_030 | Isolated non-canonical cWW pair | ||
| IL_6O9J_042 | Tandem non-canonical cWW pairs | ||
| IL_6O9J_043 | Kink-turn | ||
| IL_6O9J_044 | No text annotation | ||
| IL_6O9J_045 | No text annotation | ||
| IL_6O9J_054 | No text annotation | ||
| IL_6O9J_055 | UAA/GAN | ||
| IL_6O9J_059 | tSH-tHW-tHS | ||
| IL_6O9J_060 | No text annotation | ||
| IL_6O9J_061 | Single bulged A | ||
| IL_6O9J_069 | Triple sheared | ||
| IL_6O9J_070 | Single bulged C | ||
| IL_6O9J_076 | UAA/GAN related | ||
| IL_6O9J_081 | Single bulged U | ||
| IL_6O9J_085 | Stack and bulge | ||
| IL_6O9J_086 | Isolated non-canonical cWW pair | ||
| IL_6O9J_180 | No text annotation | ||
| IL_6O9J_089 | No text annotation | ||
| IL_6O9J_099 | Single bulged A | ||
| IL_6O9J_101 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_6O9J_107 | Major groove intercalation | ||
| IL_6O9J_115 | Minor groove platform with extra cWW | ||
| IL_6O9J_116 | Minor groove platform | ||
| IL_6O9J_117 | Single bulged G | ||
| IL_6O9J_118 | Isolated non-canonical cWW pair | ||
| IL_6O9J_120 | Isolated cWH basepair | ||
| IL_6O9J_121 | tWH-tWH-tHW-tHW | ||
| IL_6O9J_122 | Minor groove platform | ||
| IL_6O9J_123 | Kink-turn with non-sequential stacking | ||
| IL_6O9J_129 | No text annotation | ||
| IL_6O9J_130 | No text annotation | ||
| IL_6O9J_131 | tSH-tHW-tWW | ||
| IL_6O9J_133 | Single stack bend | ||
| IL_6O9J_134 | Single stack bend | ||
| IL_6O9J_135 | Single bulged A | ||
| IL_6O9J_140 | Major groove platform | ||
| IL_6O9J_144 | Single stack bend | ||
| IL_6O9J_146 | No text annotation | ||
| IL_6O9J_152 | Single bulged G | ||
| IL_6O9J_153 | Minor groove platform | ||
| IL_6O9J_154 | No text annotation | ||
| IL_6O9J_155 | Minor groove platform | ||
| IL_6O9J_156 | Single stack bend | ||
| IL_6O9J_157 | Single bulged U | ||
| IL_6O9J_158 | Isolated cWS basepair | ||
| IL_6O9J_159 | Minor groove platform | ||
| IL_6O9J_160 | Single bulged A | ||
| IL_6O9J_161 | Isolated non-canonical cWW pair | ||
| IL_6O9J_162 | No text annotation | ||
| IL_6O9J_163 | Minor groove platform | ||
| IL_6O9J_164 | No text annotation | ||
| IL_6O9J_165 | No text annotation | ||
| IL_6O9J_166 | 180 degree turn | ||
| IL_6O9J_167 | Double sheared with non-canonical cWW | ||
| IL_6O9J_168 | No text annotation | ||
| IL_6O9J_171 | Isolated non-canonical cWW pair | ||
| IL_6O9J_182 | No text annotation | ||
| IL_6O9J_172 | No text annotation | ||
| IL_6O9J_173 | Isolated non-canonical cWW pair | ||
| IL_6O9J_174 | Double sheared | ||
| IL_6O9J_175 | Triple sheared related | ||
| IL_6O9J_176 | Single bulged A | ||
| IL_6O9J_177 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6O9J_002 | 1/B/30:31, 1/B/474:481, 1/B/509:510 | No text annotation | homologous J3_7RQB_001 NA | |
| J3_6O9J_027 | 1/B/30:31, 1/B/474:484, 1/B/496:510 | No text annotation | homologous J3_5J7L_066 NA | |
| J3_6O9J_028 | 1/B/32:35, 1/B/445:461, 1/B/468:473 | No text annotation | homologous J3_5J7L_067 NA | |
| J3_6O9J_004 | 1/B/683:689, 1/B/773:775, 1/B/791:794 | No text annotation | homologous J3_5J7L_038 NA | |
| J3_6O9J_005 | 1/B/698:700, 1/B/732:736, 1/B/760:763 | No text annotation | homologous J3_5J7L_039 NA | |
| J3_6O9J_007 | 1/B/1298:1303, 1/B/1625:1627, 1/B/1639:1642 | No text annotation | homologous J3_5J7L_041 NA | |
| J3_6O9J_008 | 1/B/1306:1309, 1/B/1605:1611, 1/B/1620:1622 | No text annotation | homologous J3_7RQB_008 NA | |
| J3_6O9J_029 | 1/B/1344:1350, 1/B/1381:1385, 1/B/1402:1403 | No text annotation | homologous J3_5J7L_043 NA | |
| J3_6O9J_030 | 1/B/1424:1429, 1/B/1564:1565, 1/B/1568:1574 | No text annotation | homologous J3_5J7L_069 NA | |
| J3_6O9J_009 | 1/B/2091:2093, 1/B/2196:2200, 1/B/2223:2228 | Kink-turn 3-way junction | homologous J3_5J7L_044 NA | |
| J3_6O9J_031 | 1/B/2282:2284, 1/B/2384:2395, 1/B/2421:2427 | No text annotation | homologous J3_5J7L_070 NA | |
| J3_6O9J_010 | 1/B/2295:2299, 1/B/2317:2323, 1/B/2332:2337 | No text annotation | homologous J3_5J7L_071 NA | |
| J3_6O9J_011 | 1/B/2517:2520, 1/B/2545:2547, 1/B/2561:2567 | No text annotation | homologous J3_5J7L_046 NA | |
| J3_6O9J_012 | 1/B/2789:2791, 1/B/2805:2806, 1/B/2892:2894 | No text annotation | homologous J3_5J7L_047 NA | |
| J3_6O9J_013 | 1/B/2812:2815, 1/B/2831:2836, 1/B/2882:2888 | No text annotation | homologous J3_5J7L_048 NA | |
| J3_6O9J_014 | 1/a/46:47, 1/a/361:367, 1/a/393:395 | No text annotation | homologous J3_5J7L_001 NA | |
| J3_6O9J_032 | 1/a/46:52, 1/a/359:367, 1/a/393:395 | No text annotation | homologous J3_5J7L_050 NA | |
| J3_6O9J_015 | 1/a/586:588, 1/a/651:654, 1/a/754:755 | No text annotation | homologous J3_5J7L_002 NA | |
| J3_6O9J_033 | 1/a/586:588, 1/a/651:655, 1/a/751:755 | No text annotation | homologous J3_5J7L_051 NA | |
| J3_6O9J_017 | 1/a/826:829, 1/a/857:861, 1/a/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_6O9J_023 | 1/a/1063:1068, 1/a/1107:1113, 1/a/1187:1193 | No text annotation | homologous J3_5J7L_008 NA | |
| J4_6O9J_001 | 1/B/268:269, 1/B/370:375, 1/B/399:406, 1/B/421:424 | No text annotation | homologous J4_5J7L_018 NA | |
| J4_6O9J_002 | 1/B/297:301, 1/B/316:319, 1/B/323:325, 1/B/337:341 | No text annotation | homologous J4_5J7L_019 NA | |
| J4_6O9J_003 | 1/B/601:604, 1/B/624:628, 1/B/635:638, 1/B/650:656 | No text annotation | homologous J4_5J7L_020 NA | |
| J4_6O9J_004 | 1/B/1270:1276, 1/B/1294:1295, 1/B/1645:1648, 1/B/2009:2010 | No text annotation | homologous J4_5J7L_021 NA | |
| J4_6O9J_005 | 1/B/1310:1314, 1/B/1338:1343, 1/B/1404:1405, 1/B/1597:1604 | No text annotation | homologous J4_5J7L_022 NA | |
| J4_6O9J_006 | 1/B/1313:1314, 1/B/1338:1343, 1/B/1404:1405, 1/B/1597:1603 | No text annotation | homologous J4_5J7L_023 NA | |
| J4_6O9J_008 | 1/B/1772:1776, 1/B/1788:1792, 1/B/1827:1830, 1/B/1975:1979 | No text annotation | homologous J4_5J7L_025 NA | |
| J4_6O9J_009 | 1/B/1833:1835, 1/B/1905:1906, 1/B/1924:1933, 1/B/1967:1972 | No text annotation | homologous J4_9DFE_008 J4_42306.1 | |
| J4_6O9J_010 | 1/B/2285:2289, 1/B/2343:2347, 1/B/2370:2372, 1/B/2381:2383 | No text annotation | homologous J4_5J7L_027 NA | |
| J4_6O9J_011 | 1/B/2643:2646, 1/B/2674:2676, 1/B/2731:2735, 1/B/2769:2771 | No text annotation | homologous J4_5J7L_028 NA | |
| J4_6O9J_012 | 1/a/115:122, 1/a/239:240, 1/a/286:289, 1/a/311:312 | No text annotation | homologous J4_4LFB_001 J4_90044.1 | |
| J4_6O9J_014 | 1/a/575:577, 1/a/764:769, 1/a/810:821, 1/a/879:880 | No text annotation | homologous J4_5J7L_003 NA | |
| J5_6O9J_001 | 1/B/47:54, 1/B/116:121, 1/B/130:131, 1/B/148:150, 1/B/176:178 | No text annotation | homologous J5_5J7L_013 NA | |
| J5_6O9J_002 | 1/B/531:533, 1/B/560:564, 1/B/577:579, 1/B/1261:1262, 1/B/2017:2018 | No text annotation | homologous J5_5J7L_014 NA | |
| J5_6O9J_003 | 1/B/584:589, 1/B/668:671, 1/B/809:812, 1/B/1195:1196, 1/B/1250:1256 | No text annotation | homologous J5_5J7L_015 NA | |
| J5_6O9J_004 | 1/B/1674:1682, 1/B/1706:1707, 1/B/1751:1752, 1/B/1756:1764, 1/B/1988:1990 | No text annotation | homologous J5_5J7L_016 NA | |
| J5_6O9J_005 | 1/B/2057:2064, 1/B/2446:2453, 1/B/2500:2506, 1/B/2583:2588, 1/B/2606:2611 | No text annotation | ||
| J5_6O9J_006 | 1/B/2074:2077, 1/B/2243:2246, 1/B/2258:2259, 1/B/2281:2282, 1/B/2427:2435 | No text annotation | homologous J5_4WF9_007 J5_39529.2 | |
| J5_6O9J_007 | 1/a/36:39, 1/a/403:406, 1/a/436:440, 1/a/497:500, 1/a/545:548 | No text annotation | homologous J5_5J7L_001 NA | |
| J5_6O9J_008 | 1/a/36:39, 1/a/403:406, 1/a/436:442, 1/a/492:500, 1/a/545:548 | No text annotation | homologous J5_5J7L_002 NA | |
| J5_6O9J_009 | 1/a/58:61, 1/a/106:113, 1/a/314:316, 1/a/337:339, 1/a/350:354 | No text annotation | homologous J5_5J7L_003 NA | |
| J6_6O9J_001 | 1/B/45:46, 1/B/179:183, 1/B/214:224, 1/B/231:235, 1/B/262:266, 1/B/426:433 | No text annotation | ||
| J6_6O9J_002 | 1/B/2074:2077, 1/B/2243:2246, 1/B/2258:2259, 1/B/2281:2284, 1/B/2384:2395, 1/B/2421:2435 | No text annotation | ||
| J7_6O9J_001 | 1/B/8:15, 1/B/525:531, 1/B/2018:2023, 1/B/2040:2043, 1/B/2625:2630, 1/B/2788:2789, 1/B/2894:2895 | No text annotation | ||
| J7_6O9J_002 | 1/B/817:822, 1/B/835:837, 1/B/942:946, 1/B/971:976, 1/B/987:991, 1/B/1163:1164, 1/B/1185:1190 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6O9J_001 | No text annotation | ||
| J3_6O9J_003 | No text annotation | ||
| J3_6O9J_006 | No text annotation | ||
| J3_6O9J_016 | No text annotation | ||
| J3_6O9J_018 | No text annotation | ||
| J3_6O9J_019 | No text annotation | ||
| J3_6O9J_020 | No text annotation | ||
| J3_6O9J_021 | No text annotation | ||
| J3_6O9J_034 | No text annotation | ||
| J3_6O9J_022 | No text annotation | ||
| J3_6O9J_035 | No text annotation | ||
| J3_6O9J_024 | No text annotation | ||
| J3_6O9J_025 | No text annotation | ||
| J3_6O9J_036 | No text annotation | ||
| J3_6O9J_026 | No text annotation | ||
| J4_6O9J_007 | No text annotation | ||
| J4_6O9J_013 | No text annotation | ||
| J4_6O9J_015 | tRNA junction |
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