RNA 3D Hub //

5AA0 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_5AA0_0011/AA/60:67No text annotation
HL_5AA0_0021/AA/87:95No text annotation
homologous
HL_7RQB_002
NA
HL_5AA0_0031/AA/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.5
HL_5AA0_0041/AA/137A:141ANo text annotation
HL_5AA0_0051/AA/152:174No text annotation
HL_5AA0_0061/AA/194:201No text annotation
geometric
HL_4WF9_011
HL_75660.5
HL_5AA0_0071/AA/225:230No text annotation
homologous
HL_4WF9_007
HL_53890.2
HL_5AA0_1251/AA/246:252No text annotation
homologous
HL_4WF9_008
HL_37369.2
HL_5AA0_0091/AA/270J:270PNo text annotation
geometric
HL_2ZNI_001
HL_75660.5
HL_5AA0_0101/AA/305:312No text annotation
homologous
HL_7RQB_010
NA
HL_5AA0_0111/AA/319:323No text annotation
homologous
HL_7A0S_011
HL_75660.5
HL_5AA0_0121/AA/327:335T-loop with unstacked turn
geometric
HL_4WF9_012
HL_27670.2
HL_5AA0_0131/AA/383:391No text annotation
HL_5AA0_0141/AA/411:416No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_5AA0_0151/AA/462:467GNRA
homologous
HL_5J7L_147
HL_37824.7
HL_5AA0_0161/AA/487:493GNRA
homologous
HL_4WF9_016
HL_37824.7
HL_5AA0_0171/AA/544:549No text annotation
geometric
HL_4WF9_003
HL_75660.5
HL_5AA0_0181/AA/564:577No text annotation
HL_5AA0_0191/AA/605:623No text annotation
HL_5AA0_0201/AA/629:634GNRA
homologous
HL_7RQB_020
NA
HL_5AA0_0211/AA/638:650No text annotation
HL_5AA0_0221/AA/712:719No text annotation
homologous
HL_7RQB_022
NA
HL_5AA0_0231/AA/744:753No text annotation
homologous
HL_7A0S_022
HL_88205.2
HL_5AA0_0241/AA/779:785No text annotation
homologous
HL_7A0S_023
HL_53890.2
HL_5AA0_0251/AA/826:831No text annotation
homologous
HL_7A0S_024
HL_55195.3
HL_5AA0_1131/AA/872:905No text annotation
HL_5AA0_0261/AA/873:904No text annotation
HL_5AA0_0271/AA/955:962GNRA
homologous
HL_4WF9_027
HL_37824.7
HL_5AA0_0281/AA/978:985No text annotation
homologous
HL_7RQB_028
NA
HL_5AA0_0291/AA/1092:1099No text annotation
homologous
HL_9DFE_028
NA
HL_5AA0_0301/AA/1170:1179No text annotation
homologous
HL_4WF9_030
NA
HL_5AA0_0311/AA/1221:1228Externally structured
geometric
HL_8C3A_022
NA
HL_5AA0_0321/AA/1281:1289No text annotation
homologous
HL_7RQB_033
NA
HL_5AA0_0331/AA/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_4WF9_033
HL_57176.2
HL_5AA0_1261/AA/1363:1368GNRA
homologous
HL_9DFE_033
HL_37824.7
HL_5AA0_0351/AA/1389:1398No text annotation
homologous
HL_5J7L_168
HL_81545.2
HL_5AA0_0361/AA/1450:1461No text annotation
HL_5AA0_0371/AA/1492:1498No text annotation
HL_5AA0_0381/AA/1533:1538UNCG
homologous
HL_5J7L_171
HL_34617.5
HL_5AA0_0391/AA/1612:1619No text annotation
homologous
HL_4WF9_038
HL_89567.2
HL_5AA0_1271/AA/1630A:1635Pseudoknot geometry with 3' bulge
homologous
HL_7A0S_073
HL_57176.2
HL_5AA0_0411/AA/1691:1696UNCG
geometric
HL_4U7U_001
HL_34617.5
HL_5AA0_0421/AA/1717:1742No text annotation
HL_5AA0_0431/AA/1752:1756No text annotation
homologous
HL_7A0S_044
HL_80709.3
HL_5AA0_0441/AA/1779:1785No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_5AA0_0451/AA/1806:1811No text annotation
geometric
HL_1WZ2_007
HL_75660.5
HL_5AA0_0461/AA/1864:1878GNRA
homologous
HL_7RQB_047
NA
HL_5AA0_0471/AA/1909:1922No text annotation
HL_5AA0_0481/AA/1950:1956Mini UNCG
geometric
HL_5T16_002
HL_56334.1
HL_5AA0_0491/AA/2027:2036No text annotation
homologous
HL_7A0S_049
HL_61996.2
HL_5AA0_0501/AA/2143:2148No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_5AA0_0511/AA/2209:2215No text annotation
HL_5AA0_0521/AA/2249:2255No text annotation
HL_5AA0_0531/AA/2264:2276No text annotation
homologous
HL_7A0S_053
HL_91939.2
HL_5AA0_0541/AA/2304:2312No text annotation
homologous
HL_7A0S_076
HL_50860.2
HL_5AA0_0551/AA/2324:2331Pseudoknot geometry
homologous
HL_7RQB_056
NA
HL_5AA0_0561/AA/2355:2362GNRA with extra cWW
homologous
HL_4WF9_053
HL_04259.3
HL_5AA0_0571/AA/2374:2379GNRA
homologous
HL_4WF9_054
HL_37824.7
HL_5AA0_0581/AA/2404:2413No text annotation
homologous
HL_7A0S_058
HL_53454.2
HL_5AA0_0591/AA/2471:2479No text annotation
homologous
HL_5J7L_193
HL_32735.2
HL_5AA0_0601/AA/2528:2535No text annotation
homologous
HL_7RQB_061
NA
HL_5AA0_0611/AA/2551:2557No text annotation
homologous
HL_4WF9_058
HL_30068.2
HL_5AA0_0621/AA/2594:2599GNRA
homologous
HL_5J7L_196
HL_37824.7
HL_5AA0_0631/AA/2648:2672No text annotation
HL_5AA0_0641/AA/2701:2706No text annotation
homologous
HL_7RQB_065
NA
HL_5AA0_0651/AA/2746:2758No text annotation
HL_5AA0_0661/AA/2819:2827No text annotation
homologous
HL_7RQB_068
NA
HL_5AA0_0671/AA/2856:2861GNRA
homologous
HL_7RQB_069
NA
HL_5AA0_1161/AB/34:48No text annotation
homologous
HL_5J7L_215
HL_97756.2
HL_5AA0_0681/AB/38:44No text annotation
homologous
HL_4WF9_066
HL_47787.2
HL_5AA0_0691/AB/86:90GNRA
homologous
HL_7RQB_071
NA
HL_5AA0_1281/BA/13:21No text annotation
HL_5AA0_0711/BA/81:88No text annotation
geometric
HL_8C3A_039
NA
HL_5AA0_0721/BA/158:163GNRA
homologous
HL_4LFB_003
HL_37824.7
HL_5AA0_1181/BA/186:191No text annotation
homologous
HL_4LFB_004
HL_48417.5
HL_5AA0_0741/BA/201:216Mini UNCG
homologous
HL_4LFB_005
HL_48778.2
HL_5AA0_0751/BA/259:267GNRA related
homologous
HL_4LFB_006
HL_84299.4
HL_5AA0_0761/BA/296:301GNRA
homologous
HL_4LFB_007
HL_37824.7
HL_5AA0_0771/BA/320:333No text annotation
homologous
HL_6CZR_079
NA
HL_5AA0_0781/BA/342:347UNCG
homologous
HL_4LFB_009
HL_34617.5
HL_5AA0_0791/BA/379:384GNRA
homologous
HL_5J7L_010
HL_37824.7
HL_5AA0_0801/BA/419:424UNCG
homologous
HL_5J7L_011
HL_34617.5
HL_5AA0_0811/BA/458:474GNRA
homologous
HL_4LFB_012
HL_37824.7
HL_5AA0_0821/BA/522:527No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_5AA0_0831/BA/617:623No text annotation
homologous
HL_6CZR_085
NA
HL_5AA0_1191/BA/688:699No text annotation
homologous
HL_5J7L_015
HL_75293.5
HL_5AA0_0841/BA/689:698No text annotation
homologous
HL_4LFB_015
HL_75293.5
HL_5AA0_0851/BA/726:731GNRA
homologous
HL_5J7L_016
HL_37824.7
HL_5AA0_0861/BA/786:796No text annotation
homologous
HL_5J7L_017
HL_75293.5
HL_5AA0_0871/BA/838:848Mini UNCG
homologous
HL_4LFB_018
HL_48778.2
HL_5AA0_0881/BA/862:867GNRA
homologous
HL_4LFB_019
HL_37824.7
HL_5AA0_0891/BA/897:902GNRA
homologous
HL_4LFB_020
HL_37824.7
HL_5AA0_0901/BA/963:972No text annotation
homologous
HL_4LFB_021
HL_50779.4
HL_5AA0_0911/BA/1012:1017GNRA
homologous
HL_4LFB_022
HL_37824.7
HL_5AA0_0921/BA/1028B:1032ANo text annotation
homologous
HL_4LFB_023
NA
HL_5AA0_0931/BA/1076:1081GNRA
homologous
HL_4LFB_024
HL_37824.7
HL_5AA0_0941/BA/1089:1096T-loop related
homologous
HL_6CZR_096
NA
HL_5AA0_0951/BA/1134:1140No text annotation
homologous
HL_6CZR_097
NA
HL_5AA0_0961/BA/1165:1171GNRA
homologous
HL_4LFB_027
HL_37824.7
HL_5AA0_0971/BA/1265:1270No text annotation
HL_5AA0_1211/BA/1308:1329No text annotation
HL_5AA0_0981/BA/1314:1323T-loop with 3 stacked bulged bases
geometric
HL_4LFB_029
HL_02887.3
HL_5AA0_0991/BA/1356:1366No text annotation
homologous
HL_6CZR_101
NA
HL_5AA0_1001/BA/1449:1454UNCG
homologous
HL_5J7L_030
HL_34617.5
HL_5AA0_1011/BA/1515:1520GNRA
homologous
HL_5J7L_031
HL_37824.7
HL_5AA0_1021/BC/13:22tRNA D-loop
geometric
HL_6JXM_001
HL_20811.4
HL_5AA0_1031/BC/30:40No text annotation
geometric
HL_4V7M_039
HL_36684.4
HL_5AA0_1041/BC/53:61T-loop with 2 stacked bulged bases
homologous
HL_6PMO_005
NA
HL_5AA0_1051/BD/13:22No text annotation
HL_5AA0_1061/BD/31:39tRNA anticodon loop
homologous
HL_4V9I_039
HL_06059.6
HL_5AA0_1071/BD/53:61T-loop with 2 stacked bulged bases
homologous
HL_3WFS_003
HL_28252.8
HL_5AA0_1081/BE/13:22tRNA D-loop
homologous
HL_5AXM_001
HL_20811.4
HL_5AA0_1091/BE/31:39tRNA anticodon loop
homologous
HL_6UFG_007
HL_06059.6
HL_5AA0_1101/BE/53:61T-loop with 2 stacked bulged bases
homologous
HL_6UGG_006
HL_28252.8

Problematic loops

#loop idProblemSequence
HL_5AA0_008No text annotation
HL_5AA0_111No text annotation
HL_5AA0_112No text annotation
HL_5AA0_114No text annotation
HL_5AA0_034No text annotation
HL_5AA0_040No text annotation
HL_5AA0_115tRNA anticodon loop
HL_5AA0_070No text annotation
HL_5AA0_117No text annotation
HL_5AA0_073No text annotation
HL_5AA0_120No text annotation
HL_5AA0_122No text annotation
HL_5AA0_123No text annotation
HL_5AA0_124No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_5AA0_0011/AA/25:30,
1/AA/510:515		No text annotation
IL_5AA0_0021/AA/36:37,
1/AA/442:444		Single bulged A
homologous
IL_7A0S_002
IL_31462.6
IL_5AA0_0031/AA/43:44,
1/AA/434:436		Minor groove platform
homologous
IL_5J7L_247
IL_51454.3
IL_5AA0_0041/AA/81:85,
1/AA/97:105		Kink-turn
homologous
IL_7A0S_004
IL_94910.1
IL_5AA0_0051/AA/183:184,
1/AA/212:215		No text annotation
IL_5AA0_0061/AA/188:194,
1/AA/201:208		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_006
NA
IL_5AA0_0071/AA/239:245,
1/AA/253:258		7x6 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_007
NA
IL_5AA0_0091/AA/273:273A,
1/AA/363E:364		No text annotation
IL_5AA0_1841/AA/273E:283,
1/AA/358:363A		No text annotation
IL_5AA0_1711/AA/288:290,
1/AA/350:353		No text annotation
IL_5AA0_0131/AA/292:295,
1/AA/343:348		No text annotation
IL_5AA0_0151/AA/672:674,
1/AA/806:808		Isolated non-canonical cWW pair
geometric
IL_8C3A_029
NA
IL_5AA0_1721/AA/672:678,
1/AA/799:808		No text annotation
IL_5AA0_0161/AA/674:678,
1/AA/799:806		tHW-tHW cross-strand stack
geometric
IL_7A0S_015
IL_54041.2
IL_5AA0_0171/AA/697:698,
1/AA/763:765		Single bulged A
homologous
IL_7RQB_019
NA
IL_5AA0_0181/AA/703:707,
1/AA/724:729		Triple sheared
homologous
IL_7RQB_021
NA
IL_5AA0_0191/AA/738:741,
1/AA/756:758		Major groove platform with extra cWW
homologous
IL_7RQB_022
NA
IL_5AA0_0201/AA/837:838,
1/AA/940:942		Single stack bend
homologous
IL_7A0S_022
IL_90729.1
IL_5AA0_0211/AA/844:846,
1/AA/932:934		No text annotation
IL_5AA0_0221/AA/846:850,
1/AA/928:932		No text annotation
homologous
IL_9DFE_025
IL_38507.2
IL_5AA0_0231/AA/858:860,
1/AA/917:919		No text annotation
IL_5AA0_0241/AA/860:862,
1/AA/915:917		No text annotation
IL_5AA0_0251/AA/862:863,
1/AA/913:915		Minor groove platform related
geometric
IL_7TZS_003
IL_51454.3
IL_5AA0_0261/AA/864:868,
1/AA/909:912		C-loop
homologous
IL_7RQB_029
NA
IL_5AA0_0281/AA/952:954,
1/AA/963:965		No text annotation
homologous
IL_7RQB_034
NA
IL_5AA0_0291/AA/994:996,
1/AA/1159:1160		Single bulged C
homologous
IL_7RQB_035
NA
IL_5AA0_0301/AA/998:1002,
1/AA/1153:1157		UAA/GAN
geometric
IL_5TBW_048
NA
IL_5AA0_0311/AA/1004:1011,
1/AA/1150:1151		No text annotation
geometric
IL_4V88_416
NA
IL_5AA0_0321/AA/1011:1013,
1/AA/1149:1150		Single bulged U
homologous
IL_7A0S_035
IL_89505.4
IL_5AA0_0331/AA/1019:1030,
1/AA/1124:1143		No text annotation
IL_5AA0_0341/AA/1031:1034,
1/AA/1121:1123		Isolated non-canonical cWW pair
homologous
IL_4WF9_041
IL_57744.1
IL_5AA0_1731/AA/1038:1054,
1/AA/1105:1117		No text annotation
IL_5AA0_0351/AA/1055:1087,
1/AA/1102:1104		No text annotation
IL_5AA0_1741/AA/1055:1091,
1/AA/1100:1104		No text annotation
IL_5AA0_0361/AA/1087:1091,
1/AA/1100:1102		No text annotation
IL_5AA0_0381/AA/1197:1198,
1/AA/1247:1249		Single bulged G
geometric
IL_5J7L_001
IL_00225.13
IL_5AA0_1851/AA/1202:1206,
1/AA/1240:1243		No text annotation
IL_5AA0_0401/AA/1208:1215,
1/AA/1234:1238		Kink-turn
homologous
IL_7RQB_047
NA
IL_5AA0_0411/AA/1219:1221,
1/AA/1228:1230		Intercalated cWW
geometric
IL_7A0S_044
IL_31737.3
IL_5AA0_1861/AA/1319:1323,
1/AA/1331:1333		C-loop
homologous
IL_9DFE_050
IL_63596.11
IL_5AA0_0431/AA/1351:1355,
1/AA/1376:1380		UAA/GAN
homologous
IL_7RQB_052
NA
IL_5AA0_0441/AA/1357:1361,
1/AA/1370:1374		tSH-tHW-tHS
homologous
IL_7A0S_049
IL_17136.7
IL_5AA0_0451/AA/1415:1421,
1/AA/1577:1587		No text annotation
IL_5AA0_1751/AA/1423:1429,
1/AA/1564:1575		No text annotation
IL_5AA0_0471/AA/1432:1435,
1/AA/1557:1561		No text annotation
IL_5AA0_0481/AA/1437:1440,
1/AA/1551:1555		tSH-tHW
homologous
IL_7A0S_053
IL_99646.2
IL_5AA0_0491/AA/1448:1449A,
1/AA/1462:1463		Single stack bend
homologous
IL_7RQB_058
NA
IL_5AA0_0501/AA/1474:1478,
1/AA/1515:1517		No text annotation
IL_5AA0_0511/AA/1478:1482,
1/AA/1507:1515		No text annotation
IL_5AA0_1871/AA/1489:1491,
1/AA/1499:1500		Single bulged A
homologous
IL_5J7L_302
IL_31462.6
IL_5AA0_0531/AA/1525:1531,
1/AA/1540:1546		No text annotation
IL_5AA0_0551/AA/1651:1656,
1/AA/2004:2006		No text annotation
homologous
IL_5J7L_304
IL_12566.4
IL_5AA0_0561/AA/1663:1665,
1/AA/1995:1997		No text annotation
IL_5AA0_0571/AA/1686:1691,
1/AA/1696:1702		tSH-tSH-tHH-tHS
homologous
IL_4WF9_066
IL_47346.2
IL_5AA0_0591/AA/1770:1771,
1/AA/1980:1982		Single bulged A
homologous
IL_7A0S_064
IL_31462.6
IL_5AA0_0611/AA/1798:1804,
1/AA/1813:1821		Kink-turn related
homologous
IL_4WF9_069
IL_17069.5
IL_5AA0_0621/AA/1836:1840,
1/AA/1902:1904		No text annotation
IL_5AA0_0631/AA/1841:1842,
1/AA/1898:1901		Major groove intercalation
homologous
IL_4WF9_071
IL_82107.4
IL_5AA0_0641/AA/1846:1849,
1/AA/1893:1894		Major groove minor groove platform; mini C-loop
homologous
IL_4WF9_072
IL_68140.4
IL_5AA0_0651/AA/1851:1855,
1/AA/1887:1891		UAA/GAN with extra pair
homologous
IL_7A0S_069
IL_89021.2
IL_5AA0_0661/AA/1856:1860,
1/AA/1882:1886		Triple sheared
homologous
IL_4WF9_074
IL_66798.2
IL_5AA0_0671/AA/1934:1945,
1/AA/1961:1964		No text annotation
homologous
IL_7A0S_072
IL_04332.3
IL_5AA0_0681/AA/2050:2052,
1/AA/2617:2618		Major groove platform
homologous
IL_7A0S_073
IL_48076.6
IL_5AA0_0691/AA/2054:2056,
1/AA/2612:2615		No text annotation
homologous
IL_4WF9_079
IL_83389.2
IL_5AA0_0701/AA/2067:2069,
1/AA/2442:2443		Single bulged U
homologous
IL_7A0S_075
IL_89505.4
IL_5AA0_0711/AA/2070:2071,
1/AA/2438:2441		Minor groove platform
homologous
IL_5J7L_324
IL_51454.3
IL_5AA0_0721/AA/2081:2083,
1/AA/2236:2239		Isolated tHS basepair with bulges
homologous
IL_7RQB_082
NA
IL_5AA0_0731/AA/2085:2087,
1/AA/2232:2234		No text annotation
homologous
IL_7RQB_083
NA
IL_5AA0_0741/AA/2108:2110,
1/AA/2179:2181		Isolated non-canonical cWW pair
geometric
IL_4KZD_003
IL_28037.2
IL_5AA0_0751/AA/2110:2120,
1/AA/2178:2179		No text annotation
homologous
IL_3U4M_002
IL_32056.1
IL_5AA0_0761/AA/2124:2127,
1/AA/2161:2174		No text annotation
homologous
IL_9DFE_086
NA
IL_5AA0_0771/AA/2130:2136,
1/AA/2155:2158		No text annotation
IL_5AA0_0781/AA/2297:2299,
1/AA/2317:2321		Isolated tHS basepair with bulges
geometric
IL_7RQB_082
NA
IL_5AA0_0791/AA/2350:2353,
1/AA/2364:2367		Double sheared
homologous
IL_4WF9_087
IL_09705.15
IL_5AA0_0801/AA/2401:2403,
1/AA/2414:2415		Major groove platform
homologous
IL_7RQB_090
NA
IL_5AA0_0811/AA/2454:2455,
1/AA/2496:2498		Major groove platform
homologous
IL_7RQB_092
NA
IL_5AA0_1761/AA/2457:2459,
1/AA/2491:2494		No text annotation
IL_5AA0_0831/AA/2466:2470,
1/AA/2480:2484		Triple sheared
homologous
IL_5J7L_338
IL_17948.2
IL_5AA0_0841/AA/2507:2508,
1/AA/2580:2582		Major groove platform
homologous
IL_7RQB_096
NA
IL_5AA0_0851/AA/2510:2512,
1/AA/2574:2578		Isolated non-canonical cWW pair
geometric
IL_4V9F_087
IL_07785.1
IL_5AA0_0861/AA/2512:2513,
1/AA/2571:2574		No text annotation
homologous
IL_5J7L_341
IL_42626.2
IL_5AA0_0871/AA/2521:2522,
1/AA/2541:2544		No text annotation
IL_5AA0_0881/AA/2591:2592,
1/AA/2601:2603		Single bulged A
homologous
IL_7RQB_101
NA
IL_5AA0_0891/AA/2637:2640,
1/AA/2774:2781		No text annotation
IL_5AA0_0911/AA/2680:2684,
1/AA/2725:2727		C-loop
homologous
IL_4WF9_101
IL_63596.11
IL_5AA0_0921/AA/2686:2691,
1/AA/2718:2723		No text annotation
IL_5AA0_0931/AA/2695:2696,
1/AA/2711:2714		Multiple bulged bases
geometric
IL_7A0S_097
IL_42626.2
IL_5AA0_0951/AA/2737:2742,
1/AA/2762:2767		UAA/GAN with extra cWW
homologous
IL_7RQB_107
NA
IL_5AA0_0961/AA/2838:2839,
1/AA/2878:2880		Single bulged C
homologous
IL_7RQB_108
NA
IL_5AA0_0971/AA/2843:2845,
1/AA/2871:2874		No text annotation
homologous
IL_4WF9_107
IL_31531.3
IL_5AA0_1881/AA/2847:2852,
1/AA/2865:2869		tHS double platform
homologous
IL_5J7L_354
IL_70411.2
IL_5AA0_1001/AB/17:18,
1/AB/65:67		Major groove intercalation
homologous
IL_7RQB_111
NA
IL_5AA0_1891/AB/23:28,
1/AB/56:60		No text annotation
homologous
IL_9DFE_111
IL_18472.4
IL_5AA0_1021/AB/30:31,
1/AB/51:54		No text annotation
IL_5AA0_1031/AB/34:38,
1/AB/44:48		No text annotation
homologous
IL_8C3A_147
NA
IL_5AA0_1041/AB/71:79,
1/AB/97:105		Bacterial 5S Loop E
homologous
IL_7RQB_115
NA
IL_5AA0_1051/BA/30:32,
1/BA/552:553		Single bulged G
homologous
IL_5J7L_001
IL_00225.13
IL_5AA0_1061/BA/44:46,
1/BA/395:398		Intercalated cWW
geometric
IL_7A0S_044
IL_31737.3
IL_5AA0_1071/BA/47:52,
1/BA/359:361		No text annotation
homologous
IL_5J7L_003
IL_14177.2
IL_5AA0_1081/BA/54:56,
1/BA/356:357		Minor groove platform
homologous
IL_4LFB_004
IL_51454.3
IL_5AA0_1091/BA/63:66,
1/BA/103:104		Multiple bulged bases
homologous
IL_6CZR_117
NA
IL_5AA0_1101/BA/67:69,
1/BA/99:102		Isolated non-canonical cWW pair
homologous
IL_4LFB_006
IL_87907.2
IL_5AA0_1111/BA/129:131,
1/BA/231:232		Multiple bulged bases
homologous
IL_4LFB_007
IL_33761.2
IL_5AA0_1121/BA/132:136,
1/BA/227:230		No text annotation
homologous
IL_4LFB_008
IL_64231.5
IL_5AA0_1131/BA/148:153,
1/BA/168:174		tWH-tWH-tHW-tHW
homologous
IL_4LFB_009
IL_12745.1
IL_5AA0_1771/BA/186:186,
1/BA/191:191		Isolated non-canonical cWW pair
homologous
IL_4LFB_010
IL_87907.2
IL_5AA0_1151/BA/242:247,
1/BA/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
IL_46174.3
IL_5AA0_1161/BA/249:252,
1/BA/274:275		No text annotation
homologous
IL_4LFB_012
IL_47074.2
IL_5AA0_1171/BA/292:293,
1/BA/304:308		C-loop
homologous
IL_6CZR_125
NA
IL_5AA0_1181/BA/367:369,
1/BA/392:393		Single bulged U
homologous
IL_5J7L_017
IL_89505.4
IL_5AA0_1191/BA/371:375,
1/BA/389:390		C-loop
geometric
IL_4LFB_015
IL_03109.3
IL_5AA0_1201/BA/375:376,
1/BA/387:389		Single bulged G
homologous
IL_4LFB_016
IL_00225.13
IL_5AA0_1211/BA/409:416,
1/BA/427:433		No text annotation
homologous
IL_4LFB_017
IL_28026.3
IL_5AA0_1221/BA/446:450,
1/BA/483:488		6x5 Sarcin-Ricin; G-bulge
geometric
IL_6CZR_130
NA
IL_5AA0_1231/BA/450:455,
1/BA/477:483		No text annotation
homologous
IL_4LFB_019
IL_31561.1
IL_5AA0_1241/BA/504:511,
1/BA/540:541		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_41203.4
IL_5AA0_1251/BA/515:521,
1/BA/528:536		Kink-turn related
geometric
IL_4V88_415
NA
IL_5AA0_1791/BA/580:584,
1/BA/757:761		tSH-tHW-tHS
homologous
IL_4LFB_023
IL_17136.7
IL_5AA0_1271/BA/594:596,
1/BA/644:645		Major groove platform
homologous
IL_4LFB_024
IL_48076.6
IL_5AA0_1281/BA/597:598,
1/BA/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_68140.4
IL_5AA0_1291/BA/605:612,
1/BA/628:633		No text annotation
homologous
IL_4LFB_026
IL_78349.3
IL_5AA0_1301/BA/654:655,
1/BA/751:754		Major groove platform; stack outside cWW
homologous
IL_5J7L_031
IL_50694.7
IL_5AA0_1311/BA/657:658,
1/BA/747:749		Major groove platform
homologous
IL_4LFB_028
IL_48076.6
IL_5AA0_1321/BA/662:666,
1/BA/740:743		Tandem non-canonical cWW pairs
homologous
IL_4LFB_029
IL_85033.2
IL_5AA0_1331/BA/673:677,
1/BA/713:717		Triple non-canonical cWW pairs
homologous
IL_4LFB_065
IL_49751.4
IL_5AA0_1341/BA/683:688,
1/BA/699:707		Kink-turn
homologous
IL_4LFB_031
IL_95727.1
IL_5AA0_1351/BA/774:778,
1/BA/804:805		Left turn
homologous
IL_4LFB_032
IL_29346.2
IL_5AA0_1361/BA/779:783,
1/BA/799:803		tSH-tHW-tHS
homologous
IL_4LFB_033
IL_17136.7
IL_5AA0_1371/BA/887:894,
1/BA/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4LFB_034
IL_41756.4
IL_5AA0_1381/BA/922:923,
1/BA/1393:1395		Single bulged A
homologous
IL_4LFB_035
IL_31462.6
IL_5AA0_1391/BA/925:927,
1/BA/1390:1391		Single bulged G
homologous
IL_4LFB_036
IL_00225.13
IL_5AA0_1401/BA/933:935,
1/BA/1380:1384		Minor groove platform
homologous
IL_5J7L_041
IL_47078.3
IL_5AA0_1411/BA/953:954,
1/BA/1226:1228		Minor groove platform
homologous
IL_4LFB_038
IL_51454.3
IL_5AA0_1421/BA/1025:1027,
1/BA/1034:1036		No text annotation
IL_5AA0_1431/BA/1048:1050,
1/BA/1208:1209		No text annotation
homologous
IL_6CZR_152
NA
IL_5AA0_1441/BA/1052:1056,
1/BA/1204:1206		Isolated cWS basepair
homologous
IL_4LFB_044
IL_76319.5
IL_5AA0_1451/BA/1057:1058,
1/BA/1199:1203		Minor groove platform
homologous
IL_6CZR_155
NA
IL_5AA0_1461/BA/1060:1061,
1/BA/1195:1197		Single bulged U
geometric
IL_2PN3_003
IL_89505.4
IL_5AA0_1471/BA/1061:1063,
1/BA/1193:1195		Isolated non-canonical cWW pair
homologous
IL_4LFB_047
IL_28037.2
IL_5AA0_1491/BA/1124:1127,
1/BA/1145:1149		No text annotation
IL_5AA0_1501/BA/1127:1132,
1/BA/1142:1145		No text annotation
IL_5AA0_1511/BA/1247:1253,
1/BA/1284:1290		No text annotation
homologous
IL_6CZR_160
NA
IL_5AA0_1521/BA/1255:1258,
1/BA/1277:1282		180 degree turn
homologous
IL_4LFB_052
IL_11344.2
IL_5AA0_1901/BA/1259:1262,
1/BA/1273:1276		No text annotation
homologous
IL_6CZR_367
NA
IL_5AA0_1541/BA/1303:1308,
1/BA/1329:1334		No text annotation
geometric
IL_5TBW_026
NA
IL_5AA0_1561/BA/1401:1404,
1/BA/1497:1501		No text annotation
geometric
IL_4V88_464
NA
IL_5AA0_1571/BA/1405:1410,
1/BA/1490:1496		No text annotation
IL_5AA0_1581/BA/1412:1414,
1/BA/1486:1488		Isolated non-canonical cWW pair
homologous
IL_4LFB_059
IL_87907.2
IL_5AA0_1591/BA/1416:1419,
1/BA/1481:1484		No text annotation
IL_5AA0_1821/BA/1416:1420,
1/BA/1480:1484		No text annotation
IL_5AA0_1911/BA/1431:1435,
1/BA/1466:1469		UAA/GAN variation
homologous
IL_6CZR_170
NA
IL_5AA0_1611/BA/1435:1437,
1/BA/1464:1466		Isolated non-canonical cWW pair
homologous
IL_6CZR_171
NA
IL_5AA0_1831/BA/1437:1449,
1/BA/1454:1464		No text annotation
IL_5AA0_1621/BA/1440:1447,
1/BA/1459:1461		No text annotation
geometric
IL_4LFB_064
IL_49061.1

Problematic loops

#loop idProblemSequence
IL_5AA0_008Multiple bulged bases
IL_5AA0_169No text annotation
IL_5AA0_010Isolated non-canonical cWW pair
IL_5AA0_170No text annotation
IL_5AA0_011Isolated non-canonical cWW pair
IL_5AA0_012No text annotation
IL_5AA0_014Isolated non-canonical cWW pair
IL_5AA0_027Isolated cWS basepair
IL_5AA0_037No text annotation
IL_5AA0_039No text annotation
IL_5AA0_042C-loop with extra cWW pair
IL_5AA0_046No text annotation
IL_5AA0_052No text annotation
IL_5AA0_054Isolated non-canonical cWW pair
IL_5AA0_058No text annotation
IL_5AA0_060No text annotation
IL_5AA0_082No text annotation
IL_5AA0_090Isolated non-canonical cWW pair
IL_5AA0_094Isolated non-canonical cWW pair
IL_5AA0_098No text annotation
IL_5AA0_099Isolated non-canonical cWW pair
IL_5AA0_101No text annotation
IL_5AA0_114No text annotation
IL_5AA0_178No text annotation
IL_5AA0_126tSH-tHW-tHS-cWW
IL_5AA0_148No text annotation
IL_5AA0_180No text annotation
IL_5AA0_153Triple sheared
IL_5AA0_155No text annotation
IL_5AA0_181No text annotation
IL_5AA0_160Triple sheared related
IL_5AA0_163Isolated non-canonical cWW contact
IL_5AA0_164No text annotation
IL_5AA0_165No text annotation
IL_5AA0_166Tandem non-canonical cWW pairs
IL_5AA0_167Isolated non-canonical cWW pair
IL_5AA0_168No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_5AA0_0181/AA/30:31,
1/AA/474:484,
1/AA/496:510		No text annotation
geometric
J3_5TBW_062
NA
J3_5AA0_0361/AA/32:35,
1/AA/445:461,
1/AA/468:473		No text annotation
homologous
J3_9DFE_003
J3_30040.2
J3_5AA0_0201/AA/56:57,
1/AA/70:76,
1/AA/110:114		No text annotation
homologous
J3_9DFE_004
J3_35667.2
J3_5AA0_0211/AA/601:605,
1/AA/623:628,
1/AA/635:656		No text annotation
J3_5AA0_0011/AA/683:687,
1/AA/775:777,
1/AA/787:794		No text annotation
J3_5AA0_0021/AA/698:700,
1/AA/732:736,
1/AA/760:763		No text annotation
homologous
J3_7A0S_005
J3_44724.7
J3_5AA0_0031/AA/1298:1303,
1/AA/1625:1627,
1/AA/1639:1642		No text annotation
homologous
J3_7A0S_006
J3_32852.6
J3_5AA0_0041/AA/1306:1309,
1/AA/1605:1611,
1/AA/1620:1622		No text annotation
homologous
J3_7RQB_008
NA
J3_5AA0_0221/AA/1344:1350,
1/AA/1381:1385,
1/AA/1402:1403		No text annotation
homologous
J3_9DFE_012
J3_31965.2
J3_5AA0_0061/AA/2090:2093,
1/AA/2196:2205,
1/AA/2219:2229		No text annotation
geometric
J3_4V9F_007
J3_97609.1
J3_5AA0_0231/AA/2282:2284,
1/AA/2384:2395,
1/AA/2421:2427		No text annotation
homologous
J3_7A0S_020
J3_20992.1
J3_5AA0_0071/AA/2295:2297,
1/AA/2321:2323,
1/AA/2332:2337		No text annotation
homologous
J3_7RQB_011
NA
J3_5AA0_0081/AA/2517:2520,
1/AA/2545:2547,
1/AA/2561:2567		No text annotation
homologous
J3_7RQB_012
NA
J3_5AA0_0241/AA/2814:2815,
1/AA/2831:2836,
1/AA/2882:2886		No text annotation
homologous
J3_9DFE_019
J3_76911.2
J3_5AA0_0371/AB/11:16,
1/AB/68:69,
1/AB/107:109		No text annotation
homologous
J3_9DFE_020
J3_12003.2
J3_5AA0_0261/BA/44:47,
1/BA/361:367,
1/BA/393:398		No text annotation
J3_5AA0_0271/BA/44:52,
1/BA/359:367,
1/BA/393:398		No text annotation
J3_5AA0_0281/BA/586:588,
1/BA/651:654,
1/BA/754:755		No text annotation
geometric
J3_1KUQ_001
J3_56052.5
J3_5AA0_0291/BA/586:588,
1/BA/651:655,
1/BA/751:755		No text annotation
homologous
J3_4LFB_015
J3_17385.4
J3_5AA0_0301/BA/672:673,
1/BA/717:725,
1/BA/732:734		No text annotation
homologous
J3_4LFB_012
J3_11934.4
J3_5AA0_0101/BA/826:829,
1/BA/857:861,
1/BA/868:874		No text annotation
homologous
J3_4LFB_001
J3_85054.4
J3_5AA0_0111/BA/936:939,
1/BA/1344:1350,
1/BA/1372:1379		No text annotation
homologous
J3_4LFB_002
J3_25303.4
J3_5AA0_0121/BA/943:946,
1/BA/1235:1237,
1/BA/1337:1340		No text annotation
homologous
J3_5J7L_005
J3_52655.4
J3_5AA0_0131/BA/955:962,
1/BA/973:984,
1/BA/1221:1225		No text annotation
homologous
J3_4LFB_004
J3_83516.4
J3_5AA0_0141/BA/990:997,
1/BA/1044:1047,
1/BA/1210:1215		No text annotation
homologous
J3_4LFB_016
J3_76475.2
J3_5AA0_0311/BA/1003:1006,
1/BA/1023:1025,
1/BA/1036:1037		No text annotation
J3_5AA0_0151/BA/1064:1068,
1/BA/1107:1113,
1/BA/1187:1192		No text annotation
J3_5AA0_0381/BA/1064:1068,
1/BA/1107:1114,
1/BA/1186:1192		No text annotation
J3_5AA0_0331/BA/1073:1074,
1/BA/1083:1086,
1/BA/1099:1102		No text annotation
homologous
J3_4LFB_017
J3_79369.1
J3_5AA0_0391/BA/1116:1118,
1/BA/1155:1161,
1/BA/1175:1184		No text annotation
homologous
J3_4LFB_018
J3_17791.2
J3_5AA0_0171/BA/1237:1241,
1/BA/1296:1303,
1/BA/1334:1337		No text annotation
homologous
J3_5J7L_011
J3_37047.6
J3_5AA0_0341/BC/7:27,
1/BC/43:49,
1/BC/65:66		No text annotation
J3_5AA0_0351/BD/2:29,
1/BD/41:52,
1/BD/62:71		No text annotation
J3_5AA0_0401/BD/3:28,
1/BD/42:52,
1/BD/62:70		No text annotation
J4_5AA0_0011/AA/47:54,
1/AA/116:121,
1/AA/130:131,
1/AA/148:178		No text annotation
J4_5AA0_0021/AA/297:301,
1/AA/316:319,
1/AA/323:325,
1/AA/337:341		No text annotation
J4_5AA0_0031/AA/1270:1276,
1/AA/1294:1295,
1/AA/1645:1648,
1/AA/2009:2010		No text annotation
homologous
J4_9DFE_003
J4_64571.5
J4_5AA0_0041/AA/1309:1313,
1/AA/1339:1343,
1/AA/1404:1405,
1/AA/1597:1605		No text annotation
J4_5AA0_0141/AA/1444:1445,
1/AA/1466:1473,
1/AA/1518:1530,
1/AA/1541:1547		No text annotation
J4_5AA0_0061/AA/1772:1775,
1/AA/1789:1792,
1/AA/1827:1830,
1/AA/1975:1979		No text annotation
J4_5AA0_0071/AA/1833:1835,
1/AA/1905:1909,
1/AA/1922:1945,
1/AA/1961:1972		No text annotation
J4_5AA0_0081/AA/2285:2289,
1/AA/2343:2347,
1/AA/2370:2372,
1/AA/2381:2383		No text annotation
homologous
J4_7A0S_009
J4_04930.6
J4_5AA0_0091/AA/2643:2646,
1/AA/2674:2676,
1/AA/2731:2735,
1/AA/2769:2771		No text annotation
homologous
J4_4WF9_009
J4_77044.4
J4_5AA0_0101/BA/115:122,
1/BA/239:240,
1/BA/286:289,
1/BA/311:312		No text annotation
homologous
J4_4LFB_001
J4_35578.3
J4_5AA0_0111/BA/142:144,
1/BA/178:183,
1/BA/194:198,
1/BA/219:221		No text annotation
homologous
J4_4LFB_002
J4_88771.1
J4_5AA0_0151/BA/569:577,
1/BA/764:769,
1/BA/810:821,
1/BA/879:881		No text annotation
J4_5AA0_0161/BD/3:13,
1/BD/22:28,
1/BD/42:52,
1/BD/62:70		No text annotation
J5_5AA0_0081/AA/268:270C,
1/AA/270W:271,
1/AA/366:375,
1/AA/399:406,
1/AA/421:424		No text annotation
J5_5AA0_0021/AA/584:589,
1/AA/668:671,
1/AA/809:812,
1/AA/1195:1198,
1/AA/1247:1256		No text annotation
J5_5AA0_0091/AA/1667:1683,
1/AA/1705:1707,
1/AA/1751:1752,
1/AA/1756:1764,
1/AA/1988:1993		No text annotation
J5_5AA0_0041/AA/2057:2064,
1/AA/2446:2455,
1/AA/2496:2507,
1/AA/2582:2588,
1/AA/2606:2611		No text annotation
J5_5AA0_0051/AA/2074:2077,
1/AA/2243:2246,
1/AA/2258:2259,
1/AA/2281:2282,
1/AA/2427:2435		No text annotation
homologous
J5_7A0S_007
J5_39529.1
J5_5AA0_0061/BA/36:39,
1/BA/403:406,
1/BA/436:442,
1/BA/492:500,
1/BA/545:548		No text annotation
homologous
J5_4LFB_001
J5_70703.1
J5_5AA0_0071/BA/58:61,
1/BA/106:113,
1/BA/314:316,
1/BA/337:339,
1/BA/350:354		No text annotation
homologous
J5_4LFB_002
J5_59910.6
J6_5AA0_0031/AA/45:46,
1/AA/179:183,
1/AA/215:224,
1/AA/231:235,
1/AA/262:265,
1/AA/427:433		No text annotation
J6_5AA0_0021/AA/2074:2077,
1/AA/2243:2246,
1/AA/2258:2259,
1/AA/2281:2284,
1/AA/2384:2395,
1/AA/2421:2435		No text annotation
J7_5AA0_0011/AA/817:822,
1/AA/835:837,
1/AA/942:946,
1/AA/971:976,
1/AA/987:991,
1/AA/1163:1164,
1/AA/1185:1190		No text annotation
J10_5AA0_0011/AA/4:15,
1/AA/525:533,
1/AA/560:564,
1/AA/577:579,
1/AA/1261:1269,
1/AA/2011:2023,
1/AA/2040:2043,
1/AA/2625:2630,
1/AA/2788:2811,
1/AA/2889:2899		No text annotation

Problematic loops

#loop idProblemSequence
J3_5AA0_019No text annotation
J3_5AA0_005No text annotation
J3_5AA0_025No text annotation
J3_5AA0_009No text annotation
J3_5AA0_032No text annotation
J3_5AA0_016No text annotation
J4_5AA0_005No text annotation
J4_5AA0_012No text annotation
J4_5AA0_013No text annotation
J5_5AA0_001No text annotation
J5_5AA0_003No text annotation
J6_5AA0_001No text annotation

Coloring options:
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