8YLD Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_8YLD_001 | 1/2/7:17 | No text annotation | homologous HL_8C3A_192 NA | |
| HL_8YLD_008 | 1/2/330:338 | GNRA related | homologous HL_8C3A_199 NA | |
| HL_8YLD_015 | 1/2/569:574 | GNRA variation | homologous HL_8C3A_206 NA | |
| HL_8YLD_016 | 1/2/764:772 | No text annotation | homologous HL_8C3A_208 NA | |
| HL_8YLD_019 | 1/2/900:909 | No text annotation | homologous HL_8C3A_211 NA | |
| HL_8YLD_020 | 1/2/937:942 | GNRA | homologous HL_8C3A_212 NA | |
| HL_8YLD_021 | 1/2/997:1007 | No text annotation | homologous HL_8C3A_213 NA | |
| HL_8YLD_024 | 1/2/1121:1126 | GNRA | homologous HL_8C3A_216 NA | |
| HL_8YLD_025 | 1/2/1188:1197 | No text annotation | homologous HL_8P9A_215 HL_97521.1 | |
| HL_8YLD_035 | 1/2/1778:1783 | GNRA variation | homologous HL_8C3A_227 NA | |
| HL_8YLD_036 | 1/A/38:45 | No text annotation | homologous HL_8P9A_113 HL_48677.1 | |
| HL_8YLD_037 | 1/A/69:74 | No text annotation | homologous HL_8C3A_002 NA | |
| HL_8YLD_038 | 1/A/90:96 | No text annotation | homologous HL_8C3A_003 NA | |
| HL_8YLD_039 | 1/A/132:136 | No text annotation | homologous HL_8C3A_004 NA | |
| HL_8YLD_040 | 1/A/194:201 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_005 NA | |
| HL_8YLD_041 | 1/A/208:212 | No text annotation | homologous HL_8P9A_118 HL_75660.7 | |
| HL_8YLD_042 | 1/A/216:224 | T-loop with unstacked turn | homologous HL_8C3A_007 NA | |
| HL_8YLD_043 | 1/A/278:287 | No text annotation | homologous HL_8C3A_008 NA | |
| HL_8YLD_044 | 1/A/303:312 | Pseudoknot geometry | homologous HL_8C3A_009 NA | |
| HL_8YLD_045 | 1/A/357:362 | GNRA | homologous HL_8C3A_010 NA | |
| HL_8YLD_046 | 1/A/382:387 | GNRA | homologous HL_8C3A_011 NA | |
| HL_8YLD_049 | 1/A/640:649 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_014 NA | |
| HL_8YLD_050 | 1/A/687:693 | No text annotation | geometric HL_5J7L_151 NA | |
| HL_8YLD_051 | 1/A/707:712 | GNRA | homologous HL_8C3A_016 NA | |
| HL_8YLD_055 | 1/A/876:885 | No text annotation | homologous HL_8C3A_020 NA | |
| HL_8YLD_056 | 1/A/910:918 | No text annotation | homologous HL_8C3A_021 NA | |
| HL_8YLD_057 | 1/A/958:963 | Externally structured | homologous HL_8C3A_022 NA | |
| HL_8YLD_059 | 1/A/1126:1132 | GNRA | homologous HL_8P9A_137 HL_34789.2 | |
| HL_8YLD_060 | 1/A/1148:1155 | No text annotation | homologous HL_8C3A_026 NA | |
| HL_8YLD_064 | 1/A/1403:1408 | GNRA | homologous HL_8C3A_030 NA | |
| HL_8YLD_065 | 1/A/1462:1470 | T-loop with 2 stacked bulged bases | homologous HL_8C3A_031 NA | |
| HL_8YLD_066 | 1/A/1506:1512 | Pseudoknot geometry with 3' bulge | homologous HL_8C3A_032 NA | |
| HL_8YLD_067 | 1/A/1544:1549 | GNRA variation | homologous HL_8C3A_033 NA | |
| HL_8YLD_069 | 1/A/1599:1608 | No text annotation | homologous HL_8C3A_035 NA | |
| HL_8YLD_070 | 1/A/1634:1639 | GNRA | homologous HL_8C3A_036 NA | |
| HL_8YLD_119 | 1/A/1680:1688 | Pseudoknot geometry | homologous HL_8CRE_036 NA | |
| HL_8YLD_072 | 1/A/1719:1725 | No text annotation | homologous HL_8P9A_149 HL_97067.1 | |
| HL_8YLD_074 | 1/A/1792:1796 | Mini UNCG | homologous HL_8P9A_151 HL_90436.2 | |
| HL_8YLD_075 | 1/A/1844:1851 | No text annotation | homologous HL_8P9A_152 HL_28592.1 | |
| HL_8YLD_076 | 1/A/1862:1868 | GNRA | homologous HL_8P9A_153 HL_34789.2 | |
| HL_8YLD_077 | 1/A/1923:1928 | UNCG | homologous HL_8C3A_043 NA | |
| HL_8YLD_079 | 1/A/2135:2145 | No text annotation | homologous HL_8C3A_046 NA | |
| HL_8YLD_080 | 1/A/2164:2170 | GNRA | homologous HL_8C3A_047 NA | |
| HL_8YLD_081 | 1/A/2220:2225 | GNRA | homologous HL_8C3A_048 NA | |
| HL_8YLD_083 | 1/A/2292:2300 | No text annotation | homologous HL_8C3A_050 NA | |
| HL_8YLD_084 | 1/A/2369:2378 | No text annotation | homologous HL_8P9A_162 HL_78372.1 | |
| HL_8YLD_087 | 1/A/2616:2624 | No text annotation | homologous HL_8C3A_055 NA | |
| HL_8YLD_088 | 1/A/2632:2646 | No text annotation | ||
| HL_8YLD_090 | 1/A/2693:2700 | Pseudoknot geometry | homologous HL_8C3A_058 NA | |
| HL_8YLD_091 | 1/A/2724:2732 | No text annotation | homologous HL_8P9A_169 HL_15296.1 | |
| HL_8YLD_093 | 1/A/2776:2784 | Pseudoknot geometry | homologous HL_8C3A_061 NA | |
| HL_8YLD_096 | 1/A/2918:2928 | No text annotation | ||
| HL_8YLD_097 | 1/A/2963:2968 | GNRA | homologous HL_8P9A_175 HL_34789.2 | |
| HL_8YLD_099 | 1/A/3068:3073 | Ribsomal LSU H95 | homologous HL_8C3A_067 NA | |
| HL_8YLD_100 | 1/A/3110:3124 | No text annotation | homologous HL_8C3A_068 NA | |
| HL_8YLD_102 | 1/A/3240:3247 | No text annotation | homologous HL_8C3A_070 NA | |
| HL_8YLD_103 | 1/A/3303:3311 | No text annotation | homologous HL_8C3A_071 NA | |
| HL_8YLD_107 | 1/B/88:93 | GNRA | homologous HL_8C3A_074 NA | |
| HL_8YLD_108 | 1/C/47:56 | Pseudoknot with intercalation | homologous HL_8C3A_229 NA | |
| HL_8YLD_109 | 1/C/69:89 | No text annotation | homologous HL_8P4V_073 NA | |
| HL_8YLD_110 | 1/C/108:114 | No text annotation | homologous HL_8P9A_188 HL_13184.2 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_8YLD_002 | No text annotation | ||
| HL_8YLD_003 | GNRA related | ||
| HL_8YLD_004 | Externally structured | ||
| HL_8YLD_005 | No text annotation | ||
| HL_8YLD_006 | T-loop with 1 bulged base | ||
| HL_8YLD_007 | Mini UNCG | ||
| HL_8YLD_009 | No text annotation | ||
| HL_8YLD_010 | No text annotation | ||
| HL_8YLD_011 | UNCG | ||
| HL_8YLD_012 | No text annotation | ||
| HL_8YLD_013 | Externally structured | ||
| HL_8YLD_014 | No text annotation | ||
| HL_8YLD_017 | No text annotation | ||
| HL_8YLD_018 | No text annotation | ||
| HL_8YLD_022 | No text annotation | ||
| HL_8YLD_118 | No text annotation | ||
| HL_8YLD_023 | GNRA | ||
| HL_8YLD_026 | GNRA wlth extra near cWW | ||
| HL_8YLD_027 | GNRA | ||
| HL_8YLD_028 | T-loop related | ||
| HL_8YLD_029 | No text annotation | ||
| HL_8YLD_030 | No text annotation | ||
| HL_8YLD_031 | GNRA | ||
| HL_8YLD_032 | No text annotation | ||
| HL_8YLD_033 | No text annotation | ||
| HL_8YLD_034 | No text annotation | ||
| HL_8YLD_047 | No text annotation | ||
| HL_8YLD_048 | GNRA | ||
| HL_8YLD_052 | GNRA | ||
| HL_8YLD_053 | No text annotation | ||
| HL_8YLD_054 | No text annotation | ||
| HL_8YLD_058 | T-loop related | ||
| HL_8YLD_061 | No text annotation | ||
| HL_8YLD_062 | GNRA wlth tandem sheared | ||
| HL_8YLD_063 | Mini UNCG | ||
| HL_8YLD_068 | No text annotation | ||
| HL_8YLD_071 | No text annotation | ||
| HL_8YLD_073 | No text annotation | ||
| HL_8YLD_078 | No text annotation | ||
| HL_8YLD_082 | No text annotation | ||
| HL_8YLD_085 | No text annotation | ||
| HL_8YLD_086 | No text annotation | ||
| HL_8YLD_089 | No text annotation | ||
| HL_8YLD_092 | GNRA | ||
| HL_8YLD_094 | No text annotation | ||
| HL_8YLD_095 | GNRA variation | ||
| HL_8YLD_098 | GNRA | ||
| HL_8YLD_101 | Mini UNCG | ||
| HL_8YLD_104 | Externally structured | ||
| HL_8YLD_105 | No text annotation | ||
| HL_8YLD_106 | No text annotation | ||
| HL_8YLD_111 | No text annotation | ||
| HL_8YLD_112 | No text annotation | ||
| HL_8YLD_113 | tRNA anticodon loop | ||
| HL_8YLD_114 | T-loop with 2 stacked bulged bases | ||
| HL_8YLD_115 | tRNA D-loop | ||
| HL_8YLD_116 | tRNA anticodon loop | ||
| HL_8YLD_117 | T-loop with 2 stacked bulged bases |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_8YLD_001 | 1/2/24:26, 1/2/600:601 | Single bulged C | homologous IL_8P9A_373 IL_05642.2 | |
| IL_8YLD_003 | 1/2/37:41, 1/2/466:471 | Triple sheared related | homologous IL_8C3A_394 NA | |
| IL_8YLD_004 | 1/2/42:48, 1/2/431:433 | No text annotation | homologous IL_8C3A_395 NA | |
| IL_8YLD_005 | 1/2/50:52, 1/2/428:429 | Minor groove platform | homologous IL_8C3A_396 NA | |
| IL_8YLD_008 | 1/2/109:112, 1/2/302:305 | Tandem non-canonical cWW pairs | homologous IL_8P9A_380 IL_71194.2 | |
| IL_8YLD_010 | 1/2/117:122, 1/2/295:299 | No text annotation | homologous IL_8P9A_382 IL_31545.1 | |
| IL_8YLD_019 | 1/2/311:316, 1/2/348:355 | Kink-turn with non-sequential stacking | homologous IL_8C3A_410 NA | |
| IL_8YLD_021 | 1/2/363:365, 1/2/376:381 | No text annotation | homologous IL_8P9A_393 IL_93336.1 | |
| IL_8YLD_023 | 1/2/411:413, 1/2/420:423 | No text annotation | geometric IL_4V87_185 NA | |
| IL_8YLD_024 | 1/2/439:441, 1/2/463:464 | Single bulged U | homologous IL_8P9A_396 IL_97561.2 | |
| IL_8YLD_025 | 1/2/443:447, 1/2/460:461 | C-loop | homologous IL_8C3A_416 NA | |
| IL_8YLD_026 | 1/2/447:448, 1/2/458:460 | Single bulged G | homologous IL_8C3A_417 NA | |
| IL_8YLD_031 | 1/2/562:568, 1/2/575:583 | No text annotation | homologous IL_8P9A_404 IL_52042.1 | |
| IL_8YLD_032 | 1/2/616:622, 1/2/1104:1105 | No text annotation | homologous IL_8C3A_426 NA | |
| IL_8YLD_033 | 1/2/624:626, 1/2/973:975 | Isolated non-canonical cWW pair | homologous IL_8C3A_427 NA | |
| IL_8YLD_227 | 1/2/627:631, 1/2/968:972 | tSH-tHW-tHS | homologous IL_8CRE_426 IL_05821.1 | |
| IL_8YLD_036 | 1/2/746:747, 1/2/802:805 | Major groove minor groove platform; mini C-loop | homologous IL_8C3A_430 NA | |
| IL_8YLD_228 | 1/2/751:759, 1/2/791:798 | No text annotation | homologous IL_8P9A_414 IL_59049.2 | |
| IL_8YLD_041 | 1/2/865:866, 1/2/962:965 | Major groove platform; stack outside cWW | geometric IL_6N5P_003 IL_74641.2 | |
| IL_8YLD_044 | 1/2/874:878, 1/2/950:953 | Tandem non-canonical cWW pairs | homologous IL_8P9A_420 IL_15225.2 | |
| IL_8YLD_045 | 1/2/885:888, 1/2/924:927 | Tandem non-canonical cWW pairs | homologous IL_8C3A_439 NA | |
| IL_8YLD_046 | 1/2/893:899, 1/2/910:919 | Kink-turn related | homologous IL_8C3A_440 NA | |
| IL_8YLD_049 | 1/2/1034:1036, 1/2/1095:1101 | No text annotation | homologous IL_8C3A_443 NA | |
| IL_8YLD_050 | 1/2/1041:1044, 1/2/1074:1077 | Tandem non-canonical cWW pairs | homologous IL_8C3A_444 NA | |
| IL_8YLD_230 | 1/2/1111:1118, 1/2/1129:1134 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_8CRE_442 IL_84044.1 | |
| IL_8YLD_053 | 1/2/1146:1147, 1/2/1630:1632 | Single bulged A | homologous IL_8C3A_447 NA | |
| IL_8YLD_054 | 1/2/1149:1151, 1/2/1627:1628 | Single bulged G | homologous IL_8C3A_448 NA | |
| IL_8YLD_231 | 1/2/1157:1160, 1/2/1617:1621 | C-loop | geometric IL_8C3A_449 NA | |
| IL_8YLD_065 | 1/2/1280:1281, 1/2/1426:1428 | Single bulged A | homologous IL_8C3A_458 NA | |
| IL_8YLD_066 | 1/2/1283:1285, 1/2/1421:1424 | No text annotation | ||
| IL_8YLD_067 | 1/2/1290:1292, 1/2/1323:1325 | Isolated cWH basepair | homologous IL_8P9A_442 IL_10892.2 | |
| IL_8YLD_077 | 1/2/1636:1638, 1/2/1764:1767 | No text annotation | homologous IL_8P9A_452 IL_18228.1 | |
| IL_8YLD_078 | 1/2/1638:1641, 1/2/1760:1764 | No text annotation | homologous IL_8C3A_471 NA | |
| IL_8YLD_079 | 1/2/1642:1644, 1/2/1757:1759 | Isolated non-canonical cWW pair | homologous IL_8C3A_472 NA | |
| IL_8YLD_085 | 1/2/1672:1674, 1/2/1727:1729 | Isolated non-canonical cWW pair | homologous IL_8P9A_461 IL_01003.2 | |
| IL_8YLD_086 | 1/2/1675:1678, 1/2/1723:1726 | Tandem non-canonical cWW pairs | homologous IL_8C3A_479 NA | |
| IL_8YLD_087 | 1/2/1678:1682, 1/2/1719:1723 | Triple sheared | homologous IL_8C3A_480 NA | |
| IL_8YLD_090 | 1/A/7:8, 1/C/150:152 | Single bulged C | homologous IL_8P9A_231 IL_05642.2 | |
| IL_8YLD_091 | 1/A/13:15, 1/C/144:145 | Single bulged U | homologous IL_8C3A_003 NA | |
| IL_8YLD_092 | 1/A/27:28, 1/A/56:58 | No text annotation | homologous IL_8C3A_004 NA | |
| IL_8YLD_093 | 1/A/32:38, 1/A/45:52 | 8x7 Sarcin-Ricin; G-bulge | geometric IL_4V9F_006 IL_62167.2 | |
| IL_8YLD_094 | 1/A/82:89, 1/A/97:103 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_8P9A_235 IL_53348.1 | |
| IL_8YLD_095 | 1/A/123:124, 1/A/144:149 | No text annotation | homologous IL_8C3A_007 NA | |
| IL_8YLD_096 | 1/A/125:127, 1/A/141:143 | Isolated non-canonical cWW pair | homologous IL_8C3A_008 NA | |
| IL_8YLD_101 | 1/A/337:339, 1/C/25:26 | Single bulged A | homologous IL_8C3A_014 NA | |
| IL_8YLD_102 | 1/A/404:410, 1/C/13:19 | Triple sheared with non-canonical cWW | homologous IL_8C3A_016 NA | |
| IL_8YLD_103 | 1/A/429:431, 1/A/628:630 | Isolated non-canonical cWW pair | homologous IL_8P9A_245 IL_71625.2 | |
| IL_8YLD_104 | 1/A/512:513, 1/A/577:579 | Single bulged A | homologous IL_8C3A_020 NA | |
| IL_8YLD_105 | 1/A/517:525, 1/A/567:573 | No text annotation | homologous IL_8P9A_247 IL_06606.1 | |
| IL_8YLD_106 | 1/A/531:538, 1/A/553:561 | No text annotation | homologous IL_8P9A_248 IL_25001.1 | |
| IL_8YLD_107 | 1/A/668:670, 1/A/792:794 | Isolated non-canonical cWW pair | homologous IL_8C3A_023 NA | |
| IL_8YLD_108 | 1/A/680:684, 1/A/696:700 | No text annotation | homologous IL_8P9A_250 IL_87030.1 | |
| IL_8YLD_109 | 1/A/725:728, 1/A/741:745 | UAA/GAN variation | homologous IL_8P9A_251 IL_45790.1 | |
| IL_8YLD_110 | 1/A/752:753, 1/A/779:781 | Single bulged A | homologous IL_8C3A_026 NA | |
| IL_8YLD_111 | 1/A/755:756, 1/A/775:777 | Single bulged U | homologous IL_8C3A_027 NA | |
| IL_8YLD_112 | 1/A/758:763, 1/A/768:773 | No text annotation | homologous IL_8C3A_028 NA | |
| IL_8YLD_113 | 1/A/803:805, 1/A/938:940 | Isolated non-canonical cWW pair | homologous IL_8C3A_029 NA | |
| IL_8YLD_114 | 1/A/805:809, 1/A/931:938 | No text annotation | homologous IL_8C3A_030 NA | |
| IL_8YLD_115 | 1/A/828:829, 1/A/895:897 | Single bulged A | homologous IL_8C3A_031 NA | |
| IL_8YLD_117 | 1/A/834:838, 1/A/855:859 | Triple sheared | homologous IL_8C3A_033 NA | |
| IL_8YLD_233 | 1/A/869:872, 1/A/888:890 | No text annotation | homologous IL_8CRE_034 NA | |
| IL_8YLD_119 | 1/A/873:875, 1/A/886:887 | Single bulged U | homologous IL_8C3A_035 NA | |
| IL_8YLD_120 | 1/A/907:909, 1/A/919:923 | No text annotation | homologous IL_8C3A_036 NA | |
| IL_8YLD_121 | 1/A/969:970, 1/A/1111:1113 | No text annotation | homologous IL_8C3A_038 NA | |
| IL_8YLD_122 | 1/A/977:982, 1/A/1101:1104 | No text annotation | ||
| IL_8YLD_234 | 1/A/983:985, 1/A/1099:1100 | No text annotation | homologous IL_8CRE_040 NA | |
| IL_8YLD_124 | 1/A/991:998, 1/A/1050:1058 | No text annotation | ||
| IL_8YLD_125 | 1/A/999:1004, 1/A/1046:1049 | C-loop with bulged stacked A's | homologous IL_8C3A_043 NA | |
| IL_8YLD_126 | 1/A/1005:1009, 1/A/1041:1045 | No text annotation | homologous IL_8C3A_044 NA | |
| IL_8YLD_131 | 1/A/1120:1122, 1/A/1136:1138 | Isolated non-canonical cWW pair | homologous IL_8P9A_274 IL_01003.2 | |
| IL_8YLD_132 | 1/A/1167:1171, 1/A/1328:1332 | UAA/GAN | homologous IL_8C3A_051 NA | |
| IL_8YLD_133 | 1/A/1173:1182, 1/A/1324:1326 | Isolated non-canonical cWW pair | geometric IL_8C3A_427 NA | |
| IL_8YLD_134 | 1/A/1187:1194, 1/A/1314:1319 | No text annotation | homologous IL_8C3A_054 NA | |
| IL_8YLD_135 | 1/A/1194:1205, 1/A/1299:1314 | No text annotation | homologous IL_8P9A_280 IL_34501.1 | |
| IL_8YLD_136 | 1/A/1207:1209, 1/A/1296:1297 | Single bulged U | homologous IL_8P9A_281 IL_97561.2 | |
| IL_8YLD_235 | 1/A/1217:1226, 1/A/1283:1288 | Kink-turn | homologous IL_8CRE_057 NA | |
| IL_8YLD_139 | 1/A/1376:1378, 1/A/1428:1431 | No text annotation | homologous IL_8C3A_061 NA | |
| IL_8YLD_140 | 1/A/1385:1387, 1/A/1420:1421 | Single bulged A | homologous IL_8P9A_286 IL_14190.2 | |
| IL_8YLD_141 | 1/A/1388:1395, 1/A/1415:1419 | Kink-turn | homologous IL_8C3A_063 NA | |
| IL_8YLD_142 | 1/A/1398:1400, 1/A/1411:1412 | Single bulged A | homologous IL_8P9A_288 IL_14190.2 | |
| IL_8YLD_143 | 1/A/1444:1450, 1/A/2354:2359 | No text annotation | homologous IL_8C3A_065 NA | |
| IL_8YLD_144 | 1/A/1501:1505, 1/A/1513:1515 | C-loop | homologous IL_8C3A_482 NA | |
| IL_8YLD_145 | 1/A/1532:1536, 1/A/1585:1590 | UAA/GAN | homologous IL_8C3A_067 NA | |
| IL_8YLD_147 | 1/A/1623:1631, 1/A/1811:1822 | No text annotation | ||
| IL_8YLD_149 | 1/A/1661:1663, 1/A/1786:1788 | Isolated non-canonical cWW pair | homologous IL_8C3A_074 NA | |
| IL_8YLD_150 | 1/A/1669:1670, 1/A/1778:1780 | Single bulged C | homologous IL_8P9A_297 IL_05642.2 | |
| IL_8YLD_151 | 1/A/1670:1671, 1/A/1776:1778 | Single stack bend | homologous IL_8C3A_076 NA | |
| IL_8YLD_152 | 1/A/1702:1707, 1/A/1737:1743 | No text annotation | homologous IL_8P9A_300 IL_00680.1 | |
| IL_8YLD_153 | 1/A/1711:1717, 1/A/1727:1733 | No text annotation | homologous IL_8P9A_301 IL_93476.1 | |
| IL_8YLD_236 | 1/A/1883:1889, 1/A/2346:2349 | No text annotation | homologous IL_8CRE_079 NA | |
| IL_8YLD_155 | 1/A/1895:1897, 1/A/2338:2340 | No text annotation | homologous IL_8P9A_303 IL_10432.1 | |
| IL_8YLD_156 | 1/A/1898:1901, 1/A/2336:2337 | Major groove platform; stack outside cWW | geometric IL_8C3A_082 NA | |
| IL_8YLD_157 | 1/A/1898:1906, 1/A/2333:2337 | No text annotation | geometric IL_8C3A_484 NA | |
| IL_8YLD_158 | 1/A/1901:1906, 1/A/2333:2336 | No text annotation | homologous IL_8C3A_083 NA | |
| IL_8YLD_159 | 1/A/1918:1923, 1/A/1928:1934 | No text annotation | homologous IL_8C3A_084 NA | |
| IL_8YLD_237 | 1/A/1940:1942, 1/A/2106:2108 | Isolated non-canonical cWW pair | homologous IL_8P9A_308 IL_01003.2 | |
| IL_8YLD_161 | 1/A/1947:1948, 1/A/2098:2101 | No text annotation | homologous IL_8P9A_309 IL_18824.1 | |
| IL_8YLD_162 | 1/A/2128:2129, 1/A/2323:2325 | Single bulged A | homologous IL_8C3A_087 NA | |
| IL_8YLD_163 | 1/A/2156:2161, 1/A/2173:2180 | No text annotation | homologous IL_8C3A_088 NA | |
| IL_8YLD_164 | 1/A/2196:2199, 1/A/2245:2246 | Minor groove platform, major groove intercalation | homologous IL_8P9A_312 IL_55206.1 | |
| IL_8YLD_165 | 1/A/2200:2201, 1/A/2241:2244 | Multiple bulged bases | homologous IL_8C3A_090 NA | |
| IL_8YLD_168 | 1/A/2211:2217, 1/A/2228:2234 | No text annotation | homologous IL_8C3A_093 NA | |
| IL_8YLD_169 | 1/A/2276:2277, 1/A/2307:2310 | No text annotation | homologous IL_8C3A_094 NA | |
| IL_8YLD_170 | 1/A/2277:2288, 1/A/2304:2307 | No text annotation | homologous IL_8C3A_095 NA | |
| IL_8YLD_171 | 1/A/2391:2394, 1/A/2986:2988 | No text annotation | homologous IL_8C3A_096 NA | |
| IL_8YLD_238 | 1/A/2396:2398, 1/A/2981:2984 | No text annotation | homologous IL_8P9A_320 IL_80025.1 | |
| IL_8YLD_173 | 1/A/2409:2411, 1/A/2811:2812 | Single bulged U | homologous IL_8C3A_098 NA | |
| IL_8YLD_239 | 1/A/2412:2413, 1/A/2807:2810 | Minor groove platform | homologous IL_8CRE_099 NA | |
| IL_8YLD_175 | 1/A/2423:2425, 1/A/2604:2607 | No text annotation | homologous IL_8P9A_323 IL_87316.1 | |
| IL_8YLD_240 | 1/A/2520:2526, 1/A/2584:2587 | No text annotation | homologous IL_8CRE_106 NA | |
| IL_8YLD_241 | 1/A/2529:2563, 1/A/2578:2581 | No text annotation | ||
| IL_8YLD_182 | 1/A/2614:2615, 1/A/2625:2627 | Single bulged A | homologous IL_8P9A_325 IL_14190.2 | |
| IL_8YLD_183 | 1/A/2666:2668, 1/A/2686:2690 | No text annotation | homologous IL_8C3A_108 NA | |
| IL_8YLD_184 | 1/A/2718:2721, 1/A/2735:2738 | Tandem non-canonical cWW pairs | homologous IL_8P9A_327 IL_15225.2 | |
| IL_8YLD_186 | 1/A/2823:2826, 1/A/2863:2867 | No text annotation | homologous IL_8C3A_111 NA | |
| IL_8YLD_187 | 1/A/2826:2828, 1/A/2862:2863 | Major groove platform | homologous IL_8C3A_112 NA | |
| IL_8YLD_188 | 1/A/2828:2831, 1/A/2857:2862 | No text annotation | ||
| IL_8YLD_189 | 1/A/2835:2839, 1/A/2849:2853 | No text annotation | homologous IL_8C3A_114 NA | |
| IL_8YLD_190 | 1/A/2876:2877, 1/A/2949:2951 | No text annotation | homologous IL_8P9A_334 IL_46637.2 | |
| IL_8YLD_191 | 1/A/2879:2881, 1/A/2943:2947 | No text annotation | homologous IL_8C3A_116 NA | |
| IL_8YLD_192 | 1/A/2881:2882, 1/A/2940:2943 | No text annotation | homologous IL_8C3A_117 NA | |
| IL_8YLD_193 | 1/A/2889:2891, 1/A/2912:2914 | Isolated non-canonical cWW pair | geometric IL_4YHW_002 IL_01003.2 | |
| IL_8YLD_194 | 1/A/2889:2892, 1/A/2909:2914 | No text annotation | geometric IL_5TBW_475 NA | |
| IL_8YLD_195 | 1/A/2891:2892, 1/A/2909:2912 | Major groove platform with intercalation | homologous IL_8C3A_119 NA | |
| IL_8YLD_197 | 1/A/3004:3007, 1/A/3139:3144 | Double sheared | homologous IL_8P9A_342 IL_58355.2 | |
| IL_8YLD_198 | 1/A/3012:3014, 1/A/3040:3042 | Isolated non-canonical cWW pair | homologous IL_8P9A_343 IL_71625.2 | |
| IL_8YLD_199 | 1/A/3018:3025, 1/A/3030:3036 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_8P9A_344 IL_62167.2 | |
| IL_8YLD_200 | 1/A/3047:3051, 1/A/3091:3094 | No text annotation | homologous IL_8P9A_345 IL_06671.1 | |
| IL_8YLD_201 | 1/A/3054:3059, 1/A/3084:3088 | No text annotation | homologous IL_8P9A_346 IL_98200.1 | |
| IL_8YLD_243 | 1/A/3063:3064, 1/A/3077:3080 | No text annotation | homologous IL_8P9A_347 NA | |
| IL_8YLD_203 | 1/A/3103:3107, 1/A/3127:3131 | UAA/GAN | homologous IL_8C3A_129 NA | |
| IL_8YLD_206 | 1/A/3179:3188, 1/A/3204:3210 | No text annotation | homologous IL_8C3A_132 NA | |
| IL_8YLD_208 | 1/A/3225:3229, 1/A/3258:3260 | No text annotation | homologous IL_8P9A_353 IL_62925.1 | |
| IL_8YLD_211 | 1/A/3300:3303, 1/A/3311:3314 | Tandem non-canonical cWW pairs | homologous IL_8P9A_356 IL_71194.2 | |
| IL_8YLD_245 | 1/A/3324:3325, 1/A/3381:3383 | Single bulged U | homologous IL_8P9A_358 IL_97561.2 | |
| IL_8YLD_214 | 1/A/3328:3330, 1/A/3373:3378 | No text annotation | homologous IL_8C3A_138 NA | |
| IL_8YLD_215 | 1/A/3332:3337, 1/A/3367:3371 | No text annotation | homologous IL_8C3A_139 NA | |
| IL_8YLD_218 | 1/B/15:16, 1/B/63:65 | Single bulged A | homologous IL_8C3A_143 NA | |
| IL_8YLD_222 | 1/B/72:80, 1/B/100:106 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_8P9A_369 IL_62167.2 | |
| IL_8YLD_223 | 1/B/84:87, 1/B/94:96 | Isolated non-canonical cWW pair | homologous IL_8C3A_149 NA | |
| IL_8YLD_224 | 1/C/64:66, 1/C/93:96 | Isolated non-canonical cWW with bulges | homologous IL_8P9A_371 IL_76400.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_8YLD_002 | Isolated non-canonical cWW pair | ||
| IL_8YLD_006 | No text annotation | ||
| IL_8YLD_007 | No text annotation | ||
| IL_8YLD_009 | Multiple bulged bases | ||
| IL_8YLD_011 | tWH-tWH-tHW-tHW | ||
| IL_8YLD_012 | No text annotation | ||
| IL_8YLD_226 | Double sheared | ||
| IL_8YLD_013 | No text annotation | ||
| IL_8YLD_014 | No text annotation | ||
| IL_8YLD_015 | Isolated non-canonical cWW pair | ||
| IL_8YLD_016 | Single bulged A | ||
| IL_8YLD_017 | No text annotation | ||
| IL_8YLD_018 | Single bulged U | ||
| IL_8YLD_020 | No text annotation | ||
| IL_8YLD_022 | Isolated cWH basepair | ||
| IL_8YLD_027 | Single bulged A | ||
| IL_8YLD_028 | No text annotation | ||
| IL_8YLD_029 | SSU/LSU pseudoknot | ||
| IL_8YLD_030 | Single bulged U | ||
| IL_8YLD_034 | No text annotation | ||
| IL_8YLD_035 | No text annotation | ||
| IL_8YLD_037 | Isolated non-canonical cWW pair | ||
| IL_8YLD_038 | No text annotation | ||
| IL_8YLD_039 | No text annotation | ||
| IL_8YLD_040 | Isolated cWH basepair | ||
| IL_8YLD_042 | Isolated non-canonical cWW pair | ||
| IL_8YLD_229 | Single bulged U | ||
| IL_8YLD_043 | Isolated non-canonical cWW pair | ||
| IL_8YLD_047 | No text annotation | ||
| IL_8YLD_048 | No text annotation | ||
| IL_8YLD_051 | No text annotation | ||
| IL_8YLD_052 | No text annotation | ||
| IL_8YLD_055 | No text annotation | ||
| IL_8YLD_056 | Isolated non-canonical cWW pair | ||
| IL_8YLD_057 | Minor groove platform | ||
| IL_8YLD_058 | Isolated non-canonical cWW pair | ||
| IL_8YLD_059 | No text annotation | ||
| IL_8YLD_060 | No text annotation | ||
| IL_8YLD_061 | No text annotation | ||
| IL_8YLD_062 | No text annotation | ||
| IL_8YLD_063 | Single bulged U | ||
| IL_8YLD_064 | No text annotation | ||
| IL_8YLD_068 | Minor groove platform | ||
| IL_8YLD_069 | Isolated non-canonical cWW pair | ||
| IL_8YLD_070 | No text annotation | ||
| IL_8YLD_071 | No text annotation | ||
| IL_8YLD_072 | No text annotation | ||
| IL_8YLD_073 | No text annotation | ||
| IL_8YLD_074 | No text annotation | ||
| IL_8YLD_075 | No text annotation | ||
| IL_8YLD_076 | No text annotation | ||
| IL_8YLD_080 | No text annotation | ||
| IL_8YLD_081 | Isolated non-canonical cWW pair | ||
| IL_8YLD_082 | No text annotation | ||
| IL_8YLD_083 | Isolated non-canonical cWW pair | ||
| IL_8YLD_084 | Double sheared | ||
| IL_8YLD_088 | No text annotation | ||
| IL_8YLD_089 | Isolated tWW contact | ||
| IL_8YLD_097 | Single stack bend | ||
| IL_8YLD_232 | No text annotation | ||
| IL_8YLD_098 | No text annotation | ||
| IL_8YLD_099 | Major groove platform | ||
| IL_8YLD_100 | Single bulged U | ||
| IL_8YLD_116 | Single bulged G | ||
| IL_8YLD_118 | No text annotation | ||
| IL_8YLD_123 | Isolated non-canonical cWW pair | ||
| IL_8YLD_127 | Isolated non-canonical cWW pair | ||
| IL_8YLD_128 | No text annotation | ||
| IL_8YLD_129 | Isolated non-canonical cWW pair | ||
| IL_8YLD_130 | Single bulged G | ||
| IL_8YLD_137 | No text annotation | ||
| IL_8YLD_138 | No text annotation | ||
| IL_8YLD_146 | No text annotation | ||
| IL_8YLD_148 | Triple sheared | ||
| IL_8YLD_154 | No text annotation | ||
| IL_8YLD_160 | Tandem non-canonical cWW pairs | ||
| IL_8YLD_166 | Single bulged U | ||
| IL_8YLD_167 | No text annotation | ||
| IL_8YLD_172 | No text annotation | ||
| IL_8YLD_174 | No text annotation | ||
| IL_8YLD_176 | No text annotation | ||
| IL_8YLD_177 | No text annotation | ||
| IL_8YLD_178 | No text annotation | ||
| IL_8YLD_179 | No text annotation | ||
| IL_8YLD_180 | No text annotation | ||
| IL_8YLD_181 | No text annotation | ||
| IL_8YLD_242 | No text annotation | ||
| IL_8YLD_185 | No text annotation | ||
| IL_8YLD_196 | Single bulged A | ||
| IL_8YLD_202 | Isolated non-canonical cWW pair | ||
| IL_8YLD_244 | Isolated non-canonical cWW pair | ||
| IL_8YLD_204 | Tandem non-canonical cWW pairs | ||
| IL_8YLD_205 | Single bulged A | ||
| IL_8YLD_207 | Single bulged U | ||
| IL_8YLD_209 | Isolated non-canonical cWW pair | ||
| IL_8YLD_210 | Tandem non-canonical cWW pairs | ||
| IL_8YLD_212 | Single bulged U | ||
| IL_8YLD_213 | Isolated non-canonical cWW with bulges | ||
| IL_8YLD_216 | Single bulged U | ||
| IL_8YLD_217 | Double sheared; A in syn | ||
| IL_8YLD_219 | No text annotation | ||
| IL_8YLD_220 | Single stack bend | ||
| IL_8YLD_221 | No text annotation | ||
| IL_8YLD_225 | Single bulged U |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_8YLD_001 | 1/2/41:42, 1/2/433:439, 1/2/464:466 | No text annotation | homologous J3_8C3A_082 NA | |
| J3_8YLD_003 | 1/2/633:635, 1/2/861:865, 1/2/965:966 | No text annotation | geometric J3_4V88_080 NA | |
| J3_8YLD_004 | 1/2/633:635, 1/2/861:866, 1/2/962:966 | No text annotation | homologous J3_8C3A_034 NA | |
| J3_8YLD_006 | 1/2/881:884, 1/2/928:936, 1/2/943:947 | No text annotation | homologous J3_8P9A_074 J3_23895.1 | |
| J3_8YLD_007 | 1/2/1037:1039, 1/2/1079:1083, 1/2/1090:1094 | No text annotation | homologous J3_8P9A_075 J3_94999.1 | |
| J3_8YLD_009 | 1/2/1161:1164, 1/2/1581:1587, 1/2/1609:1616 | No text annotation | homologous J3_8C3A_038 NA | |
| J3_8YLD_011 | 1/2/1180:1187, 1/2/1198:1209, 1/2/1454:1458 | No text annotation | homologous J3_8C3A_040 NA | |
| J3_8YLD_012 | 1/2/1215:1220, 1/2/1263:1267, 1/2/1442:1448 | No text annotation | homologous J3_8C3A_041 NA | |
| J3_8YLD_013 | 1/2/1285:1288, 1/2/1327:1332, 1/2/1419:1421 | No text annotation | ||
| J3_8YLD_014 | 1/2/1293:1294, 1/2/1303:1306, 1/2/1318:1322 | No text annotation | homologous J3_8P9A_081 J3_76043.4 | |
| J3_8YLD_015 | 1/2/1336:1338, 1/2/1386:1389, 1/2/1412:1415 | No text annotation | geometric J3_8C3A_043 NA | |
| J3_8YLD_016 | 1/2/1336:1338, 1/2/1386:1392, 1/2/1406:1415 | No text annotation | ||
| J3_8YLD_018 | 1/A/113:123, 1/A/149:158, 1/A/263:267 | No text annotation | homologous J3_8C3A_001 NA | |
| J3_8YLD_019 | 1/A/113:124, 1/A/144:158, 1/A/263:267 | No text annotation | ||
| J3_8YLD_020 | 1/A/340:356, 1/A/363:368, 1/C/21:24 | No text annotation | ||
| J3_8YLD_021 | 1/A/369:379, 1/A/390:404, 1/C/19:20 | No text annotation | homologous J3_8P9A_047 J3_17917.1 | |
| J3_8YLD_041 | 1/A/502:503, 1/A/588:597, 1/A/606:611 | No text annotation | homologous J3_8P9A_048 J3_86133.1 | |
| J3_8YLD_042 | 1/A/814:820, 1/A/905:907, 1/A/923:926 | No text annotation | homologous J3_8P9A_049 J3_46658.1 | |
| J3_8YLD_024 | 1/A/829:831, 1/A/863:867, 1/A/892:895 | No text annotation | homologous J3_8C3A_004 NA | |
| J3_8YLD_025 | 1/A/986:987, 1/A/1062:1066, 1/A/1092:1098 | No text annotation | homologous J3_8P9A_051 J3_84137.1 | |
| J3_8YLD_027 | 1/A/1479:1485, 1/A/1857:1859, 1/A/1871:1874 | No text annotation | homologous J3_8P9A_053 J3_05025.1 | |
| J3_8YLD_028 | 1/A/1488:1491, 1/A/1837:1843, 1/A/1852:1854 | No text annotation | homologous J3_8P9A_054 J3_76012.1 | |
| J3_8YLD_043 | 1/A/1526:1531, 1/A/1591:1595, 1/A/1612:1613 | No text annotation | homologous J3_8P9A_055 J3_94309.1 | |
| J3_8YLD_044 | 1/A/1537:1542, 1/A/1551:1561, 1/A/1579:1584 | No text annotation | ||
| J3_8YLD_031 | 1/A/1631:1632, 1/A/1641:1645, 1/A/1810:1811 | No text annotation | homologous J3_8C3A_054 NA | |
| J3_8YLD_032 | 1/A/1654:1658, 1/A/1791:1792, 1/A/1796:1801 | No text annotation | homologous J3_8P9A_058 J3_08594.1 | |
| J3_8YLD_033 | 1/A/2432:2437, 1/A/2510:2517, 1/A/2590:2597 | No text annotation | ||
| J3_8YLD_034 | 1/A/2651:2653, 1/A/2754:2765, 1/A/2793:2798 | No text annotation | homologous J3_8C3A_056 NA | |
| J3_8YLD_035 | 1/A/2664:2666, 1/A/2690:2692, 1/A/2701:2706 | No text annotation | homologous J3_8P9A_062 J3_05327.1 | |
| J3_8YLD_036 | 1/A/2886:2889, 1/A/2914:2916, 1/A/2930:2936 | No text annotation | homologous J3_8C3A_011 NA | |
| J3_8YLD_037 | 1/A/3168:3176, 1/A/3212:3220, 1/A/3265:3282 | No text annotation | ||
| J3_8YLD_038 | 1/A/3298:3300, 1/A/3314:3318, 1/A/3388:3390 | No text annotation | homologous J3_8P9A_065 J3_81015.1 | |
| J3_8YLD_039 | 1/B/9:14, 1/B/66:67, 1/B/111:112 | No text annotation | homologous J3_8P9A_066 J3_26985.1 | |
| J3_8YLD_040 | 1/C/44:45, 1/C/58:64, 1/C/96:100 | No text annotation | homologous J3_8C3A_060 NA | |
| J4_8YLD_001 | 1/2/99:107, 1/2/307:309, 1/2/357:361, 1/2/383:384 | No text annotation | homologous J4_8C3A_021 NA | |
| J4_8YLD_002 | 1/2/622:624, 1/2/975:980, 1/2/1021:1032, 1/2/1103:1104 | No text annotation | homologous J4_8C3A_022 NA | |
| J4_8YLD_003 | 1/A/112:113, 1/A/267:272, 1/A/293:299, 1/A/316:319 | No text annotation | homologous J4_8P9A_012 J4_94698.1 | |
| J4_8YLD_004 | 1/A/185:189, 1/A/205:208, 1/A/212:214, 1/A/226:231 | No text annotation | homologous J4_8C3A_002 NA | |
| J4_8YLD_005 | 1/A/1451:1457, 1/A/1475:1476, 1/A/1877:1880, 1/A/2352:2353 | No text annotation | homologous J4_8P9A_014 J4_34212.1 | |
| J4_8YLD_006 | 1/A/1492:1496, 1/A/1520:1525, 1/A/1614:1615, 1/A/1829:1836 | No text annotation | homologous J4_8C3A_004 NA | |
| J4_8YLD_007 | 1/A/1674:1675, 1/A/1693:1698, 1/A/1747:1753, 1/A/1772:1773 | No text annotation | ||
| J4_8YLD_012 | 1/A/2130:2134, 1/A/2146:2150, 1/A/2186:2191, 1/A/2317:2322 | No text annotation | ||
| J4_8YLD_013 | 1/A/2191:2194, 1/A/2248:2249, 1/A/2267:2276, 1/A/2310:2317 | No text annotation | ||
| J4_8YLD_014 | 1/A/2654:2658, 1/A/2712:2716, 1/A/2740:2742, 1/A/2751:2753 | No text annotation | homologous J4_8CRE_008 NA | |
| J4_8YLD_009 | 1/A/3010:3012, 1/A/3042:3043, 1/A/3098:3100, 1/A/3134:3136 | No text annotation | homologous J4_8C3A_009 NA | |
| J5_8YLD_004 | 1/2/124:143, 1/2/172:182, 1/2/203:204, 1/2/263:265, 1/2/289:293 | No text annotation | ||
| J5_8YLD_005 | 1/2/124:143, 1/2/172:182, 1/2/203:204, 1/2/263:267, 1/2/288:293 | No text annotation | ||
| J5_8YLD_006 | 1/2/636:641, 1/2/693:699, 1/2/739:744, 1/2/807:817, 1/2/854:860 | No text annotation | ||
| J5_8YLD_014 | 1/A/20:22, 1/C/35:42, 1/C/102:107, 1/C/115:116, 1/C/137:139 | No text annotation | homologous J5_8P9A_010 J5_27223.1 | |
| J5_8YLD_008 | 1/A/658:663, 1/A/799:802, 1/A/941:944, 1/A/1375:1376, 1/A/1431:1437 | No text annotation | homologous J5_8C3A_002 NA | |
| J5_8YLD_009 | 1/A/675:678, 1/A/702:706, 1/A/713:721, 1/A/749:751, 1/A/782:787 | No text annotation | homologous J5_8P9A_012 J5_56629.1 | |
| J5_8YLD_010 | 1/A/1492:1496, 1/A/1520:1531, 1/A/1591:1595, 1/A/1612:1615, 1/A/1829:1836 | No text annotation | ||
| J5_8YLD_011 | 1/A/1906:1914, 1/A/1938:1939, 1/A/2109:2110, 1/A/2114:2122, 1/A/2331:2333 | No text annotation | homologous J5_8C3A_004 NA | |
| J5_8YLD_012 | 1/A/2399:2406, 1/A/2815:2823, 1/A/2867:2876, 1/A/2951:2957, 1/A/2975:2980 | No text annotation | ||
| J5_8YLD_013 | 1/A/2416:2419, 1/A/2611:2614, 1/A/2627:2628, 1/A/2650:2651, 1/A/2798:2804 | No text annotation | homologous J5_8C3A_006 NA | |
| J6_8YLD_001 | 1/A/22:27, 1/A/58:68, 1/A/75:79, 1/A/106:110, 1/A/321:331, 1/C/32:35 | No text annotation | ||
| J6_8YLD_002 | 1/A/2130:2134, 1/A/2146:2150, 1/A/2186:2194, 1/A/2248:2252, 1/A/2264:2276, 1/A/2310:2322 | No text annotation | ||
| J6_8YLD_003 | 1/A/2416:2419, 1/A/2611:2614, 1/A/2627:2628, 1/A/2650:2653, 1/A/2754:2765, 1/A/2793:2804 | No text annotation | ||
| J7_8YLD_001 | 1/A/949:956, 1/A/965:968, 1/A/1114:1117, 1/A/1141:1146, 1/A/1157:1161, 1/A/1338:1339, 1/A/1365:1370 | No text annotation |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| J3_8YLD_002 | No text annotation | ||
| J3_8YLD_005 | No text annotation | ||
| J3_8YLD_008 | No text annotation | ||
| J3_8YLD_010 | No text annotation | ||
| J3_8YLD_017 | No text annotation | ||
| J3_8YLD_022 | No text annotation | ||
| J3_8YLD_023 | No text annotation | ||
| J3_8YLD_026 | No text annotation | ||
| J3_8YLD_029 | No text annotation | ||
| J3_8YLD_030 | No text annotation | ||
| J4_8YLD_008 | No text annotation | ||
| J4_8YLD_010 | No text annotation | ||
| J4_8YLD_011 | No text annotation | ||
| J5_8YLD_001 | No text annotation | ||
| J5_8YLD_002 | No text annotation | ||
| J5_8YLD_003 | No text annotation | ||
| J5_8YLD_007 | No text annotation |
Coloring options: