9RTV Hairpin, Internal, and multi-helix Junction Loop Motifs
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| HL_9RTV_001 | 1/A/59:68 | No text annotation | ||
| HL_9RTV_002 | 1/A/87:95 | No text annotation | geometric HL_8B0X_034 HL_65821.1 | |
| HL_9RTV_003 | 1/A/123:128 | No text annotation | homologous HL_7A0S_003 HL_82710.3 | |
| HL_9RTV_005 | 1/A/158:168 | No text annotation | geometric HL_8B0X_037 HL_50765.2 | |
| HL_9RTV_006 | 1/A/194:201 | No text annotation | homologous HL_7A0S_006 HL_48677.1 | |
| HL_9RTV_007 | 1/A/225:230 | No text annotation | geometric HL_8B0X_039 HL_63151.1 | |
| HL_9RTV_008 | 1/A/246:252 | No text annotation | homologous HL_7A0S_008 HL_76371.2 | |
| HL_9RTV_009 | 1/A/305:312 | T-loop with 1 bulged base | homologous HL_7A0S_010 HL_13999.3 | |
| HL_9RTV_010 | 1/A/327:335 | T-loop with unstacked turn | homologous HL_7A0S_012 HL_27670.4 | |
| HL_9RTV_011 | 1/A/382:392 | No text annotation | homologous HL_7A0S_013 HL_91503.8 | |
| HL_9RTV_012 | 1/A/410:417 | Pseudoknot geometry | homologous HL_7A0S_014 HL_30680.5 | |
| HL_9RTV_013 | 1/A/462:467 | GNRA | homologous HL_7A0S_015 HL_34789.3 | |
| HL_9RTV_014 | 1/A/487:493 | GNRA | homologous HL_7A0S_016 HL_34789.3 | |
| HL_9RTV_016 | 1/A/566:575 | T-loop with 2 stacked bulged bases | homologous HL_7A0S_018 HL_33597.3 | |
| HL_9RTV_017 | 1/A/611:617 | No text annotation | geometric HL_9E6Q_019 HL_42293.1 | |
| HL_9RTV_018 | 1/A/629:634 | GNRA | homologous HL_7A0S_020 HL_34789.3 | |
| HL_9RTV_019 | 1/A/641:647 | No text annotation | geometric HL_8B0X_051 HL_07380.1 | |
| HL_9RTV_020 | 1/A/712:719 | No text annotation | geometric HL_8B0X_052 HL_98423.3 | |
| HL_9RTV_021 | 1/A/744:753 | No text annotation | homologous HL_7A0S_022 HL_50204.1 | |
| HL_9RTV_022 | 1/A/779:785 | UNCG variation | geometric HL_2NUE_001 HL_51020.2 | |
| HL_9RTV_023 | 1/A/826:831 | No text annotation | homologous HL_7A0S_024 HL_27530.1 | |
| HL_9RTV_025 | 1/A/955:962 | GNRA | homologous HL_7A0S_026 HL_34789.3 | |
| HL_9RTV_026 | 1/A/978:985 | No text annotation | homologous HL_7A0S_027 HL_47171.1 | |
| HL_9RTV_027 | 1/A/1062:1076 | No text annotation | ||
| HL_9RTV_030 | 1/A/1222:1227 | GNRA | homologous HL_7A0S_031 HL_34789.3 | |
| HL_9RTV_031 | 1/A/1281:1289 | T-loop with 2 stacked bulged bases | homologous HL_7A0S_032 HL_33597.3 | |
| HL_9RTV_032 | 1/A/1324:1330 | Pseudoknot geometry with 3' bulge | homologous HL_7A0S_033 HL_49081.1 | |
| HL_9RTV_033 | 1/A/1363:1368 | GNRA variation | homologous HL_7A0S_034 HL_34789.3 | |
| HL_9RTV_034 | 1/A/1389:1398 | No text annotation | homologous HL_7A0S_035 HL_77449.1 | |
| HL_9RTV_035 | 1/A/1451:1459 | No text annotation | geometric HL_8B0X_064 HL_00557.1 | |
| HL_9RTV_036 | 1/A/1492:1498 | No text annotation | homologous HL_7A0S_037 HL_39243.1 | |
| HL_9RTV_038 | 1/A/1565:1568 | Mini UNCG | homologous HL_7A0S_039 HL_90436.3 | |
| HL_9RTV_039 | 1/A/1612:1619 | No text annotation | homologous HL_7A0S_040 HL_28592.2 | |
| HL_9RTV_040 | 1/A/1630:1636 | GNRA | geometric HL_7WKP_001 HL_34789.3 | |
| HL_9RTV_041 | 1/A/1691:1696 | UNCG | homologous HL_7A0S_042 HL_61337.3 | |
| HL_9RTV_043 | 1/A/1752:1756 | No text annotation | homologous HL_7A0S_044 HL_80709.5 | |
| HL_9RTV_044 | 1/A/1777:1787 | No text annotation | geometric HL_4WF9_043 HL_87681.1 | |
| HL_9RTV_045 | 1/A/1806:1811 | GNRA | homologous HL_7A0S_046 HL_93535.2 | |
| HL_9RTV_047 | 1/A/1909:1921 | No text annotation | ||
| HL_9RTV_048 | 1/A/1949:1957 | No text annotation | homologous HL_7A0S_048 HL_61418.2 | |
| HL_9RTV_049 | 1/A/2027:2036 | No text annotation | homologous HL_7A0S_049 HL_78372.1 | |
| HL_9RTV_051 | 1/A/2209:2215 | No text annotation | geometric HL_8B0X_079 HL_42293.1 | |
| HL_9RTV_052 | 1/A/2248:2256 | No text annotation | homologous HL_7A0S_052 HL_11974.2 | |
| HL_9RTV_053 | 1/A/2264:2276 | No text annotation | homologous HL_7A0S_053 HL_02042.1 | |
| HL_9RTV_054 | 1/A/2304:2312 | No text annotation | geometric HL_9E6Q_072 HL_02452.1 | |
| HL_9RTV_055 | 1/A/2324:2331 | Pseudoknot geometry | homologous HL_7A0S_055 HL_52651.2 | |
| HL_9RTV_056 | 1/A/2356:2361 | No text annotation | geometric HL_8B0X_084 HL_34789.3 | |
| HL_9RTV_057 | 1/A/2374:2379 | GNRA | homologous HL_7A0S_057 HL_34789.3 | |
| HL_9RTV_058 | 1/A/2404:2413 | No text annotation | homologous HL_7A0S_058 HL_51853.2 | |
| HL_9RTV_059 | 1/A/2471:2479 | No text annotation | homologous HL_7A0S_059 HL_52011.1 | |
| HL_9RTV_060 | 1/A/2528:2535 | GNRA variation | homologous HL_7A0S_060 HL_46665.2 | |
| HL_9RTV_061 | 1/A/2551:2557 | No text annotation | homologous HL_7A0S_061 HL_48677.1 | |
| HL_9RTV_062 | 1/A/2594:2599 | GNRA | homologous HL_7A0S_062 HL_34789.3 | |
| HL_9RTV_063 | 1/A/2658:2663 | GNRA | homologous HL_7A0S_063 HL_34789.3 | |
| HL_9RTV_064 | 1/A/2701:2706 | Ribsomal LSU H95 | homologous HL_7A0S_064 HL_12125.2 | |
| HL_9RTV_065 | 1/A/2745:2759 | No text annotation | homologous HL_7A0S_065 HL_53269.2 | |
| HL_9RTV_066 | 1/A/2796:2799 | Mini UNCG | geometric HL_4V9F_021 HL_90436.3 | |
| HL_9RTV_067 | 1/A/2819:2827 | No text annotation | homologous HL_7A0S_067 HL_37889.1 | |
| HL_9RTV_068 | 1/A/2856:2861 | GNRA | homologous HL_7A0S_068 HL_34789.3 | |
| HL_9RTV_069 | 1/B/34:48 | No text annotation | geometric HL_8B0X_102 HL_97756.3 | |
| HL_9RTV_070 | 1/B/38:44 | No text annotation | homologous HL_4V9F_071 HL_59381.2 | |
| HL_9RTV_071 | 1/B/86:90 | Mini UNCG | geometric HL_8P9A_182 HL_90436.3 | |
| HL_9RTV_072 | 1/a/12:22 | No text annotation | homologous HL_6CZR_072 NA | |
| HL_9RTV_077 | 1/a/259:267 | GNRA related | homologous HL_6CZR_077 NA | |
| HL_9RTV_078 | 1/a/296:301 | GNRA | homologous HL_6CZR_078 NA | |
| HL_9RTV_079 | 1/a/320:333 | No text annotation | homologous HL_6CZR_079 NA | |
| HL_9RTV_080 | 1/a/342:347 | UNCG | homologous HL_6CZR_080 NA | |
| HL_9RTV_081 | 1/a/379:384 | GNRA | homologous HL_6CZR_081 NA | |
| HL_9RTV_084 | 1/a/522:527 | GNRA variation | homologous HL_6CZR_216 NA | |
| HL_9RTV_085 | 1/a/617:623 | No text annotation | homologous HL_6CZR_085 NA | |
| HL_9RTV_086 | 1/a/689:698 | No text annotation | homologous HL_6CZR_086 NA | |
| HL_9RTV_087 | 1/a/726:731 | GNRA | homologous HL_6CZR_087 NA | |
| HL_9RTV_088 | 1/a/786:796 | No text annotation | homologous HL_6CZR_088 NA | |
| HL_9RTV_090 | 1/a/862:867 | GNRA | homologous HL_6CZR_090 NA | |
| HL_9RTV_091 | 1/a/897:902 | GNRA | homologous HL_6CZR_091 NA | |
| HL_9RTV_092 | 1/a/963:972 | No text annotation | homologous HL_6CZR_092 NA | |
| HL_9RTV_094 | 1/a/1076:1081 | GNRA | homologous HL_6CZR_095 NA | |
| HL_9RTV_095 | 1/a/1089:1096 | T-loop related | homologous HL_6CZR_096 NA | |
| HL_9RTV_097 | 1/a/1165:1171 | GNRA | homologous HL_6CZR_098 NA | |
| HL_9RTV_098 | 1/a/1265:1270 | No text annotation | homologous HL_6CZR_099 NA | |
| HL_9RTV_099 | 1/a/1314:1323 | T-loop with 3 stacked bulged bases | homologous HL_6CZR_100 NA | |
| HL_9RTV_100 | 1/a/1356:1366 | No text annotation | homologous HL_6CZR_101 NA | |
| HL_9RTV_102 | 1/a/1515:1520 | GNRA | homologous HL_6CZR_103 NA | |
| HL_9RTV_103 | 1/v/31:39 | tRNA anticodon loop | homologous HL_9MTS_102 HL_81376.3 | |
| HL_9RTV_106 | 1/w/30:40 | No text annotation | homologous HL_4QEI_002 HL_10874.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| HL_9RTV_004 | No text annotation | ||
| HL_9RTV_015 | tRNA D-loop | ||
| HL_9RTV_024 | No text annotation | ||
| HL_9RTV_028 | No text annotation | ||
| HL_9RTV_029 | No text annotation | ||
| HL_9RTV_037 | No text annotation | ||
| HL_9RTV_042 | No text annotation | ||
| HL_9RTV_046 | GNRA | ||
| HL_9RTV_050 | No text annotation | ||
| HL_9RTV_073 | No text annotation | ||
| HL_9RTV_074 | GNRA | ||
| HL_9RTV_075 | GNRA | ||
| HL_9RTV_076 | No text annotation | ||
| HL_9RTV_082 | No text annotation | ||
| HL_9RTV_083 | No text annotation | ||
| HL_9RTV_089 | No text annotation | ||
| HL_9RTV_093 | No text annotation | ||
| HL_9RTV_096 | No text annotation | ||
| HL_9RTV_101 | No text annotation | ||
| HL_9RTV_104 | T-loop with 2 stacked bulged bases | ||
| HL_9RTV_105 | No text annotation | ||
| HL_9RTV_107 | T-loop with 2 stacked bulged bases |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| IL_9RTV_001 | 1/A/24:30, 1/A/510:516 | Triple sheared with non-canonical cWW | homologous IL_7A0S_001 IL_22311.1 | |
| IL_9RTV_002 | 1/A/36:37, 1/A/442:444 | Single bulged A | homologous IL_7A0S_002 IL_14190.2 | |
| IL_9RTV_003 | 1/A/43:44, 1/A/434:436 | Minor groove platform | homologous IL_7A0S_003 IL_34520.3 | |
| IL_9RTV_004 | 1/A/81:85, 1/A/97:105 | Kink-turn | homologous IL_7A0S_004 IL_94910.1 | |
| IL_9RTV_005 | 1/A/183:184, 1/A/212:214 | Single stack bend | homologous IL_7A0S_005 IL_15011.2 | |
| IL_9RTV_006 | 1/A/188:194, 1/A/201:208 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_7A0S_006 IL_62167.3 | |
| IL_9RTV_007 | 1/A/239:245, 1/A/253:258 | No text annotation | geometric IL_8B0X_071 IL_02666.1 | |
| IL_9RTV_008 | 1/A/269:271, 1/A/366:370 | No text annotation | ||
| IL_9RTV_010 | 1/A/293:295, 1/A/343:347 | No text annotation | geometric IL_8B0X_074 IL_76658.1 | |
| IL_9RTV_011 | 1/A/481:484, 1/A/496:509 | No text annotation | geometric IL_8B0X_075 IL_44923.1 | |
| IL_9RTV_012 | 1/A/536:539, 1/A/554:557 | No text annotation | geometric IL_8B0X_076 IL_58355.2 | |
| IL_9RTV_013 | 1/A/564:566, 1/A/575:577 | Isolated non-canonical cWW pair | homologous IL_7A0S_011 IL_71625.2 | |
| IL_9RTV_014 | 1/A/606:610, 1/A/618:622 | AAA cross-strand stack | homologous IL_7A0S_013 IL_66798.3 | |
| IL_9RTV_015 | 1/A/672:674, 1/A/806:808 | Isolated non-canonical cWW pair | homologous IL_7A0S_014 IL_01003.3 | |
| IL_9RTV_016 | 1/A/674:678, 1/A/799:806 | tHW-tHW cross-strand stack | homologous IL_7A0S_015 IL_73855.1 | |
| IL_9RTV_017 | 1/A/697:698, 1/A/763:765 | Single bulged A | homologous IL_7A0S_016 IL_14190.2 | |
| IL_9RTV_018 | 1/A/702:703, 1/A/728:730 | Single bulged G | homologous IL_7A0S_017 IL_28408.2 | |
| IL_9RTV_019 | 1/A/703:707, 1/A/724:728 | No text annotation | geometric IL_8GLP_059 IL_15190.2 | |
| IL_9RTV_020 | 1/A/738:740, 1/A/757:758 | No text annotation | geometric IL_8B0X_084 IL_48076.8 | |
| IL_9RTV_021 | 1/A/775:777, 1/A/787:791 | No text annotation | geometric IL_9E6Q_032 IL_89509.1 | |
| IL_9RTV_022 | 1/A/844:847, 1/A/933:934 | No text annotation | geometric IL_8B0X_087 IL_79144.1 | |
| IL_9RTV_023 | 1/A/844:848, 1/A/930:934 | No text annotation | geometric IL_8B0X_179 IL_01742.1 | |
| IL_9RTV_024 | 1/A/847:848, 1/A/930:933 | No text annotation | geometric IL_8B0X_088 IL_36175.2 | |
| IL_9RTV_025 | 1/A/850:851, 1/A/926:928 | No text annotation | geometric IL_8B0X_089 IL_15011.2 | |
| IL_9RTV_026 | 1/A/856:862, 1/A/915:921 | No text annotation | geometric IL_8B0X_090 IL_94128.1 | |
| IL_9RTV_027 | 1/A/862:863, 1/A/913:915 | Minor groove platform | homologous IL_7A0S_028 IL_34520.3 | |
| IL_9RTV_028 | 1/A/864:868, 1/A/909:912 | C-loop | homologous IL_7A0S_029 IL_16301.1 | |
| IL_9RTV_029 | 1/A/870:872, 1/A/905:907 | Isolated near basepair | homologous IL_7A0S_030 IL_42997.5 | |
| IL_9RTV_030 | 1/A/875:879, 1/A/898:902 | No text annotation | geometric IL_8B0X_094 IL_87767.2 | |
| IL_9RTV_032 | 1/A/994:996, 1/A/1159:1160 | Single bulged C | homologous IL_7A0S_032 IL_05642.2 | |
| IL_9RTV_033 | 1/A/998:1002, 1/A/1153:1157 | UAA/GAN | homologous IL_7A0S_033 IL_08938.1 | |
| IL_9RTV_034 | 1/A/1004:1011, 1/A/1150:1151 | SSU/LSU pseudoknot | homologous IL_7A0S_034 IL_11411.1 | |
| IL_9RTV_035 | 1/A/1011:1013, 1/A/1149:1150 | Single bulged U | homologous IL_7A0S_035 IL_97561.3 | |
| IL_9RTV_036 | 1/A/1018:1024, 1/A/1140:1144 | Kink-turn related | homologous IL_7A0S_036 IL_57188.6 | |
| IL_9RTV_037 | 1/A/1024:1030, 1/A/1124:1140 | No text annotation | geometric IL_8B0X_101 IL_50715.4 | |
| IL_9RTV_038 | 1/A/1031:1034, 1/A/1121:1123 | Isolated non-canonical cWW pair | homologous IL_7A0S_038 IL_76400.1 | |
| IL_9RTV_039 | 1/A/1038:1041, 1/A/1114:1117 | No text annotation | geometric IL_8B0X_103 IL_15225.2 | |
| IL_9RTV_041 | 1/A/1196:1198, 1/A/1247:1250 | Isolated cWS basepair | homologous IL_7A0S_041 IL_42997.5 | |
| IL_9RTV_042 | 1/A/1202:1206, 1/A/1240:1243 | No text annotation | ||
| IL_9RTV_043 | 1/A/1208:1215, 1/A/1234:1238 | Kink-turn | homologous IL_7A0S_043 IL_90775.2 | |
| IL_9RTV_044 | 1/A/1262:1269, 1/A/2011:2017 | 8x7 Sarcin-Ricin; G-bulge | homologous IL_7A0S_045 IL_62167.3 | |
| IL_9RTV_045 | 1/A/1310:1313, 1/A/1603:1604 | No text annotation | geometric IL_9E6Q_008 IL_74641.2 | |
| IL_9RTV_046 | 1/A/1319:1323, 1/A/1331:1333 | C-loop | homologous IL_7A0S_047 IL_06671.1 | |
| IL_9RTV_047 | 1/A/1351:1355, 1/A/1376:1380 | UAA/GAN | homologous IL_7A0S_048 IL_89021.3 | |
| IL_9RTV_048 | 1/A/1357:1361, 1/A/1370:1374 | tSH-tHW-tHS | homologous IL_7A0S_049 IL_05821.1 | |
| IL_9RTV_050 | 1/A/1417:1421, 1/A/1577:1581 | UAA/GAN | homologous IL_7A0S_051 IL_08938.1 | |
| IL_9RTV_051 | 1/A/1432:1435, 1/A/1557:1561 | No text annotation | geometric IL_8B0X_115 IL_28284.1 | |
| IL_9RTV_052 | 1/A/1437:1440, 1/A/1551:1555 | tSH-tHW | homologous IL_7A0S_053 IL_74317.1 | |
| IL_9RTV_053 | 1/A/1450:1451, 1/A/1459:1461 | Single bulged U | geometric IL_8VMA_002 IL_97561.3 | |
| IL_9RTV_054 | 1/A/1468:1471, 1/A/1520:1524 | No text annotation | geometric IL_8B0X_118 IL_68574.5 | |
| IL_9RTV_055 | 1/A/1474:1478, 1/A/1513:1517 | Double sheared with near cWW | homologous IL_7A0S_056 IL_87767.2 | |
| IL_9RTV_056 | 1/A/1481:1482, 1/A/1507:1510 | No text annotation | geometric IL_8B0X_120 IL_52564.1 | |
| IL_9RTV_057 | 1/A/1489:1491, 1/A/1499:1500 | Single bulged A | geometric IL_4V9F_098 IL_14190.2 | |
| IL_9RTV_058 | 1/A/1526:1529, 1/A/1542:1546 | No text annotation | geometric IL_8B0X_122 IL_45790.2 | |
| IL_9RTV_059 | 1/A/1651:1656, 1/A/2004:2006 | No text annotation | homologous IL_7A0S_059 IL_12566.5 | |
| IL_9RTV_060 | 1/A/1663:1665, 1/A/1995:1997 | Isolated tWW turn | homologous IL_7A0S_060 IL_10432.1 | |
| IL_9RTV_061 | 1/A/1666:1669, 1/A/1993:1994 | No text annotation | geometric IL_9E6Q_063 IL_74641.2 | |
| IL_9RTV_062 | 1/A/1666:1674, 1/A/1990:1994 | No text annotation | geometric IL_4WF9_117 IL_80252.1 | |
| IL_9RTV_063 | 1/A/1669:1674, 1/A/1990:1993 | Intercalated tWH | homologous IL_7A0S_062 IL_28217.1 | |
| IL_9RTV_064 | 1/A/1686:1691, 1/A/1696:1702 | tSH-tSH-tHH-tHS | homologous IL_7A0S_063 IL_20700.1 | |
| IL_9RTV_065 | 1/A/1712:1718, 1/A/1742:1746 | No text annotation | geometric IL_8B0X_128 IL_82100.1 | |
| IL_9RTV_067 | 1/A/1727:1728, 1/A/1731:1733 | No text annotation | geometric IL_8B0X_130 IL_05642.2 | |
| IL_9RTV_068 | 1/A/1770:1771, 1/A/1980:1982 | Single bulged A | homologous IL_7A0S_064 IL_14190.2 | |
| IL_9RTV_069 | 1/A/1798:1804, 1/A/1813:1821 | Kink-turn related | homologous IL_7A0S_065 IL_17069.6 | |
| IL_9RTV_070 | 1/A/1837:1840, 1/A/1902:1903 | Minor groove platform, major groove intercalation | homologous IL_7A0S_066 IL_55206.1 | |
| IL_9RTV_071 | 1/A/1841:1842, 1/A/1898:1901 | Major groove intercalation | homologous IL_7A0S_067 IL_77710.1 | |
| IL_9RTV_072 | 1/A/1846:1849, 1/A/1893:1894 | Major groove minor groove platform; mini C-loop | homologous IL_7A0S_068 IL_73108.2 | |
| IL_9RTV_073 | 1/A/1851:1860, 1/A/1882:1891 | No text annotation | ||
| IL_9RTV_074 | 1/A/1864:1867, 1/A/1874:1878 | No text annotation | geometric IL_8B0X_136 IL_77691.7 | |
| IL_9RTV_075 | 1/A/1933:1934, 1/A/1964:1967 | No text annotation | geometric IL_8B0X_137 IL_24886.2 | |
| IL_9RTV_076 | 1/A/1934:1945, 1/A/1961:1964 | No text annotation | homologous IL_7A0S_072 IL_04332.3 | |
| IL_9RTV_077 | 1/A/2050:2052, 1/A/2617:2618 | Major groove platform | homologous IL_7A0S_073 IL_48076.8 | |
| IL_9RTV_078 | 1/A/2054:2056, 1/A/2612:2615 | No text annotation | geometric IL_8B0X_140 IL_80025.1 | |
| IL_9RTV_079 | 1/A/2067:2069, 1/A/2442:2443 | Single bulged U | homologous IL_7A0S_075 IL_97561.3 | |
| IL_9RTV_080 | 1/A/2070:2071, 1/A/2438:2441 | Minor groove platform | homologous IL_7A0S_076 IL_34520.3 | |
| IL_9RTV_081 | 1/A/2081:2083, 1/A/2236:2239 | Isolated tHS basepair with bulges | homologous IL_7A0S_077 IL_87316.1 | |
| IL_9RTV_082 | 1/A/2085:2087, 1/A/2232:2234 | Isolated non-canonical cWW pair | homologous IL_7A0S_078 IL_71625.2 | |
| IL_9RTV_086 | 1/A/2202:2204, 1/A/2220:2221 | No text annotation | geometric IL_8B0X_146 IL_97561.3 | |
| IL_9RTV_087 | 1/A/2350:2353, 1/A/2364:2367 | Double sheared | homologous IL_7A0S_081 IL_58355.2 | |
| IL_9RTV_088 | 1/A/2401:2403, 1/A/2414:2415 | No text annotation | geometric IL_8B0X_149 IL_97561.3 | |
| IL_9RTV_089 | 1/A/2453:2454, 1/A/2498:2500 | Single stack bend | homologous IL_7A0S_083 IL_15011.2 | |
| IL_9RTV_090 | 1/A/2454:2455, 1/A/2496:2498 | Major groove platform | homologous IL_7A0S_084 IL_48076.8 | |
| IL_9RTV_091 | 1/A/2457:2459, 1/A/2493:2494 | Major groove platform | homologous IL_7A0S_085 IL_48076.8 | |
| IL_9RTV_092 | 1/A/2459:2461, 1/A/2489:2493 | Major groove minor groove platform with extra cWW | homologous IL_7A0S_086 IL_36931.2 | |
| IL_9RTV_093 | 1/A/2466:2470, 1/A/2480:2484 | Double sheared with non-canonical cWW | homologous IL_7A0S_087 IL_87767.2 | |
| IL_9RTV_094 | 1/A/2507:2508, 1/A/2580:2582 | Major groove platform | homologous IL_7A0S_088 IL_46637.2 | |
| IL_9RTV_095 | 1/A/2510:2512, 1/A/2574:2578 | Isolated non-canonical cWW with bulges | homologous IL_7A0S_089 IL_68118.3 | |
| IL_9RTV_096 | 1/A/2512:2513, 1/A/2571:2574 | Multiple bulged bases | homologous IL_7A0S_090 IL_44609.2 | |
| IL_9RTV_097 | 1/A/2522:2523, 1/A/2540:2543 | Major groove platform with intercalation | homologous IL_7A0S_091 IL_94991.2 | |
| IL_9RTV_098 | 1/A/2591:2592, 1/A/2601:2603 | No text annotation | geometric IL_8GLP_154 IL_14190.2 | |
| IL_9RTV_099 | 1/A/2636:2640, 1/A/2774:2782 | tSH-tHS-tHW | homologous IL_7A0S_093 IL_04638.4 | |
| IL_9RTV_100 | 1/A/2652:2658, 1/A/2663:2668 | Sarcin-Ricin target in LSU H95; G-bulge | homologous IL_7A0S_094 IL_16458.6 | |
| IL_9RTV_101 | 1/A/2680:2684, 1/A/2725:2727 | C-loop | homologous IL_7A0S_095 IL_63596.12 | |
| IL_9RTV_102 | 1/A/2687:2691, 1/A/2718:2722 | UAA/GAN related, with intercalation | homologous IL_7A0S_096 IL_82016.1 | |
| IL_9RTV_103 | 1/A/2695:2696, 1/A/2711:2714 | Multiple bulged bases | homologous IL_7A0S_097 IL_44609.2 | |
| IL_9RTV_104 | 1/A/2737:2742, 1/A/2762:2767 | UAA/GAN with extra cWW | homologous IL_7A0S_098 IL_91079.1 | |
| IL_9RTV_105 | 1/A/2795:2796, 1/A/2799:2801 | No text annotation | geometric IL_8B0X_166 IL_14190.2 | |
| IL_9RTV_106 | 1/A/2806:2811, 1/A/2889:2892 | No text annotation | ||
| IL_9RTV_107 | 1/A/2838:2839, 1/A/2878:2880 | Major groove intercalation | homologous IL_7A0S_099 IL_28408.2 | |
| IL_9RTV_108 | 1/A/2843:2846, 1/A/2870:2874 | No text annotation | geometric IL_8B0X_169 IL_60988.2 | |
| IL_9RTV_109 | 1/A/2847:2852, 1/A/2865:2869 | No text annotation | homologous IL_7A0S_101 IL_48489.1 | |
| IL_9RTV_110 | 1/B/17:18, 1/B/65:67 | Major groove intercalation | homologous IL_4V9F_101 IL_14190.2 | |
| IL_9RTV_111 | 1/B/23:28, 1/B/56:60 | No text annotation | geometric IL_8B0X_172 IL_18472.5 | |
| IL_9RTV_113 | 1/B/34:38, 1/B/44:48 | Symmetric double minor groove platform | homologous IL_4V9F_104 IL_58103.12 | |
| IL_9RTV_114 | 1/B/71:79, 1/B/97:105 | Bacterial 5S Loop E | homologous IL_7A0S_106 IL_71138.1 | |
| IL_9RTV_115 | 1/a/30:32, 1/a/552:553 | Single bulged G | homologous IL_6CZR_113 NA | |
| IL_9RTV_116 | 1/a/44:45, 1/a/396:398 | Single bulged A | homologous IL_6CZR_114 NA | |
| IL_9RTV_117 | 1/a/47:52, 1/a/359:361 | No text annotation | geometric IL_8B0X_003 IL_32983.2 | |
| IL_9RTV_118 | 1/a/54:56, 1/a/356:357 | Minor groove platform | homologous IL_6CZR_116 NA | |
| IL_9RTV_119 | 1/a/63:66, 1/a/103:104 | Multiple bulged bases | homologous IL_6CZR_117 NA | |
| IL_9RTV_123 | 1/a/128:131, 1/a/231:233 | No text annotation | ||
| IL_9RTV_124 | 1/a/132:136, 1/a/227:230 | Minor groove platform related | homologous IL_6CZR_120 NA | |
| IL_9RTV_125 | 1/a/147:153, 1/a/168:175 | tWH-tWH-tHW-tHW | homologous IL_6CZR_121 NA | |
| IL_9RTV_127 | 1/a/242:247, 1/a/277:284 | Kink-turn with non-sequential stacking | homologous IL_6CZR_123 NA | |
| IL_9RTV_128 | 1/a/249:252, 1/a/274:275 | No text annotation | homologous IL_6CZR_405 NA | |
| IL_9RTV_129 | 1/a/292:293, 1/a/304:308 | C-loop | homologous IL_6CZR_125 NA | |
| IL_9RTV_130 | 1/a/367:369, 1/a/392:393 | Single bulged U | homologous IL_6CZR_126 NA | |
| IL_9RTV_131 | 1/a/371:375, 1/a/389:390 | C-loop | homologous IL_6CZR_127 NA | |
| IL_9RTV_132 | 1/a/375:376, 1/a/387:389 | Single bulged G | homologous IL_6CZR_358 NA | |
| IL_9RTV_133 | 1/a/409:416, 1/a/427:433 | No text annotation | geometric IL_8B0X_019 IL_62329.1 | |
| IL_9RTV_134 | 1/a/440:442, 1/a/492:497 | No text annotation | geometric IL_8B0X_020 IL_02111.1 | |
| IL_9RTV_135 | 1/a/446:450, 1/a/483:488 | No text annotation | geometric IL_8B0X_021 IL_82100.1 | |
| IL_9RTV_136 | 1/a/450:455, 1/a/477:483 | No text annotation | homologous IL_6CZR_406 NA | |
| IL_9RTV_138 | 1/a/504:511, 1/a/540:541 | SSU/LSU pseudoknot | homologous IL_6CZR_132 NA | |
| IL_9RTV_139 | 1/a/515:521, 1/a/528:536 | Kink-turn related | homologous IL_6CZR_133 NA | |
| IL_9RTV_140 | 1/a/569:575, 1/a/880:881 | No text annotation | homologous IL_6CZR_134 NA | |
| IL_9RTV_141 | 1/a/580:584, 1/a/757:761 | tSH-tHW-tHS | homologous IL_6CZR_135 NA | |
| IL_9RTV_142 | 1/a/594:596, 1/a/644:645 | Major groove platform | homologous IL_6CZR_407 NA | |
| IL_9RTV_143 | 1/a/597:598, 1/a/640:643 | Major groove minor groove platform; mini C-loop | homologous IL_6CZR_137 NA | |
| IL_9RTV_144 | 1/a/602:604, 1/a/634:636 | Isolated cWH basepair | geometric IL_4KTG_004 IL_10892.2 | |
| IL_9RTV_145 | 1/a/605:612, 1/a/628:633 | No text annotation | homologous IL_6CZR_408 NA | |
| IL_9RTV_146 | 1/a/654:655, 1/a/751:754 | No text annotation | geometric IL_8B0X_030 IL_74641.2 | |
| IL_9RTV_147 | 1/a/659:660, 1/a/745:747 | No text annotation | geometric IL_8OI5_088 IL_15011.2 | |
| IL_9RTV_148 | 1/a/662:666, 1/a/740:743 | Tandem non-canonical cWW pairs | homologous IL_6CZR_141 NA | |
| IL_9RTV_149 | 1/a/673:677, 1/a/713:717 | Triple non-canonical cWW pairs | homologous IL_6CZR_409 NA | |
| IL_9RTV_150 | 1/a/684:688, 1/a/699:706 | No text annotation | geometric IL_8B0X_034 IL_71972.1 | |
| IL_9RTV_151 | 1/a/774:778, 1/a/804:805 | Left turn | homologous IL_6CZR_144 NA | |
| IL_9RTV_152 | 1/a/779:783, 1/a/799:803 | tSH-tHW-tHS | homologous IL_6CZR_145 NA | |
| IL_9RTV_153 | 1/a/887:894, 1/a/905:910 | 8x6 Sarcin-Ricin with inserted Y; G-bulge | homologous IL_6CZR_364 NA | |
| IL_9RTV_154 | 1/a/922:923, 1/a/1393:1395 | Single bulged A | homologous IL_6CZR_147 NA | |
| IL_9RTV_155 | 1/a/925:927, 1/a/1390:1391 | Single bulged G | homologous IL_6CZR_148 NA | |
| IL_9RTV_156 | 1/a/933:935, 1/a/1380:1384 | No text annotation | homologous IL_6CZR_410 NA | |
| IL_9RTV_157 | 1/a/953:954, 1/a/1226:1228 | No text annotation | homologous IL_6CZR_150 NA | |
| IL_9RTV_158 | 1/a/993:997, 1/a/1044:1045 | No text annotation | geometric IL_8B0X_042 IL_61370.1 | |
| IL_9RTV_161 | 1/a/1048:1050, 1/a/1208:1209 | No text annotation | homologous IL_6CZR_152 NA | |
| IL_9RTV_162 | 1/a/1052:1056, 1/a/1204:1206 | No text annotation | homologous IL_6CZR_154 NA | |
| IL_9RTV_163 | 1/a/1057:1058, 1/a/1199:1203 | Minor groove platform | homologous IL_6CZR_155 NA | |
| IL_9RTV_164 | 1/a/1060:1061, 1/a/1195:1197 | Single bulged U | homologous IL_6CZR_156 NA | |
| IL_9RTV_165 | 1/a/1061:1063, 1/a/1193:1195 | Isolated non-canonical cWW pair | homologous IL_6CZR_157 NA | |
| IL_9RTV_166 | 1/a/1124:1128, 1/a/1144:1149 | No text annotation | geometric IL_8B0X_050 IL_38603.1 | |
| IL_9RTV_167 | 1/a/1129:1132, 1/a/1142:1143 | Minor groove platform | geometric IL_3MXH_005 IL_87975.1 | |
| IL_9RTV_168 | 1/a/1158:1161, 1/a/1175:1181 | No text annotation | geometric IL_8B0X_052 IL_32376.1 | |
| IL_9RTV_169 | 1/a/1247:1253, 1/a/1284:1290 | No text annotation | homologous IL_6CZR_160 NA | |
| IL_9RTV_170 | 1/a/1255:1258, 1/a/1277:1282 | No text annotation | geometric IL_8B0X_054 IL_08849.1 | |
| IL_9RTV_171 | 1/a/1259:1263, 1/a/1272:1276 | Double sheared with non-canonical cWW | geometric IL_4V9F_085 IL_87767.2 | |
| IL_9RTV_172 | 1/a/1303:1308, 1/a/1329:1334 | No text annotation | homologous IL_6CZR_164 NA | |
| IL_9RTV_173 | 1/a/1399:1401, 1/a/1501:1504 | No text annotation | homologous IL_6CZR_165 NA | |
| IL_9RTV_174 | 1/a/1401:1404, 1/a/1497:1501 | No text annotation | homologous IL_6CZR_368 NA | |
| IL_9RTV_175 | 1/a/1405:1407, 1/a/1494:1496 | Isolated non-canonical cWW pair | geometric IL_8CRE_468 IL_01003.3 | |
| IL_9RTV_176 | 1/a/1407:1409, 1/a/1491:1494 | No text annotation | geometric IL_4PDQ_002 IL_29925.2 | |
| IL_9RTV_177 | 1/a/1412:1414, 1/a/1486:1488 | Isolated non-canonical cWW pair | homologous IL_6CZR_411 NA | |
| IL_9RTV_178 | 1/a/1416:1419, 1/a/1481:1484 | Double sheared | homologous IL_6CZR_169 NA | |
| IL_9RTV_179 | 1/a/1430:1435, 1/a/1466:1470 | No text annotation | geometric IL_8GLP_051 IL_47352.2 | |
| IL_9RTV_181 | 1/a/1445:1448, 1/a/1455:1457 | No text annotation | geometric IL_8B0X_064 IL_05502.1 |
Problematic loops
| # | loop id | Problem | Sequence |
|---|---|---|---|
| IL_9RTV_009 | No text annotation | ||
| IL_9RTV_031 | Tandem non-canonical cWW pairs | ||
| IL_9RTV_040 | No text annotation | ||
| IL_9RTV_049 | No text annotation | ||
| IL_9RTV_066 | No text annotation | ||
| IL_9RTV_083 | No text annotation | ||
| IL_9RTV_084 | No text annotation | ||
| IL_9RTV_085 | No text annotation | ||
| IL_9RTV_112 | Major groove minor groove platform; mini C-loop | ||
| IL_9RTV_120 | No text annotation | ||
| IL_9RTV_121 | No text annotation | ||
| IL_9RTV_122 | No text annotation | ||
| IL_9RTV_126 | No text annotation | ||
| IL_9RTV_137 | No text annotation | ||
| IL_9RTV_159 | No text annotation | ||
| IL_9RTV_160 | No text annotation | ||
| IL_9RTV_180 | Minor groove platform |
Valid loops
| 3D | Loop id | Location | Annotation; motif group | Mapped info |
|---|---|---|---|---|
| J3_9RTV_001 | 1/A/30:31, 1/A/474:481, 1/A/509:510 | No text annotation | geometric J3_8B0X_014 J3_68715.1 | |
| J3_9RTV_002 | 1/A/30:31, 1/A/474:484, 1/A/496:510 | No text annotation | homologous J3_7A0S_015 J3_17917.1 | |
| J3_9RTV_003 | 1/A/32:35, 1/A/445:461, 1/A/468:473 | No text annotation | geometric J3_9DFE_003 J3_07616.1 | |
| J3_9RTV_004 | 1/A/56:57, 1/A/70:76, 1/A/110:114 | No text annotation | homologous J3_7A0S_002 J3_01004.1 | |
| J3_9RTV_005 | 1/A/297:301, 1/A/316:325, 1/A/337:341 | No text annotation | geometric J3_8B0X_034 J3_77124.1 | |
| J3_9RTV_006 | 1/A/683:689, 1/A/773:775, 1/A/791:794 | No text annotation | homologous J3_7A0S_004 J3_46658.1 | |
| J3_9RTV_007 | 1/A/698:700, 1/A/732:736, 1/A/760:763 | No text annotation | homologous J3_7A0S_005 J3_69816.1 | |
| J3_9RTV_009 | 1/A/1298:1303, 1/A/1625:1627, 1/A/1639:1642 | No text annotation | homologous J3_7A0S_006 J3_32852.7 | |
| J3_9RTV_010 | 1/A/1306:1309, 1/A/1605:1611, 1/A/1620:1622 | No text annotation | homologous J3_7A0S_007 J3_47341.1 | |
| J3_9RTV_011 | 1/A/1344:1349, 1/A/1382:1385, 1/A/1402:1403 | No text annotation | ||
| J3_9RTV_012 | 1/A/1424:1429, 1/A/1564:1565, 1/A/1568:1574 | No text annotation | homologous J3_7A0S_019 J3_34864.3 | |
| J3_9RTV_013 | 1/A/2091:2093, 1/A/2196:2200, 1/A/2223:2228 | No text annotation | homologous J3_7A0S_009 J3_17460.1 | |
| J3_9RTV_014 | 1/A/2282:2284, 1/A/2384:2395, 1/A/2421:2427 | No text annotation | homologous J3_7A0S_020 J3_04772.1 | |
| J3_9RTV_015 | 1/A/2295:2299, 1/A/2317:2323, 1/A/2332:2337 | No text annotation | ||
| J3_9RTV_016 | 1/A/2517:2520, 1/A/2545:2547, 1/A/2561:2567 | No text annotation | homologous J3_7A0S_011 J3_32601.6 | |
| J3_9RTV_017 | 1/A/2789:2791, 1/A/2805:2806, 1/A/2892:2894 | No text annotation | ||
| J3_9RTV_018 | 1/A/2812:2815, 1/A/2831:2836, 1/A/2882:2888 | No text annotation | ||
| J3_9RTV_019 | 1/B/10:16, 1/B/68:70, 1/B/106:110 | No text annotation | ||
| J3_9RTV_020 | 1/a/46:47, 1/a/361:367, 1/a/393:395 | No text annotation | geometric J3_8B0X_001 J3_58657.1 | |
| J3_9RTV_021 | 1/a/46:52, 1/a/359:367, 1/a/393:395 | No text annotation | homologous J3_6CZR_058 NA | |
| J3_9RTV_022 | 1/a/586:588, 1/a/651:654, 1/a/754:755 | No text annotation | geometric J3_8B0X_002 J3_01633.1 | |
| J3_9RTV_023 | 1/a/586:588, 1/a/651:655, 1/a/751:755 | No text annotation | homologous J3_6CZR_077 NA | |
| J3_9RTV_024 | 1/a/672:673, 1/a/717:725, 1/a/732:734 | No text annotation | homologous J3_6CZR_017 NA | |
| J3_9RTV_025 | 1/a/826:829, 1/a/857:861, 1/a/868:874 | No text annotation | homologous J3_6CZR_018 NA | |
| J3_9RTV_026 | 1/a/936:939, 1/a/1344:1350, 1/a/1372:1379 | No text annotation | homologous J3_6CZR_061 NA | |
| J3_9RTV_027 | 1/a/943:946, 1/a/1235:1237, 1/a/1337:1340 | No text annotation | homologous J3_6CZR_019 NA | |
| J3_9RTV_028 | 1/a/955:962, 1/a/973:984, 1/a/1221:1225 | No text annotation | geometric J3_4LFB_004 J3_88451.1 | |
| J3_9RTV_030 | 1/a/990:997, 1/a/1044:1047, 1/a/1210:1215 | No text annotation | homologous J3_6CZR_063 NA | |
| J3_9RTV_031 | 1/a/1063:1068, 1/a/1107:1113, 1/a/1187:1193 | No text annotation | homologous J3_6CZR_023 NA | |
| J3_9RTV_032 | 1/a/1073:1074, 1/a/1083:1086, 1/a/1099:1102 | No text annotation | homologous J3_6CZR_079 NA | |
| J3_9RTV_033 | 1/a/1116:1118, 1/a/1155:1158, 1/a/1181:1184 | No text annotation | geometric J3_8B0X_012 J3_82365.5 | |
| J3_9RTV_034 | 1/a/1116:1118, 1/a/1155:1161, 1/a/1175:1184 | No text annotation | homologous J3_6CZR_025 NA | |
| J3_9RTV_035 | 1/a/1237:1241, 1/a/1296:1303, 1/a/1334:1337 | No text annotation | homologous J3_6CZR_026 NA | |
| J4_9RTV_001 | 1/A/268:269, 1/A/370:375, 1/A/399:406, 1/A/421:424 | No text annotation | homologous J4_7A0S_001 J4_94698.1 | |
| J4_9RTV_002 | 1/A/601:604, 1/A/624:628, 1/A/635:638, 1/A/650:656 | No text annotation | ||
| J4_9RTV_003 | 1/A/1270:1276, 1/A/1294:1295, 1/A/1645:1648, 1/A/2009:2010 | No text annotation | homologous J4_7A0S_004 J4_64571.6 | |
| J4_9RTV_004 | 1/A/1310:1314, 1/A/1338:1343, 1/A/1404:1405, 1/A/1597:1604 | No text annotation | ||
| J4_9RTV_005 | 1/A/1313:1314, 1/A/1338:1343, 1/A/1404:1405, 1/A/1597:1603 | No text annotation | homologous J4_7A0S_006 J4_48150.1 | |
| J4_9RTV_006 | 1/A/1444:1445, 1/A/1466:1467, 1/A/1525:1526, 1/A/1546:1547 | No text annotation | ||
| J4_9RTV_007 | 1/A/1772:1776, 1/A/1788:1792, 1/A/1827:1830, 1/A/1975:1979 | No text annotation | homologous J4_7A0S_008 J4_61477.6 | |
| J4_9RTV_008 | 1/A/1833:1835, 1/A/1905:1906, 1/A/1924:1933, 1/A/1967:1972 | No text annotation | ||
| J4_9RTV_009 | 1/A/2285:2289, 1/A/2343:2347, 1/A/2370:2372, 1/A/2381:2383 | No text annotation | homologous J4_7A0S_009 J4_98139.1 | |
| J4_9RTV_010 | 1/A/2643:2646, 1/A/2674:2676, 1/A/2731:2735, 1/A/2769:2771 | No text annotation | ||
| J4_9RTV_011 | 1/a/115:122, 1/a/239:240, 1/a/286:289, 1/a/311:312 | No text annotation | homologous J4_6CZR_027 NA | |
| J4_9RTV_012 | 1/a/142:146, 1/a/176:184, 1/a/193:198, 1/a/219:221 | No text annotation | ||
| J4_9RTV_013 | 1/a/575:577, 1/a/764:769, 1/a/810:821, 1/a/879:880 | No text annotation | homologous J4_6CZR_013 NA | |
| J4_9RTV_014 | 1/v/7:10, 1/v/25:27, 1/v/43:49, 1/v/65:66 | tRNA junction | homologous J4_7MRL_001 J4_95067.1 | |
| J5_9RTV_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_9RTV_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_7A0S_003 J5_43153.6 | |
| J5_9RTV_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_7A0S_004 J5_74302.6 | |
| J5_9RTV_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_7A0S_005 J5_99177.1 | |
| J5_9RTV_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_9RTV_006 | 1/A/2074:2077, 1/A/2243:2246, 1/A/2258:2259, 1/A/2281:2282, 1/A/2427:2435 | No text annotation | homologous J5_7A0S_007 J5_39529.2 | |
| J5_9RTV_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_9RTV_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_9RTV_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_6CZR_021 NA | |
| J6_9RTV_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 | ||
| J7_9RTV_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_9RTV_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_9RTV_008 | No text annotation | ||
| J3_9RTV_029 | No text annotation | ||
| J4_9RTV_015 | tRNA junction |
Coloring options: