6GXO Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_6GXO_001 | 1/A/59:68 | No text annotation | homologous HL_5J7L_134 NA | |
| HL_6GXO_003 | 1/A/123:128 | No text annotation | homologous HL_4WF9_003 HL_75660.6 | |
| HL_6GXO_106 | 1/A/158:168 | No text annotation | homologous HL_5J7L_138 NA | |
| HL_6GXO_006 | 1/A/194:201 | No text annotation | homologous HL_7RQB_006 NA | |
| HL_6GXO_008 | 1/A/246:252 | No text annotation | homologous HL_5J7L_141 NA | |
| HL_6GXO_011 | 1/A/327:335 | T-loop with unstacked turn | homologous HL_5J7L_144 NA | |
| HL_6GXO_116 | 1/A/382:392 | No text annotation | homologous HL_5J7L_145 NA | |
| HL_6GXO_013 | 1/A/410:417 | Pseudoknot geometry | homologous HL_4WF9_014 HL_30680.4 | |
| HL_6GXO_014 | 1/A/462:467 | GNRA | homologous HL_4WF9_015 HL_34789.1 | |
| HL_6GXO_017 | 1/A/566:575 | T-loop with 2 stacked bulged bases | homologous HL_7A0S_018 HL_33597.1 | |
| HL_6GXO_019 | 1/A/629:634 | GNRA | homologous HL_5J7L_152 NA | |
| HL_6GXO_108 | 1/A/641:647 | No text annotation | homologous HL_5J7L_153 NA | |
| HL_6GXO_022 | 1/A/744:753 | No text annotation | homologous HL_4WF9_023 HL_50204.1 | |
| HL_6GXO_023 | 1/A/779:785 | UNCG variation | geometric HL_1P6V_001 NA | |
| HL_6GXO_024 | 1/A/826:831 | No text annotation | homologous HL_7A0S_024 HL_27530.1 | |
| HL_6GXO_026 | 1/A/954:963 | tRNA anticodon loop | geometric HL_3RG5_006 HL_45359.1 | |
| HL_6GXO_027 | 1/A/978:985 | No text annotation | homologous HL_7RQB_028 NA | |
| HL_6GXO_030 | 1/A/1222:1227 | GNRA | homologous HL_7A0S_031 HL_34789.1 | |
| HL_6GXO_031 | 1/A/1281:1289 | T-loop with 2 stacked bulged bases | homologous HL_5J7L_165 NA | |
| HL_6GXO_032 | 1/A/1324:1330 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_166 NA | |
| HL_6GXO_033 | 1/A/1363:1368 | GNRA | homologous HL_5J7L_167 NA | |
| HL_6GXO_034 | 1/A/1389:1398 | No text annotation | homologous HL_5J7L_168 NA | |
| HL_6GXO_036 | 1/A/1492:1498 | Pseudoknot geometry with 3' bulge | homologous HL_5J7L_170 NA | |
| HL_6GXO_039 | 1/A/1612:1619 | No text annotation | homologous HL_7RQB_040 NA | |
| HL_6GXO_111 | 1/A/1630:1636 | GNRA | homologous HL_5J7L_174 NA | |
| HL_6GXO_041 | 1/A/1691:1696 | UNCG | geometric HL_4PMI_004 NA | |
| HL_6GXO_044 | 1/A/1777:1787 | No text annotation | homologous HL_4WF9_043 HL_87681.1 | |
| HL_6GXO_045 | 1/A/1806:1811 | GNRA related | homologous HL_5J7L_179 NA | |
| HL_6GXO_112 | 1/A/1950:1956 | No text annotation | ||
| HL_6GXO_049 | 1/A/2027:2036 | No text annotation | homologous HL_4WF9_047 HL_78372.1 | |
| HL_6GXO_052 | 1/A/2248:2256 | No text annotation | homologous HL_7A0S_052 HL_11974.1 | |
| HL_6GXO_053 | 1/A/2264:2276 | No text annotation | homologous HL_5J7L_187 NA | |
| HL_6GXO_056 | 1/A/2356:2361 | GNRA | homologous HL_5J7L_190 NA | |
| HL_6GXO_060 | 1/A/2528:2535 | GNRA variation | homologous HL_5J7L_194 NA | |
| HL_6GXO_061 | 1/A/2551:2557 | No text annotation | homologous HL_4WF9_058 HL_48677.1 | |
| HL_6GXO_070 | 1/B/86:90 | Mini UNCG | homologous HL_5J7L_204 NA | |
| HL_6GXO_071 | 1/a/12:22 | No text annotation | homologous HL_4LFB_001 HL_31940.1 | |
| HL_6GXO_076 | 1/a/259:267 | GNRA related | homologous HL_5J7L_006 NA | |
| HL_6GXO_077 | 1/a/296:301 | GNRA | homologous HL_5J7L_007 NA | |
| HL_6GXO_078 | 1/a/320:333 | No text annotation | homologous HL_6CZR_079 NA | |
| HL_6GXO_084 | 1/a/617:623 | GNRA-like with tWH | homologous HL_4LFB_014 HL_92337.1 | |
| HL_6GXO_085 | 1/a/689:698 | No text annotation | homologous HL_4LFB_015 HL_38491.1 | |
| HL_6GXO_087 | 1/a/786:796 | No text annotation | homologous HL_5J7L_017 NA | |
| HL_6GXO_089 | 1/a/862:867 | GNRA | homologous HL_5J7L_019 NA | |
| HL_6GXO_091 | 1/a/963:972 | No text annotation | homologous HL_5J7L_021 NA | |
| HL_6GXO_102 | 1/a/1515:1520 | GNRA | homologous HL_6CZR_103 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_6GXO_002 | No text annotation | ||
| HL_6GXO_004 | Externally structured | ||
| HL_6GXO_005 | No text annotation | ||
| HL_6GXO_007 | No text annotation | ||
| HL_6GXO_009 | T-loop with 2 stacked bulged bases | ||
| HL_6GXO_010 | No text annotation | ||
| HL_6GXO_012 | No text annotation | ||
| HL_6GXO_015 | GNRA | ||
| HL_6GXO_107 | No text annotation | ||
| HL_6GXO_016 | No text annotation | ||
| HL_6GXO_018 | No text annotation | ||
| HL_6GXO_020 | No text annotation | ||
| HL_6GXO_021 | GNRA wlth tandem sheared | ||
| HL_6GXO_025 | No text annotation | ||
| HL_6GXO_028 | No text annotation | ||
| HL_6GXO_029 | No text annotation | ||
| HL_6GXO_109 | No text annotation | ||
| HL_6GXO_035 | No text annotation | ||
| HL_6GXO_110 | No text annotation | ||
| HL_6GXO_037 | No text annotation | ||
| HL_6GXO_038 | Mini UNCG | ||
| HL_6GXO_040 | GNRA with extra cWW | ||
| HL_6GXO_042 | No text annotation | ||
| HL_6GXO_043 | No text annotation | ||
| HL_6GXO_046 | GNRA variation | ||
| HL_6GXO_047 | No text annotation | ||
| HL_6GXO_048 | No text annotation | ||
| HL_6GXO_050 | No text annotation | ||
| HL_6GXO_051 | No text annotation | ||
| HL_6GXO_054 | No text annotation | ||
| HL_6GXO_113 | No text annotation | ||
| HL_6GXO_055 | Pseudoknot geometry | ||
| HL_6GXO_057 | GNRA | ||
| HL_6GXO_058 | No text annotation | ||
| HL_6GXO_059 | No text annotation | ||
| HL_6GXO_062 | GNRA | ||
| HL_6GXO_063 | GNRA | ||
| HL_6GXO_064 | Ribsomal LSU H95 | ||
| HL_6GXO_065 | No text annotation | ||
| HL_6GXO_066 | UNCG variation | ||
| HL_6GXO_067 | No text annotation | ||
| HL_6GXO_068 | GNRA | ||
| HL_6GXO_069 | No text annotation | ||
| HL_6GXO_072 | No text annotation | ||
| HL_6GXO_117 | No text annotation | ||
| HL_6GXO_073 | GNRA | ||
| HL_6GXO_074 | GNRA | ||
| HL_6GXO_075 | No text annotation | ||
| HL_6GXO_118 | Mini UNCG | ||
| HL_6GXO_079 | UNCG | ||
| HL_6GXO_114 | tRNA anticodon loop | ||
| HL_6GXO_080 | GNRA | ||
| HL_6GXO_081 | UNCG | ||
| HL_6GXO_082 | GNRA wlth extra near cWW | ||
| HL_6GXO_083 | No text annotation | ||
| HL_6GXO_086 | GNRA | ||
| HL_6GXO_115 | No text annotation | ||
| HL_6GXO_088 | Externally structured | ||
| HL_6GXO_090 | GNRA | ||
| HL_6GXO_092 | GNRA | ||
| HL_6GXO_093 | No text annotation | ||
| HL_6GXO_094 | GNRA | ||
| HL_6GXO_095 | T-loop related | ||
| HL_6GXO_096 | No text annotation | ||
| HL_6GXO_097 | GNRA | ||
| HL_6GXO_098 | GNRA | ||
| HL_6GXO_099 | T-loop with 3 stacked bulged bases | ||
| HL_6GXO_100 | No text annotation | ||
| HL_6GXO_101 | UNCG | ||
| HL_6GXO_103 | No text annotation | ||
| HL_6GXO_104 | tRNA anticodon loop | ||
| HL_6GXO_105 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_6GXO_001 | 1/A/24:30, 1/A/510:516 | Triple sheared with non-canonical cWW | geometric IL_4WF9_001 IL_22311.1 | |
| IL_6GXO_002 | 1/A/36:37, 1/A/442:444 | Single bulged A | homologous IL_5J7L_246 NA | |
| IL_6GXO_003 | 1/A/43:44, 1/A/434:436 | Minor groove platform | homologous IL_5J7L_247 NA | |
| IL_6GXO_005 | 1/A/183:184, 1/A/212:214 | Single stack bend | homologous IL_7A0S_005 IL_15011.1 | |
| IL_6GXO_006 | 1/A/188:194, 1/A/201:208 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_7A0S_006 IL_62167.1 | |
| IL_6GXO_007 | 1/A/239:245, 1/A/253:258 | 7x6 Sarcin-Ricin; G-bulge | homologous IL_5J7L_251 NA | |
| IL_6GXO_011 | 1/A/481:484, 1/A/496:509 | No text annotation | geometric IL_5J7L_255 NA | |
| IL_6GXO_012 | 1/A/536:539, 1/A/554:557 | Double sheared | homologous IL_5J7L_256 NA | |
| IL_6GXO_013 | 1/A/564:566, 1/A/575:577 | Isolated non-canonical cWW pair | geometric IL_4WF9_017 IL_71625.1 | |
| IL_6GXO_014 | 1/A/606:610, 1/A/618:622 | AAA cross-strand stack | homologous IL_5J7L_258 NA | |
| IL_6GXO_015 | 1/A/672:674, 1/A/806:808 | Isolated non-canonical cWW pair | geometric IL_5J7L_259 NA | |
| IL_6GXO_016 | 1/A/674:678, 1/A/799:806 | tHW-tHW cross-strand stack | homologous IL_7RQB_018 NA | |
| IL_6GXO_017 | 1/A/697:698, 1/A/763:765 | Single bulged A | geometric IL_4V9F_025 IL_14190.1 | |
| IL_6GXO_018 | 1/A/702:703, 1/A/728:730 | Single bulged G | geometric IL_7RQB_020 NA | |
| IL_6GXO_020 | 1/A/738:740, 1/A/757:758 | Major groove platform | homologous IL_5J7L_264 NA | |
| IL_6GXO_021 | 1/A/775:777, 1/A/787:791 | Multiple bulged bases | homologous IL_5J7L_265 NA | |
| IL_6GXO_022 | 1/A/844:847, 1/A/933:934 | 90 degree turn | geometric IL_5J7L_267 NA | |
| IL_6GXO_182 | 1/A/844:848, 1/A/930:934 | No text annotation | geometric IL_5J7L_399 NA | |
| IL_6GXO_025 | 1/A/856:862, 1/A/915:921 | 7x7 Sarcin-Ricin with intercalated A; G-bulge | geometric IL_5J7L_270 NA | |
| IL_6GXO_026 | 1/A/862:863, 1/A/913:915 | Single bulged G | homologous IL_5J7L_271 NA | |
| IL_6GXO_027 | 1/A/864:868, 1/A/909:912 | C-loop | homologous IL_7RQB_029 NA | |
| IL_6GXO_183 | 1/A/870:872, 1/A/905:907 | Isolated cWS basepair | homologous IL_4WF9_034 NA | |
| IL_6GXO_031 | 1/A/994:996, 1/A/1159:1160 | Single bulged C | homologous IL_7RQB_035 NA | |
| IL_6GXO_032 | 1/A/998:1002, 1/A/1153:1157 | UAA/GAN | homologous IL_7A0S_033 IL_08938.1 | |
| IL_6GXO_034 | 1/A/1011:1013, 1/A/1149:1150 | Single bulged U | geometric IL_4WF9_038 IL_97561.1 | |
| IL_6GXO_036 | 1/A/1024:1030, 1/A/1124:1140 | No text annotation | geometric IL_5J7L_281 NA | |
| IL_6GXO_037 | 1/A/1031:1034, 1/A/1121:1123 | Isolated non-canonical cWW pair | homologous IL_5J7L_282 NA | |
| IL_6GXO_042 | 1/A/1196:1198, 1/A/1247:1250 | Isolated cWS basepair | homologous IL_7A0S_041 IL_42997.4 | |
| IL_6GXO_043 | 1/A/1202:1206, 1/A/1240:1243 | No text annotation | homologous IL_5J7L_287 NA | |
| IL_6GXO_044 | 1/A/1208:1215, 1/A/1234:1238 | Kink-turn | homologous IL_5J7L_288 NA | |
| IL_6GXO_045 | 1/A/1262:1269, 1/A/2011:2017 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_5J7L_289 NA | |
| IL_6GXO_046 | 1/A/1310:1313, 1/A/1603:1604 | Major groove platform; stack outside cWW | homologous IL_7RQB_050 NA | |
| IL_6GXO_047 | 1/A/1319:1323, 1/A/1331:1333 | C-loop | homologous IL_5J7L_291 NA | |
| IL_6GXO_052 | 1/A/1432:1435, 1/A/1557:1561 | Tandem non-canonical cWW pairs | homologous IL_5J7L_296 NA | |
| IL_6GXO_053 | 1/A/1437:1440, 1/A/1551:1555 | tSH-tHW | homologous IL_5J7L_297 NA | |
| IL_6GXO_054 | 1/A/1468:1471, 1/A/1520:1524 | No text annotation | homologous IL_5J7L_299 NA | |
| IL_6GXO_059 | 1/A/1651:1656, 1/A/2004:2006 | No text annotation | homologous IL_7A0S_059 IL_12566.5 | |
| IL_6GXO_060 | 1/A/1663:1665, 1/A/1995:1997 | Isolated tWW turn | homologous IL_4WF9_063 IL_10432.1 | |
| IL_6GXO_188 | 1/A/1666:1674, 1/A/1990:1994 | No text annotation | homologous IL_4WF9_117 IL_80252.1 | |
| IL_6GXO_062 | 1/A/1669:1674, 1/A/1990:1993 | Intercalated tWH | homologous IL_4WF9_065 IL_28217.1 | |
| IL_6GXO_063 | 1/A/1686:1691, 1/A/1696:1702 | tSH-tSH-tHH-tHS | homologous IL_7RQB_068 NA | |
| IL_6GXO_066 | 1/A/1770:1771, 1/A/1980:1982 | Single bulged A | homologous IL_4WF9_068 IL_14190.1 | |
| IL_6GXO_067 | 1/A/1798:1804, 1/A/1813:1821 | Kink-turn related | homologous IL_4WF9_069 IL_17069.6 | |
| IL_6GXO_068 | 1/A/1837:1840, 1/A/1902:1903 | Minor groove platform, major groove intercalation | homologous IL_5J7L_314 NA | |
| IL_6GXO_069 | 1/A/1841:1842, 1/A/1898:1901 | Major groove intercalation | homologous IL_5J7L_315 NA | |
| IL_6GXO_072 | 1/A/1933:1934, 1/A/1964:1967 | Bulged stacked bases | homologous IL_7RQB_076 NA | |
| IL_6GXO_073 | 1/A/1934:1945, 1/A/1961:1964 | No text annotation | geometric IL_7A0S_072 IL_04332.3 | |
| IL_6GXO_074 | 1/A/2050:2052, 1/A/2617:2618 | Major groove platform | homologous IL_5J7L_320 NA | |
| IL_6GXO_075 | 1/A/2054:2056, 1/A/2612:2615 | No text annotation | homologous IL_5J7L_321 NA | |
| IL_6GXO_076 | 1/A/2067:2069, 1/A/2442:2443 | Single bulged U | homologous IL_7A0S_075 IL_97561.1 | |
| IL_6GXO_077 | 1/A/2070:2071, 1/A/2438:2441 | Minor groove platform | homologous IL_7A0S_076 IL_34520.1 | |
| IL_6GXO_078 | 1/A/2081:2083, 1/A/2236:2239 | Isolated tHS basepair with bulges | homologous IL_5J7L_325 NA | |
| IL_6GXO_079 | 1/A/2085:2087, 1/A/2232:2234 | Isolated non-canonical cWW pair | homologous IL_5J7L_326 NA | |
| IL_6GXO_086 | 1/A/2202:2204, 1/A/2220:2221 | Single bulged U | homologous IL_5J7L_331 NA | |
| IL_6GXO_089 | 1/A/2453:2454, 1/A/2498:2500 | Single stack bend | homologous IL_4WF9_089 IL_15011.1 | |
| IL_6GXO_092 | 1/A/2459:2461, 1/A/2489:2493 | Major groove minor groove platform with extra cWW | homologous IL_7RQB_094 NA | |
| IL_6GXO_094 | 1/A/2507:2509, 1/A/2579:2582 | No text annotation | homologous IL_5J7L_339 NA | |
| IL_6GXO_096 | 1/A/2512:2513, 1/A/2571:2574 | No text annotation | homologous IL_5J7L_341 NA | |
| IL_6GXO_097 | 1/A/2522:2523, 1/A/2540:2543 | Major groove platform with intercalation | homologous IL_5J7L_342 NA | |
| IL_6GXO_194 | 1/A/2588:2591, 1/A/2603:2606 | No text annotation | ||
| IL_6GXO_098 | 1/A/2591:2592, 1/A/2601:2603 | Single bulged A | homologous IL_5J7L_344 NA | |
| IL_6GXO_099 | 1/A/2636:2640, 1/A/2774:2782 | tSH-tHS-tHW | homologous IL_7RQB_102 NA | |
| IL_6GXO_101 | 1/A/2680:2684, 1/A/2725:2727 | C-loop | homologous IL_5J7L_347 NA | |
| IL_6GXO_102 | 1/A/2687:2691, 1/A/2718:2722 | UAA/GAN related, with intercalation | homologous IL_5J7L_348 NA | |
| IL_6GXO_103 | 1/A/2695:2696, 1/A/2711:2714 | Multiple bulged bases | homologous IL_5J7L_349 NA | |
| IL_6GXO_107 | 1/A/2843:2846, 1/A/2870:2874 | Multiple bulged bases with non-canonical cWW | homologous IL_5J7L_353 NA | |
| IL_6GXO_113 | 1/B/71:79, 1/B/97:105 | Bacterial 5S Loop E | homologous IL_5J7L_359 NA | |
| IL_6GXO_114 | 1/a/30:32, 1/a/552:553 | Single bulged G | homologous IL_6CZR_113 NA | |
| IL_6GXO_115 | 1/a/44:45, 1/a/396:398 | Single bulged A | homologous IL_5J7L_002 NA | |
| IL_6GXO_116 | 1/a/47:52, 1/a/359:361 | No text annotation | homologous IL_5J7L_003 NA | |
| IL_6GXO_117 | 1/a/54:56, 1/a/356:357 | Minor groove platform | homologous IL_4LFB_004 IL_34520.1 | |
| IL_6GXO_127 | 1/a/242:247, 1/a/277:284 | Kink-turn with non-sequential stacking | homologous IL_5J7L_014 NA | |
| IL_6GXO_129 | 1/a/292:293, 1/a/304:308 | C-loop | homologous IL_4LFB_013 IL_06671.1 | |
| IL_6GXO_130 | 1/a/367:369, 1/a/392:393 | Single bulged U | geometric IL_5J7L_017 NA | |
| IL_6GXO_131 | 1/a/371:375, 1/a/389:390 | C-loop | homologous IL_6CZR_127 NA | |
| IL_6GXO_137 | 1/a/504:511, 1/a/540:541 | SSU/LSU pseudoknot | homologous IL_4LFB_020 IL_11411.1 | |
| IL_6GXO_138 | 1/a/515:521, 1/a/528:536 | Kink-turn related | geometric IL_4V88_415 NA | |
| IL_6GXO_141 | 1/a/594:596, 1/a/644:645 | Major groove platform | homologous IL_5J7L_028 NA | |
| IL_6GXO_143 | 1/a/605:612, 1/a/628:633 | No text annotation | homologous IL_5J7L_030 NA | |
| IL_6GXO_144 | 1/a/654:655, 1/a/751:754 | Major groove platform; stack outside cWW | geometric IL_4LFB_027 IL_74641.1 | |
| IL_6GXO_146 | 1/a/662:666, 1/a/740:743 | Tandem non-canonical cWW pairs | homologous IL_5J7L_033 NA | |
| IL_6GXO_148 | 1/a/683:688, 1/a/699:707 | No text annotation | homologous IL_6CZR_143 NA | |
| IL_6GXO_149 | 1/a/774:778, 1/a/804:805 | Left turn | homologous IL_4LFB_032 IL_29346.3 | |
| IL_6GXO_150 | 1/a/779:783, 1/a/799:803 | tSH-tHW-tHS | homologous IL_5J7L_037 NA | |
| IL_6GXO_151 | 1/a/887:894, 1/a/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_5J7L_038 NA | |
| IL_6GXO_152 | 1/a/922:923, 1/a/1393:1395 | Single bulged A | homologous IL_5J7L_039 NA | |
| IL_6GXO_155 | 1/a/953:954, 1/a/1226:1228 | No text annotation | homologous IL_6CZR_150 NA | |
| IL_6GXO_158 | 1/a/1048:1050, 1/a/1208:1209 | Single bulged U | geometric IL_5J7L_046 NA | |
| IL_6GXO_160 | 1/a/1057:1058, 1/a/1199:1203 | Minor groove platform | homologous IL_4LFB_045 IL_24264.1 | |
| IL_6GXO_162 | 1/a/1061:1063, 1/a/1193:1195 | Isolated non-canonical cWW pair | homologous IL_4LFB_047 IL_68118.1 | |
| IL_6GXO_166 | 1/a/1247:1253, 1/a/1284:1290 | No text annotation | homologous IL_5J7L_054 NA | |
| IL_6GXO_171 | 1/a/1401:1404, 1/a/1497:1501 | No text annotation | homologous IL_5J7L_059 NA | |
| IL_6GXO_173 | 1/a/1407:1409, 1/a/1491:1494 | Not an internal loop | geometric IL_5VCI_005 NA | |
| IL_6GXO_175 | 1/a/1416:1419, 1/a/1481:1484 | Double sheared | homologous IL_6CZR_169 NA | |
| IL_6GXO_176 | 1/a/1430:1435, 1/a/1466:1470 | Triple sheared related | homologous IL_5J7L_063 NA |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_6GXO_179 | Minor groove platform with extra cWW | ||
| IL_6GXO_004 | No text annotation | ||
| IL_6GXO_008 | No text annotation | ||
| IL_6GXO_180 | No text annotation | ||
| IL_6GXO_009 | No text annotation | ||
| IL_6GXO_181 | No text annotation | ||
| IL_6GXO_010 | No text annotation | ||
| IL_6GXO_019 | Triple sheared | ||
| IL_6GXO_023 | Stack outside cWW | ||
| IL_6GXO_024 | Single stack bend | ||
| IL_6GXO_028 | Tandem non-canonical cWW pairs | ||
| IL_6GXO_029 | Double sheared with non-canonical cWW | ||
| IL_6GXO_202 | No text annotation | ||
| IL_6GXO_030 | Tandem non-canonical cWW pairs | ||
| IL_6GXO_033 | SSU/LSU pseudoknot | ||
| IL_6GXO_035 | Kink-turn related | ||
| IL_6GXO_038 | Tandem non-canonical cWW pairs | ||
| IL_6GXO_184 | Partly complementary | ||
| IL_6GXO_039 | Kink-turn | ||
| IL_6GXO_040 | No text annotation | ||
| IL_6GXO_185 | No text annotation | ||
| IL_6GXO_041 | No text annotation | ||
| IL_6GXO_048 | UAA/GAN | ||
| IL_6GXO_049 | tSH-tHW-tHS | ||
| IL_6GXO_050 | No text annotation | ||
| IL_6GXO_186 | No text annotation | ||
| IL_6GXO_051 | UAA/GAN | ||
| IL_6GXO_187 | tSH-tHW-tHS | ||
| IL_6GXO_055 | No text annotation | ||
| IL_6GXO_056 | 180 degree turn | ||
| IL_6GXO_057 | Single bulged A | ||
| IL_6GXO_058 | UAA/GAN variation | ||
| IL_6GXO_061 | Major groove platform; stack outside cWW | ||
| IL_6GXO_064 | 6x5 Sarcin-Ricin; G-bulge | ||
| IL_6GXO_065 | Triple sheared | ||
| IL_6GXO_070 | Major groove minor groove platform; mini C-loop | ||
| IL_6GXO_189 | No text annotation | ||
| IL_6GXO_071 | UAA/GAN related | ||
| IL_6GXO_190 | Other IL | ||
| IL_6GXO_080 | Isolated non-canonical cWW pair | ||
| IL_6GXO_081 | Tandem non-canonical cWW pairs | ||
| IL_6GXO_191 | Isolated non-canonical cWW pair | ||
| IL_6GXO_082 | No text annotation | ||
| IL_6GXO_192 | No text annotation | ||
| IL_6GXO_083 | Kink-turn related | ||
| IL_6GXO_084 | No text annotation | ||
| IL_6GXO_193 | No text annotation | ||
| IL_6GXO_085 | No text annotation | ||
| IL_6GXO_087 | Double sheared | ||
| IL_6GXO_088 | No text annotation | ||
| IL_6GXO_090 | Major groove platform | ||
| IL_6GXO_091 | Major groove platform with extra pair | ||
| IL_6GXO_093 | Double sheared with non-canonical cWW | ||
| IL_6GXO_095 | Isolated non-canonical cWW with bulges | ||
| IL_6GXO_100 | Sarcin-Ricin target in LSU H95; G-bulge | ||
| IL_6GXO_104 | UAA/GAN with extra cWW | ||
| IL_6GXO_105 | No text annotation | ||
| IL_6GXO_106 | Major groove intercalation | ||
| IL_6GXO_108 | tHS double platform | ||
| IL_6GXO_109 | Major groove intercalation | ||
| IL_6GXO_110 | No text annotation | ||
| IL_6GXO_203 | No text annotation | ||
| IL_6GXO_111 | Major groove minor groove platform; mini C-loop | ||
| IL_6GXO_112 | Symmetric double minor groove platform | ||
| IL_6GXO_118 | Multiple bulged bases | ||
| IL_6GXO_119 | Minor groove platform with extra cWW | ||
| IL_6GXO_120 | Minor groove platform | ||
| IL_6GXO_195 | Single bulged G | ||
| IL_6GXO_121 | Single bulged G, near cWW | ||
| IL_6GXO_122 | No text annotation | ||
| IL_6GXO_196 | No text annotation | ||
| IL_6GXO_123 | No text annotation | ||
| IL_6GXO_124 | Isolated cWH basepair | ||
| IL_6GXO_125 | tWH-tWH-tHW-tHW | ||
| IL_6GXO_126 | Minor groove platform | ||
| IL_6GXO_128 | No text annotation | ||
| IL_6GXO_132 | Single bulged G | ||
| IL_6GXO_133 | No text annotation | ||
| IL_6GXO_134 | No text annotation | ||
| IL_6GXO_135 | tSH-tHW-tWW | ||
| IL_6GXO_136 | No text annotation | ||
| IL_6GXO_139 | No text annotation | ||
| IL_6GXO_140 | tSH-tHW-tHS | ||
| IL_6GXO_142 | Major groove minor groove platform; mini C-loop | ||
| IL_6GXO_145 | No text annotation | ||
| IL_6GXO_197 | Single stack bend | ||
| IL_6GXO_198 | Triple non-canonical cWW pairs | ||
| IL_6GXO_147 | No text annotation | ||
| IL_6GXO_199 | 9x7 Sarcin-Ricin with inserted C; G-bulge | ||
| IL_6GXO_153 | Single bulged G | ||
| IL_6GXO_154 | Minor groove platform | ||
| IL_6GXO_156 | Minor groove platform | ||
| IL_6GXO_157 | Single stack bend | ||
| IL_6GXO_200 | No text annotation | ||
| IL_6GXO_201 | Tandem non-canonical cWW pairs | ||
| IL_6GXO_159 | No text annotation | ||
| IL_6GXO_161 | Single bulged A | ||
| IL_6GXO_163 | No text annotation | ||
| IL_6GXO_204 | No text annotation | ||
| IL_6GXO_164 | Minor groove platform | ||
| IL_6GXO_165 | No text annotation | ||
| IL_6GXO_167 | 180 degree turn | ||
| IL_6GXO_168 | Double sheared with non-canonical cWW | ||
| IL_6GXO_169 | No text annotation | ||
| IL_6GXO_170 | No text annotation | ||
| IL_6GXO_172 | Isolated non-canonical cWW pair | ||
| IL_6GXO_174 | Isolated non-canonical cWW pair | ||
| IL_6GXO_177 | Single bulged A | ||
| IL_6GXO_178 | No text annotation |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_6GXO_001 | 1/A/30:31, 1/A/474:481, 1/A/509:510 | No text annotation | homologous J3_5J7L_036 NA | |
| J3_6GXO_027 | 1/A/32:35, 1/A/445:461, 1/A/468:473 | No text annotation | homologous J3_5J7L_067 NA | |
| J3_6GXO_002 | 1/A/56:57, 1/A/70:76, 1/A/110:114 | No text annotation | homologous J3_5J7L_037 NA | |
| J3_6GXO_028 | 1/A/297:301, 1/A/316:325, 1/A/337:341 | No text annotation | homologous J3_5J7L_068 NA | |
| J3_6GXO_003 | 1/A/683:689, 1/A/773:775, 1/A/791:794 | No text annotation | homologous J3_5J7L_038 NA | |
| J3_6GXO_004 | 1/A/698:700, 1/A/732:736, 1/A/760:763 | No text annotation | homologous J3_7RQB_005 NA | |
| J3_6GXO_005 | 1/A/1298:1303, 1/A/1625:1627, 1/A/1639:1642 | No text annotation | homologous J3_7A0S_006 J3_32852.7 | |
| J3_6GXO_006 | 1/A/1306:1309, 1/A/1605:1611, 1/A/1620:1622 | No text annotation | homologous J3_5J7L_042 NA | |
| J3_6GXO_030 | 1/A/1424:1429, 1/A/1564:1565, 1/A/1568:1574 | No text annotation | homologous J3_5J7L_069 NA | |
| J3_6GXO_008 | 1/A/2091:2093, 1/A/2196:2200, 1/A/2223:2228 | Kink-turn 3-way junction | homologous J3_5J7L_044 NA | |
| J3_6GXO_009 | 1/A/2295:2299, 1/A/2317:2323, 1/A/2332:2337 | No text annotation | homologous J3_5J7L_071 NA | |
| J3_6GXO_010 | 1/A/2517:2520, 1/A/2545:2547, 1/A/2561:2567 | No text annotation | homologous J3_5J7L_046 NA | |
| J3_6GXO_012 | 1/A/2812:2815, 1/A/2831:2836, 1/A/2882:2888 | No text annotation | homologous J3_5J7L_048 NA | |
| J3_6GXO_031 | 1/a/586:588, 1/a/651:655, 1/a/751:755 | No text annotation | homologous J3_4LFB_015 J3_17385.5 | |
| J3_6GXO_016 | 1/a/672:673, 1/a/717:725, 1/a/732:734 | No text annotation | homologous J3_5J7L_003 NA | |
| J3_6GXO_017 | 1/a/826:829, 1/a/857:861, 1/a/868:874 | No text annotation | homologous J3_5J7L_004 NA | |
| J3_6GXO_018 | 1/a/936:939, 1/a/1344:1350, 1/a/1372:1379 | No text annotation | homologous J3_4LFB_002 J3_85722.1 | |
| J3_6GXO_019 | 1/a/943:946, 1/a/1235:1237, 1/a/1337:1340 | No text annotation | homologous J3_4LFB_003 J3_44359.1 | |
| J3_6GXO_020 | 1/a/955:962, 1/a/973:984, 1/a/1221:1225 | No text annotation | homologous J3_5J7L_006 NA | |
| J3_6GXO_023 | 1/a/1063:1068, 1/a/1107:1113, 1/a/1187:1193 | No text annotation | homologous J3_4LFB_007 J3_01343.1 | |
| J3_6GXO_033 | 1/a/1073:1074, 1/a/1083:1086, 1/a/1099:1102 | No text annotation | homologous J3_4LFB_017 J3_11018.1 | |
| J3_6GXO_025 | 1/a/1116:1118, 1/a/1155:1158, 1/a/1181:1184 | No text annotation | homologous J3_5J7L_010 NA | |
| J3_6GXO_034 | 1/a/1116:1118, 1/a/1155:1161, 1/a/1175:1184 | No text annotation | homologous J3_5J7L_054 NA | |
| J4_6GXO_002 | 1/A/297:301, 1/A/316:319, 1/A/323:325, 1/A/337:341 | No text annotation | homologous J4_5J7L_019 NA | |
| J4_6GXO_003 | 1/A/601:604, 1/A/624:628, 1/A/635:638, 1/A/650:656 | No text annotation | homologous J4_5J7L_020 NA | |
| J4_6GXO_016 | 1/A/1270:1276, 1/A/1294:1295, 1/A/1645:1648, 1/A/2009:2010 | No text annotation | homologous J4_5J7L_021 NA | |
| J4_6GXO_005 | 1/A/1310:1314, 1/A/1338:1343, 1/A/1404:1405, 1/A/1597:1604 | No text annotation | homologous J4_5J7L_022 NA | |
| J4_6GXO_008 | 1/A/1772:1776, 1/A/1788:1792, 1/A/1827:1830, 1/A/1975:1979 | No text annotation | homologous J4_5J7L_025 NA | |
| J4_6GXO_009 | 1/A/1833:1835, 1/A/1905:1906, 1/A/1924:1933, 1/A/1967:1972 | No text annotation | homologous J4_5J7L_026 NA | |
| J4_6GXO_017 | 1/A/2285:2289, 1/A/2343:2347, 1/A/2370:2372, 1/A/2381:2383 | No text annotation | homologous J4_9DFE_009 J4_98139.1 | |
| J4_6GXO_012 | 1/a/115:122, 1/a/239:240, 1/a/286:289, 1/a/311:312 | No text annotation | homologous J4_5J7L_001 NA | |
| J4_6GXO_013 | 1/a/142:144, 1/a/178:184, 1/a/193:198, 1/a/219:221 | No text annotation | homologous J4_5J7L_002 NA | |
| J4_6GXO_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_6GXO_001 | 1/A/47:54, 1/A/116:121, 1/A/130:131, 1/A/148:150, 1/A/176:178 | No text annotation | homologous J5_5J7L_013 NA | |
| J5_6GXO_002 | 1/A/531:533, 1/A/560:564, 1/A/577:579, 1/A/1261:1262, 1/A/2017:2018 | No text annotation | homologous J5_5J7L_014 NA | |
| J5_6GXO_003 | 1/A/584:589, 1/A/668:671, 1/A/809:812, 1/A/1195:1196, 1/A/1250:1256 | No text annotation | homologous J5_5J7L_015 NA | |
| J5_6GXO_004 | 1/A/1674:1682, 1/A/1706:1707, 1/A/1751:1752, 1/A/1756:1764, 1/A/1988:1990 | No text annotation | homologous J5_5J7L_016 NA | |
| J5_6GXO_005 | 1/A/2057:2064, 1/A/2446:2453, 1/A/2500:2507, 1/A/2582:2588, 1/A/2606:2611 | No text annotation | ||
| J5_6GXO_008 | 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_4LFB_002 J5_58574.1 | |
| J6_6GXO_001 | 1/A/45:46, 1/A/179:183, 1/A/214:225, 1/A/230:235, 1/A/262:266, 1/A/426:433 | No text annotation | ||
| J6_6GXO_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_6GXO_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_6GXO_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
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_6GXO_029 | No text annotation | ||
| J3_6GXO_007 | No text annotation | ||
| J3_6GXO_011 | No text annotation | ||
| J3_6GXO_013 | No text annotation | ||
| J3_6GXO_014 | No text annotation | ||
| J3_6GXO_015 | No text annotation | ||
| J3_6GXO_021 | No text annotation | ||
| J3_6GXO_032 | No text annotation | ||
| J3_6GXO_022 | No text annotation | ||
| J3_6GXO_024 | No text annotation | ||
| J3_6GXO_026 | No text annotation | ||
| J4_6GXO_001 | No text annotation | ||
| J4_6GXO_004 | No text annotation | ||
| J4_6GXO_006 | No text annotation | ||
| J4_6GXO_007 | No text annotation | ||
| J4_6GXO_010 | No text annotation | ||
| J4_6GXO_011 | No text annotation | ||
| J4_6GXO_018 | tRNA junction | ||
| J4_6GXO_015 | No text annotation | ||
| J5_6GXO_006 | No text annotation | ||
| J5_6GXO_007 | No text annotation |
Coloring options: