RNA 3D Hub //

6S13 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6S13_0011/A/59:68Pseudoknot with intercalation
homologous
HL_7A0S_001
HL_93438.2
HL_6S13_0021/A/85:97No text annotation
HL_6S13_0031/A/122:127No text annotation
homologous
HL_4WF9_003
HL_75660.5
HL_6S13_0041/A/136:143GNRA wlth tandem sheared
homologous
HL_4WF9_004
HL_81538.2
HL_6S13_0051/A/157:171No text annotation
HL_6S13_0061/A/197:204No text annotation
geometric
HL_7RQB_006
NA
HL_6S13_0071/A/249:255No text annotation
homologous
HL_5J7L_141
HL_37369.2
HL_6S13_0081/A/283:288No text annotation
geometric
HL_5FMZ_001
HL_49922.4
HL_6S13_0091/A/348:355T-loop with 2 stacked bulged bases
homologous
HL_4WF9_010
HL_01609.3
HL_6S13_0101/A/362:366No text annotation
homologous
HL_7A0S_011
HL_75660.5
HL_6S13_0111/A/370:378T-loop with unstacked turn
homologous
HL_4WF9_012
HL_27670.2
HL_6S13_0121/A/426:440No text annotation
HL_6S13_0131/A/456:463Pseudoknot geometry
homologous
HL_7A0S_014
HL_30680.3
HL_6S13_0141/A/508:513GNRA
homologous
HL_7A0S_015
HL_37824.8
HL_6S13_0151/A/533:538GNRA
homologous
HL_7RQB_016
NA
HL_6S13_0161/A/587:594No text annotation
homologous
HL_4WF9_017
HL_50318.1
HL_6S13_1021/A/607:620No text annotation
HL_6S13_0171/A/609:618T-loop with 2 stacked bulged bases
geometric
HL_4WF9_018
HL_28252.9
HL_6S13_0181/A/655:661No text annotation
geometric
HL_3IGI_004
HL_04783.2
HL_6S13_0191/A/674:679GNRA
homologous
HL_7RQB_020
NA
HL_6S13_1101/A/686:692No text annotation
HL_6S13_0211/A/758:762No text annotation
HL_6S13_0221/A/789:798No text annotation
homologous
HL_4WF9_023
HL_88205.2
HL_6S13_0231/A/824:830No text annotation
homologous
HL_7RQB_024
NA
HL_6S13_0241/A/871:876No text annotation
homologous
HL_7A0S_024
HL_55195.3
HL_6S13_1031/A/920:947No text annotation
HL_6S13_0251/A/925:942No text annotation
HL_6S13_0261/A/999:1006GNRA
homologous
HL_4WF9_027
HL_37824.8
HL_6S13_0271/A/1022:1029No text annotation
homologous
HL_5J7L_160
HL_42998.2
HL_6S13_1041/A/1100:1148No text annotation
HL_6S13_0281/A/1103:1123No text annotation
HL_6S13_1051/A/1211:1221No text annotation
HL_6S13_0291/A/1214:1218No text annotation
HL_6S13_0301/A/1260:1265GNRA
homologous
HL_7A0S_031
HL_37824.8
HL_6S13_0311/A/1318:1326T-loop with 2 stacked bulged bases
homologous
HL_4WF9_032
HL_28252.9
HL_6S13_0321/A/1361:1367Pseudoknot geometry with 3' bulge
homologous
HL_7A0S_033
HL_57176.2
HL_6S13_0331/A/1400:1405GNRA variation
homologous
HL_7A0S_034
HL_37824.8
HL_6S13_0341/A/1426:1435No text annotation
homologous
HL_4WF9_035
HL_81545.2
HL_6S13_0351/A/1494:1506No text annotation
HL_6S13_0361/A/1535:1541No text annotation
homologous
HL_7RQB_038
NA
HL_6S13_0371/A/1612:1615Mini UNCG
homologous
HL_5J7L_172
HL_48778.2
HL_6S13_0381/A/1656:1663No text annotation
homologous
HL_7RQB_040
NA
HL_6S13_0391/A/1673:1681GNRA with extra cWW
homologous
HL_4WF9_039
HL_20167.2
HL_6S13_0401/A/1735:1740UNCG
homologous
HL_4WF9_040
HL_34617.5
HL_6S13_0411/A/1760:1769No text annotation
HL_6S13_0421/A/1779:1783No text annotation
homologous
HL_7RQB_044
NA
HL_6S13_0431/A/1803:1815No text annotation
homologous
HL_7A0S_045
HL_60266.1
HL_6S13_0441/A/1833:1838GNRA
homologous
HL_7RQB_046
NA
HL_6S13_1111/A/1891:1905No text annotation
HL_6S13_0461/A/1937:1947Mini UNCG
geometric
HL_5AH5_007
HL_48778.2
HL_6S13_0471/A/1976:1984No text annotation
homologous
HL_5J7L_182
HL_20167.2
HL_6S13_0481/A/2054:2063No text annotation
homologous
HL_4WF9_047
HL_61996.3
HL_6S13_0491/A/2169:2176No text annotation
geometric
HL_2ZNI_001
HL_75660.5
HL_6S13_0501/A/2236:2242No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_6S13_0511/A/2275:2283No text annotation
homologous
HL_5J7L_186
HL_85367.2
HL_6S13_0521/A/2291:2303No text annotation
homologous
HL_4WF9_050
HL_91939.2
HL_6S13_0541/A/2350:2359No text annotation
geometric
HL_2ZNI_001
HL_75660.5
HL_6S13_0551/A/2382:2389GNRA with extra cWW
homologous
HL_4WF9_053
HL_04259.3
HL_6S13_0561/A/2401:2406GNRA
homologous
HL_7RQB_058
NA
HL_6S13_0571/A/2431:2440No text annotation
homologous
HL_4WF9_055
HL_53454.2
HL_6S13_0581/A/2498:2506No text annotation
homologous
HL_5J7L_193
HL_32735.2
HL_6S13_0591/A/2555:2562No text annotation
homologous
HL_7RQB_061
NA
HL_6S13_0601/A/2578:2584No text annotation
homologous
HL_4WF9_058
HL_30068.2
HL_6S13_0611/A/2621:2626GNRA
homologous
HL_5J7L_196
HL_37824.8
HL_6S13_0621/A/2685:2690No text annotation
HL_6S13_0631/A/2728:2733Ribsomal LSU H95
homologous
HL_7A0S_064
HL_65794.5
HL_6S13_1121/A/2771:2787No text annotation
HL_6S13_0651/A/2818:2826No text annotation
HL_6S13_0661/A/2839:2847No text annotation
homologous
HL_4WF9_064
HL_64690.6
HL_6S13_0671/A/2876:2881GNRA
homologous
HL_4WF9_065
HL_37824.8
HL_6S13_0681/B/36:42No text annotation
geometric
HL_4WF9_003
HL_75660.5
HL_6S13_0691/B/83:88No text annotation
HL_6S13_0701/a/12:24No text annotation
HL_6S13_0711/a/77:92No text annotation
HL_6S13_0721/a/158:163No text annotation
geometric
HL_2ZNI_001
HL_75660.5
HL_6S13_0731/a/191:200No text annotation
HL_6S13_0741/a/213:226No text annotation
HL_6S13_0751/a/267:275No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_6S13_0761/a/303:310No text annotation
geometric
HL_5TBW_012
NA
HL_6S13_0771/a/328:341No text annotation
homologous
HL_5J7L_008
HL_81205.3
HL_6S13_0781/a/350:355UNCG
homologous
HL_5J7L_009
HL_34617.5
HL_6S13_0791/a/386:393No text annotation
HL_6S13_0801/a/416:442No text annotation
HL_6S13_0811/a/470:479No text annotation
HL_6S13_0821/a/530:535Mini UNCG
geometric
HL_4YAZ_004
HL_48778.2
HL_6S13_0831/a/625:631GNRA
geometric
HL_1M5K_003
HL_37824.8
HL_6S13_1071/a/697:706No text annotation
HL_6S13_0851/a/734:739GNRA
homologous
HL_4LFB_016
HL_37824.8
HL_6S13_0861/a/794:805No text annotation
HL_6S13_0871/a/849:854No text annotation
HL_6S13_0881/a/871:876GNRA
homologous
HL_5J7L_019
HL_37824.8
HL_6S13_0891/a/906:911GNRA
homologous
HL_4LFB_020
HL_37824.8
HL_6S13_0901/a/972:981No text annotation
geometric
HL_4V9F_003
HL_75660.5
HL_6S13_0911/a/1021:1026No text annotation
geometric
HL_5TBW_006
NA
HL_6S13_0921/a/1038:1043No text annotation
HL_6S13_0931/a/1087:1092GNRA
homologous
HL_5J7L_023
HL_37824.8
HL_6S13_0941/a/1100:1107No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_6S13_0951/a/1144:1151No text annotation
HL_6S13_0961/a/1174:1182No text annotation
HL_6S13_0971/a/1269:1286No text annotation
HL_6S13_1131/a/1320:1337No text annotation
HL_6S13_0991/a/1366:1376No text annotation
homologous
HL_6CZR_101
NA
HL_6S13_1001/a/1454:1469No text annotation
HL_6S13_1011/a/1526:1531GNRA
homologous
HL_6CZR_103
NA

Problematic loops

#loop idProblemSequence
HL_6S13_020No text annotation
HL_6S13_045No text annotation
HL_6S13_106No text annotation
HL_6S13_053No text annotation
HL_6S13_064No text annotation
HL_6S13_084No text annotation
HL_6S13_108GNRA with extra near cWW
HL_6S13_109No text annotation
HL_6S13_098No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6S13_0011/A/24:30,
1/A/555:561		Triple sheared with non-canonical cWW
geometric
IL_7A0S_001
IL_04021.2
IL_6S13_0021/A/36:37,
1/A/488:490		Single bulged A
homologous
IL_7A0S_002
IL_31462.7
IL_6S13_0031/A/42:44,
1/A/480:483		Minor groove platform with extra cWW
homologous
IL_4WF9_003
IL_90351.1
IL_6S13_0041/A/81:85,
1/A/97:104		Kink-turn
homologous
IL_7A0S_004
IL_94910.1
IL_6S13_0051/A/152:153,
1/A/175:177		Major groove platform
geometric
IL_3NKB_002
IL_48076.6
IL_6S13_0061/A/186:187,
1/A/215:217		Single stack bend
homologous
IL_5J7L_249
IL_90729.1
IL_6S13_0071/A/190:197,
1/A/204:212		9x8 Sarcin-Ricin; G-bulge
homologous
IL_4WF9_008
IL_84694.2
IL_6S13_0081/A/241:248,
1/A/256:262		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7A0S_007
IL_04346.10
IL_6S13_0091/A/305:307,
1/A/408:412		No text annotation
IL_6S13_1631/A/307:338,
1/A/386:408		No text annotation
IL_6S13_0101/A/527:530,
1/A/541:554		No text annotation
geometric
IL_4WF9_015
IL_81516.2
IL_6S13_0111/A/581:584,
1/A/597:600		Double sheared
homologous
IL_5J7L_256
IL_09705.15
IL_6S13_0121/A/607:609,
1/A/618:620		Isolated non-canonical cWW pair
homologous
IL_4WF9_017
IL_07785.1
IL_6S13_0131/A/638:640,
1/A/705:707		Isolated non-canonical cWW pair
homologous
IL_4WF9_018
IL_07785.1
IL_6S13_0141/A/649:653,
1/A/663:667		AAA cross-strand stack
homologous
IL_4WF9_019
IL_66798.2
IL_6S13_0151/A/717:719,
1/A/851:853		No text annotation
homologous
IL_7RQB_017
NA
IL_6S13_0161/A/719:723,
1/A/844:851		tHW-tHW cross-strand stack
geometric
IL_7A0S_015
IL_54041.2
IL_6S13_0171/A/742:743,
1/A/808:810		Single bulged A
geometric
IL_4V9F_025
IL_31462.7
IL_6S13_0181/A/747:748,
1/A/773:775		Single bulged G
geometric
IL_4V9F_026
IL_00225.14
IL_6S13_0191/A/748:753,
1/A/768:773		No text annotation
IL_6S13_1641/A/748:754,
1/A/768:773		No text annotation
IL_6S13_1651/A/754:755,
1/A/766:768		Single stack bend
geometric
IL_7A0S_054
IL_26793.1
IL_6S13_0201/A/757:758,
1/A/762:764		No text annotation
IL_6S13_0211/A/783:785,
1/A/802:803		Major groove platform
homologous
IL_4WF9_026
IL_48076.6
IL_6S13_0221/A/820:822,
1/A/832:836		Multiple bulged bases
geometric
IL_4V9F_030
IL_57881.1
IL_6S13_0231/A/881:883,
1/A/984:987		No text annotation
geometric
IL_8P9A_292
IL_15698.3
IL_6S13_0241/A/889:893,
1/A/975:978		No text annotation
homologous
IL_4WF9_029
IL_06300.1
IL_6S13_0251/A/897:898,
1/A/969:971		No text annotation
IL_6S13_0261/A/901:907,
1/A/960:966		7x7 Sarcin-Ricin with intercalated A; G-bulge
homologous
IL_4WF9_031
IL_29198.2
IL_6S13_0271/A/907:908,
1/A/958:960		Minor groove platform
geometric
IL_4V9F_034
IL_51454.3
IL_6S13_0281/A/909:913,
1/A/954:957		C-loop
homologous
IL_4WF9_033
IL_26222.2
IL_6S13_0291/A/920:925,
1/A/942:947		No text annotation
IL_6S13_0301/A/1038:1040,
1/A/1203:1204		Single bulged C
homologous
IL_5J7L_276
IL_61258.15
IL_6S13_0311/A/1042:1046,
1/A/1197:1201		UAA/GAN
homologous
IL_7A0S_033
IL_38507.2
IL_6S13_0321/A/1048:1055,
1/A/1194:1195		SSU/LSU pseudoknot
geometric
IL_7A0S_034
IL_41203.4
IL_6S13_0331/A/1055:1057,
1/A/1193:1194		Single bulged U
homologous
IL_7RQB_038
NA
IL_6S13_0341/A/1062:1068,
1/A/1184:1188		Kink-turn related
geometric
IL_4WF9_039
IL_57188.5
IL_6S13_0351/A/1068:1074,
1/A/1168:1184		No text annotation
geometric
IL_4WF9_040
IL_50715.3
IL_6S13_0361/A/1074:1078,
1/A/1165:1168		No text annotation
IL_6S13_0371/A/1081:1083,
1/A/1160:1162		Isolated non-canonical cWW pair
homologous
IL_4WF9_042
IL_87907.2
IL_6S13_1661/A/1085:1095,
1/A/1152:1158		No text annotation
IL_6S13_0391/A/1096:1098,
1/A/1149:1151		No text annotation
IL_6S13_0401/A/1098:1100,
1/A/1148:1149		No text annotation
IL_6S13_0411/A/1100:1101,
1/A/1125:1148		No text annotation
IL_6S13_0441/A/1235:1237,
1/A/1285:1288		Isolated cWS basepair
homologous
IL_7A0S_041
IL_42997.3
IL_6S13_0451/A/1243:1245,
1/A/1277:1279		Isolated cWH basepair
homologous
IL_4WF9_045
IL_10167.6
IL_6S13_0461/A/1246:1253,
1/A/1272:1276		Kink-turn
homologous
IL_5J7L_288
IL_70923.9
IL_6S13_0471/A/1257:1259,
1/A/1266:1268		Intercalated cWW
homologous
IL_4WF9_047
IL_31737.3
IL_6S13_0481/A/1300:1307,
1/A/2038:2044		8x7 Sarcin-Ricin; G-bulge
homologous
IL_4WF9_048
IL_04346.10
IL_6S13_0491/A/1356:1360,
1/A/1368:1370		C-loop
homologous
IL_5J7L_291
IL_63596.11
IL_6S13_0501/A/1388:1392,
1/A/1413:1417		UAA/GAN
homologous
IL_7A0S_048
IL_89021.2
IL_6S13_0511/A/1394:1398,
1/A/1407:1411		tSH-tHW-tHS
homologous
IL_5J7L_293
IL_17136.7
IL_6S13_1671/A/1447:1465,
1/A/1624:1636		No text annotation
IL_6S13_0521/A/1477:1480,
1/A/1604:1607		No text annotation
IL_6S13_0531/A/1511:1518,
1/A/1562:1570		No text annotation
IL_6S13_0541/A/1518:1523,
1/A/1557:1562		No text annotation
IL_6S13_0551/A/1524:1526,
1/A/1549:1556		No text annotation
IL_6S13_0561/A/1532:1534,
1/A/1542:1543		No text annotation
IL_6S13_0571/A/1695:1700,
1/A/2031:2033		No text annotation
homologous
IL_5J7L_304
IL_12566.4
IL_6S13_0581/A/1707:1710,
1/A/2021:2024		No text annotation
IL_6S13_1681/A/1707:1713,
1/A/2020:2024		No text annotation
IL_6S13_1691/A/1707:1718,
1/A/2017:2024		No text annotation
IL_6S13_0591/A/1710:1713,
1/A/2020:2021		Major groove platform; stack outside cWW
geometric
IL_5TBW_076
NA
IL_6S13_0601/A/1713:1718,
1/A/2017:2020		Intercalated tWH
homologous
IL_5J7L_307
IL_76758.2
IL_6S13_0611/A/1730:1735,
1/A/1740:1746		tSH-tSH-tHH-tHS
geometric
IL_4V9F_063
IL_47346.2
IL_6S13_0621/A/1755:1759,
1/A/1770:1774		No text annotation
IL_6S13_0631/A/1797:1798,
1/A/2007:2009		Single bulged A
homologous
IL_5J7L_312
IL_31462.7
IL_6S13_0641/A/1825:1831,
1/A/1840:1848		Kink-turn related
homologous
IL_7RQB_070
NA
IL_6S13_0651/A/1864:1867,
1/A/1929:1930		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
IL_95583.2
IL_6S13_1701/A/1868:1869,
1/A/1925:1928		Major groove intercalation
homologous
IL_4WF9_071
IL_82107.5
IL_6S13_0671/A/1873:1876,
1/A/1920:1921		Major groove platform
geometric
IL_8DP3_001
IL_02555.1
IL_6S13_1931/A/1878:1882,
1/A/1914:1918		UAA/GAN with extra stack
homologous
IL_9DFE_074
IL_89021.2
IL_6S13_1941/A/1883:1887,
1/A/1909:1913		No text annotation
IL_6S13_0701/A/1961:1972,
1/A/1988:1991		No text annotation
homologous
IL_4WF9_077
IL_42218.2
IL_6S13_0711/A/2077:2079,
1/A/2644:2645		Major groove platform
homologous
IL_4WF9_078
IL_48076.6
IL_6S13_0721/A/2081:2083,
1/A/2639:2642		No text annotation
homologous
IL_4WF9_079
IL_83389.2
IL_6S13_0731/A/2094:2096,
1/A/2469:2470		Single bulged U
homologous
IL_7RQB_080
NA
IL_6S13_0741/A/2097:2098,
1/A/2465:2468		Minor groove platform
homologous
IL_7RQB_081
NA
IL_6S13_0751/A/2108:2110,
1/A/2263:2266		Isolated tHS basepair with bulges
homologous
IL_5J7L_325
IL_85599.2
IL_6S13_0761/A/2123:2126,
1/A/2217:2220		No text annotation
IL_6S13_1951/A/2128:2151,
1/A/2201:2215		No text annotation
IL_6S13_0781/A/2151:2154,
1/A/2188:2201		No text annotation
IL_6S13_0791/A/2156:2168,
1/A/2177:2186		No text annotation
IL_6S13_0801/A/2229:2231,
1/A/2247:2248		Single bulged G
geometric
IL_3NDB_004
IL_00225.14
IL_6S13_0811/A/2324:2326,
1/A/2344:2348		Isolated tHS basepair with bulges
geometric
IL_5TBW_095
NA
IL_6S13_0821/A/2377:2380,
1/A/2391:2394		Double sheared
homologous
IL_7A0S_081
IL_09705.15
IL_6S13_0831/A/2428:2430,
1/A/2441:2442		Single bulged U
homologous
IL_5J7L_334
IL_89505.4
IL_6S13_1961/A/2480:2481,
1/A/2525:2527		Single stack bend
homologous
IL_4WF9_089
IL_26793.1
IL_6S13_0841/A/2481:2482,
1/A/2523:2525		Major groove platform
homologous
IL_4WF9_090
IL_48076.6
IL_6S13_0851/A/2484:2486,
1/A/2520:2521		Major groove platform
geometric
IL_4WF9_091
IL_48076.6
IL_6S13_0861/A/2486:2488,
1/A/2516:2520		Major groove minor groove platform with extra cWW
homologous
IL_7RQB_094
NA
IL_6S13_0871/A/2493:2497,
1/A/2507:2511		Double sheared with non-canonical cWW
homologous
IL_4WF9_093
IL_17948.2
IL_6S13_1741/A/2534:2535,
1/A/2607:2609		No text annotation
homologous
IL_9DFE_096
IL_07039.3
IL_6S13_0891/A/2537:2539,
1/A/2601:2605		Isolated non-canonical cWW with bulges
geometric
IL_4WF9_095
IL_07785.1
IL_6S13_0901/A/2539:2540,
1/A/2598:2601		No text annotation
homologous
IL_5J7L_341
IL_42626.2
IL_6S13_0911/A/2548:2550,
1/A/2567:2571		No text annotation
IL_6S13_0921/A/2618:2619,
1/A/2628:2630		Major groove platform
geometric
IL_1G1X_002
IL_48076.6
IL_6S13_0931/A/2663:2667,
1/A/2801:2809		tSH-tHS-tHW
homologous
IL_4WF9_099
IL_04638.3
IL_6S13_0941/A/2670:2672,
1/A/2797:2798		Single stack bend
geometric
IL_7A0S_054
IL_26793.1
IL_6S13_0951/A/2678:2685,
1/A/2690:2696		No text annotation
IL_6S13_0961/A/2703:2704,
1/A/2757:2759		Single stack bend
geometric
IL_7A0S_054
IL_26793.1
IL_6S13_0971/A/2707:2711,
1/A/2752:2754		C-loop
homologous
IL_4WF9_101
IL_63596.11
IL_6S13_0981/A/2714:2718,
1/A/2745:2749		UAA/GAN related, with intercalation
homologous
IL_5J7L_348
IL_23774.1
IL_6S13_0991/A/2722:2723,
1/A/2738:2741		Multiple bulged bases
homologous
IL_5J7L_349
IL_42626.2
IL_6S13_1001/A/2764:2770,
1/A/2788:2794		No text annotation
IL_6S13_1011/A/2858:2859,
1/A/2898:2900		Major groove intercalation
homologous
IL_4WF9_106
IL_66635.5
IL_6S13_1021/A/2863:2865,
1/A/2891:2894		No text annotation
homologous
IL_4WF9_107
IL_31531.3
IL_6S13_1031/A/2867:2872,
1/A/2885:2889		tHS double platform
homologous
IL_4WF9_108
IL_70411.2
IL_6S13_1041/B/3:5,
1/B/111:112		Single stack bend
geometric
IL_7A0S_054
IL_26793.1
IL_6S13_1051/B/5:8,
1/B/107:111		No text annotation
IL_6S13_1061/B/15:16,
1/B/63:65		Major groove intercalation
homologous
IL_7RQB_111
NA
IL_6S13_1071/B/21:30,
1/B/48:58		No text annotation
IL_6S13_1081/B/32:36,
1/B/42:46		Symmetric double minor groove platform
homologous
IL_4V9F_104
IL_58103.11
IL_6S13_1091/B/69:77,
1/B/94:102		Bacterial 5S Loop E
homologous
IL_7A0S_106
IL_56455.6
IL_6S13_1761/B/69:80,
1/B/91:102		No text annotation
IL_6S13_1101/B/77:80,
1/B/91:94		Tandem non-canonical cWW pairs
geometric
IL_7A0S_040
IL_77658.1
IL_6S13_1771/a/16:18,
1/a/927:929		Isolated non-canonical cWW pair
geometric
IL_4V88_467
NA
IL_6S13_1111/a/31:33,
1/a/560:561		Single bulged G
homologous
IL_4LFB_001
IL_00225.14
IL_6S13_1121/a/45:47,
1/a/403:406		No text annotation
IL_6S13_1131/a/48:53,
1/a/367:369		No text annotation
homologous
IL_4LFB_003
IL_14177.2
IL_6S13_1141/a/64:67,
1/a/102:103		Multiple bulged bases
homologous
IL_4LFB_005
IL_82107.5
IL_6S13_1151/a/68:72,
1/a/97:101		No text annotation
IL_6S13_1161/a/72:77,
1/a/92:97		No text annotation
IL_6S13_1171/a/128:131,
1/a/239:240		No text annotation
IL_6S13_1181/a/132:136,
1/a/235:238		No text annotation
IL_6S13_1781/a/144:153,
1/a/168:178		No text annotation
IL_6S13_1191/a/250:255,
1/a/285:292		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
IL_46174.3
IL_6S13_1201/a/257:261,
1/a/282:283		No text annotation
IL_6S13_1971/a/257:262,
1/a/280:283		No text annotation
IL_6S13_1211/a/261:263,
1/a/279:282		No text annotation
IL_6S13_1221/a/300:303,
1/a/310:316		No text annotation
IL_6S13_1231/a/375:377,
1/a/400:401		Single bulged U
homologous
IL_4LFB_014
IL_89505.4
IL_6S13_1241/a/379:383,
1/a/397:398		C-loop
geometric
IL_6CZR_127
NA
IL_6S13_1801/a/383:384,
1/a/394:397		Major groove platform
geometric
IL_8C3A_112
NA
IL_6S13_1811/a/384:386,
1/a/393:394		Single stack bend
geometric
IL_8C3A_012
NA
IL_6S13_1261/a/454:458,
1/a/491:496		6x5 Sarcin-Ricin; G-bulge
homologous
IL_6CZR_130
NA
IL_6S13_1981/a/458:468,
1/a/481:491		No text annotation
IL_6S13_1271/a/510:512,
1/a/549:552		No text annotation
IL_6S13_1281/a/512:519,
1/a/548:549		Multiple bulged bases
geometric
IL_3R2D_001
IL_84476.1
IL_6S13_1291/a/523:529,
1/a/536:544		Kink-turn related
homologous
IL_6CZR_133
NA
IL_6S13_1301/a/577:583,
1/a/889:890		No text annotation
homologous
IL_5J7L_026
IL_38186.6
IL_6S13_1311/a/588:592,
1/a/765:769		tSH-tHW-tHS
homologous
IL_6CZR_135
NA
IL_6S13_1991/a/602:604,
1/a/652:653		No text annotation
IL_6S13_1331/a/605:610,
1/a/644:651		No text annotation
IL_6S13_2001/a/612:620,
1/a/636:642		No text annotation
IL_6S13_1351/a/662:663,
1/a/759:762		Major groove platform; stack outside cWW
homologous
IL_6CZR_139
NA
IL_6S13_1361/a/664:667,
1/a/754:758		No text annotation
IL_6S13_1851/a/670:675,
1/a/747:751		No text annotation
IL_6S13_1381/a/681:686,
1/a/720:725		No text annotation
IL_6S13_1391/a/690:696,
1/a/707:716		No text annotation
IL_6S13_1401/a/781:787,
1/a/811:814		No text annotation
IL_6S13_1411/a/787:791,
1/a/807:811		tSH-tHW-tHS
geometric
IL_4V88_436
NA
IL_6S13_1421/a/791:794,
1/a/805:807		No text annotation
IL_6S13_1871/a/896:906,
1/a/911:919		No text annotation
IL_6S13_1431/a/931:936,
1/a/1400:1405		No text annotation
IL_6S13_2021/a/959:963,
1/a/1236:1241		No text annotation
IL_6S13_1451/a/994:996,
1/a/1228:1231		No text annotation
IL_6S13_1461/a/1002:1008,
1/a/1052:1056		No text annotation
IL_6S13_1471/a/1059:1061,
1/a/1218:1219		No text annotation
homologous
IL_6CZR_152
NA
IL_6S13_1481/a/1061:1067,
1/a/1214:1218		No text annotation
IL_6S13_1491/a/1068:1072,
1/a/1205:1213		No text annotation
IL_6S13_1881/a/1072:1074,
1/a/1203:1205		No text annotation
IL_6S13_1501/a/1125:1126,
1/a/1195:1197		Single stack bend
geometric
IL_5TBW_070
NA
IL_6S13_1891/a/1125:1171,
1/a/1185:1197		No text annotation
IL_6S13_1511/a/1133:1143,
1/a/1152:1162		No text annotation
IL_6S13_1521/a/1257:1264,
1/a/1294:1300		No text annotation
IL_6S13_1901/a/1257:1268,
1/a/1287:1300		No text annotation
IL_6S13_1531/a/1265:1268,
1/a/1287:1293		No text annotation
IL_6S13_2031/a/1313:1318,
1/a/1339:1344		No text annotation
IL_6S13_1551/a/1409:1411,
1/a/1512:1515		No text annotation
homologous
IL_4LFB_056
IL_61438.4
IL_6S13_1561/a/1411:1417,
1/a/1505:1512		No text annotation
IL_6S13_1571/a/1417:1419,
1/a/1502:1505		No text annotation
IL_6S13_1581/a/1422:1429,
1/a/1492:1499		No text annotation
IL_6S13_1591/a/1434:1437,
1/a/1484:1487		Tandem non-canonical cWW pairs
geometric
IL_4K27_001
IL_85033.2
IL_6S13_1601/a/1440:1445,
1/a/1477:1481		No text annotation
IL_6S13_1611/a/1445:1447,
1/a/1475:1477		Isolated non-canonical cWW pair
homologous
IL_4LFB_063
IL_87907.2
IL_6S13_2041/a/1450:1453,
1/a/1470:1472		No text annotation

Problematic loops

#loop idProblemSequence
IL_6S13_038No text annotation
IL_6S13_042No text annotation
IL_6S13_043No text annotation
IL_6S13_066Isolated non-canonical cWW with bulges
IL_6S13_068No text annotation
IL_6S13_171No text annotation
IL_6S13_069No text annotation
IL_6S13_172No text annotation
IL_6S13_077No text annotation
IL_6S13_173No text annotation
IL_6S13_088Major groove platform with extra pair
IL_6S13_175No text annotation
IL_6S13_179No text annotation
IL_6S13_125Single bulged G, near cWW
IL_6S13_182No text annotation
IL_6S13_183Isolated cWH basepair
IL_6S13_132No text annotation
IL_6S13_134No text annotation
IL_6S13_184No text annotation
IL_6S13_137No text annotation
IL_6S13_201No text annotation
IL_6S13_186No text annotation
IL_6S13_144No text annotation
IL_6S13_154No text annotation
IL_6S13_191No text annotation
IL_6S13_162No text annotation
IL_6S13_192No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6S13_0011/A/30:31,
1/A/520:527,
1/A/554:555		No text annotation
homologous
J3_5J7L_036
J3_60031.2
J3_6S13_0231/A/30:31,
1/A/520:530,
1/A/541:555		No text annotation
homologous
J3_4WF9_011
J3_92134.2
J3_6S13_0241/A/32:35,
1/A/491:507,
1/A/514:519		No text annotation
homologous
J3_9DFE_003
J3_30040.2
J3_6S13_0021/A/56:57,
1/A/70:76,
1/A/109:113		No text annotation
homologous
J3_7A0S_002
J3_35667.2
J3_6S13_0251/A/272:276,
1/A/295:303,
1/A/414:416		No text annotation
homologous
J3_4WF9_014
NA
J3_6S13_0041/A/728:734,
1/A/818:820,
1/A/836:839		No text annotation
homologous
J3_5J7L_038
J3_64189.2
J3_6S13_0051/A/743:745,
1/A/777:781,
1/A/805:808		No text annotation
homologous
J3_7RQB_005
NA
J3_6S13_0061/A/1335:1340,
1/A/1669:1671,
1/A/1683:1686		No text annotation
homologous
J3_4WF9_004
J3_32852.6
J3_6S13_0071/A/1342:1346,
1/A/1649:1655,
1/A/1664:1667		No text annotation
homologous
J3_4WF9_005
J3_68164.1
J3_6S13_0271/A/1381:1387,
1/A/1418:1422,
1/A/1439:1440		No text annotation
homologous
J3_7A0S_018
J3_31965.2
J3_6S13_0281/A/1468:1473,
1/A/1611:1612,
1/A/1615:1621		No text annotation
homologous
J3_9DFE_013
J3_34864.2
J3_6S13_0291/A/1481:1494,
1/A/1506:1511,
1/A/1570:1603		No text annotation
J3_6S13_0081/A/2118:2120,
1/A/2223:2229,
1/A/2248:2255		No text annotation
J3_6S13_0301/A/2309:2312,
1/A/2410:2422,
1/A/2448:2454		No text annotation
homologous
J3_4WF9_019
J3_39320.1
J3_6S13_0091/A/2322:2324,
1/A/2348:2350,
1/A/2359:2364		No text annotation
homologous
J3_4WF9_008
J3_61124.2
J3_6S13_0101/A/2544:2547,
1/A/2572:2574,
1/A/2588:2594		No text annotation
homologous
J3_4WF9_009
J3_32601.5
J3_6S13_0111/A/2816:2818,
1/A/2826:2831,
1/A/2909:2913		No text annotation
J3_6S13_0121/A/2833:2835,
1/A/2851:2856,
1/A/2902:2907		No text annotation
J3_6S13_0391/B/9:14,
1/B/66:68,
1/B/103:106		No text annotation
J3_6S13_0141/a/47:48,
1/a/369:375,
1/a/401:403		No text annotation
J3_6S13_0311/a/47:53,
1/a/367:375,
1/a/401:403		No text annotation
homologous
J3_5J7L_050
J3_46317.4
J3_6S13_0151/a/594:596,
1/a/659:662,
1/a/762:763		No text annotation
J3_6S13_0321/a/594:596,
1/a/659:663,
1/a/759:763		No text annotation
homologous
J3_5J7L_051
J3_17385.4
J3_6S13_0161/a/680:681,
1/a/725:733,
1/a/740:742		No text annotation
J3_6S13_0171/a/834:837,
1/a/866:870,
1/a/877:883		No text annotation
homologous
J3_4LFB_001
J3_85054.4
J3_6S13_0331/a/942:948,
1/a/1354:1361,
1/a/1381:1394		No text annotation
J3_6S13_0401/a/952:955,
1/a/1245:1247,
1/a/1347:1350		No text annotation
J3_6S13_0191/a/963:971,
1/a/982:994,
1/a/1231:1236		No text annotation
J3_6S13_0201/a/998:1002,
1/a/1056:1058,
1/a/1220:1226		No text annotation
J3_6S13_0341/a/998:1008,
1/a/1052:1058,
1/a/1220:1226		No text annotation
J3_6S13_0351/a/1012:1017,
1/a/1030:1037,
1/a/1044:1048		No text annotation
J3_6S13_0361/a/1074:1079,
1/a/1118:1125,
1/a/1197:1203		No text annotation
J3_6S13_0411/a/1083:1085,
1/a/1094:1098,
1/a/1109:1114		No text annotation
J3_6S13_0381/a/1125:1143,
1/a/1152:1171,
1/a/1185:1197		No text annotation
J3_6S13_0221/a/1247:1251,
1/a/1306:1313,
1/a/1344:1347		No text annotation
J4_6S13_0011/A/271:272,
1/A/416:421,
1/A/445:452,
1/A/467:470		No text annotation
homologous
J4_5J7L_018
J4_45801.6
J4_6S13_0151/A/340:344,
1/A/359:362,
1/A/366:368,
1/A/380:384		No text annotation
homologous
J4_4WF9_002
J4_71729.5
J4_6S13_0031/A/644:647,
1/A/669:673,
1/A/680:683,
1/A/695:701		No text annotation
homologous
J4_5J7L_020
J4_60168.1
J4_6S13_0041/A/1308:1313,
1/A/1331:1332,
1/A/1689:1693,
1/A/2035:2037		No text annotation
J4_6S13_0051/A/1347:1351,
1/A/1375:1380,
1/A/1441:1442,
1/A/1641:1648		No text annotation
J4_6S13_0061/A/1799:1803,
1/A/1815:1819,
1/A/1854:1857,
1/A/2002:2006		No text annotation
homologous
J4_7A0S_008
J4_61477.5
J4_6S13_0071/A/1860:1863,
1/A/1931:1933,
1/A/1951:1961,
1/A/1991:1999		No text annotation
J4_6S13_0081/A/2312:2317,
1/A/2369:2374,
1/A/2397:2399,
1/A/2408:2410		No text annotation
J4_6S13_0091/A/2670:2673,
1/A/2701:2703,
1/A/2759:2762,
1/A/2796:2798		No text annotation
J4_6S13_0101/a/20:28,
1/a/564:575,
1/a/892:896,
1/a/919:925		No text annotation
J4_6S13_0161/a/37:41,
1/a/410:450,
1/a/500:510,
1/a/552:556		No text annotation
J4_6S13_0171/a/114:122,
1/a/246:248,
1/a/294:297,
1/a/319:320		No text annotation
homologous
J4_5J7L_001
J4_35578.3
J4_6S13_0131/a/142:144,
1/a/178:191,
1/a/200:213,
1/a/226:229		No text annotation
J4_6S13_0141/a/583:585,
1/a/772:777,
1/a/818:829,
1/a/888:889		No text annotation
homologous
J4_5J7L_003
J4_61885.6
J5_6S13_0081/A/45:46,
1/A/181:186,
1/A/217:238,
1/A/265:269,
1/A/472:479		No text annotation
J5_6S13_0021/A/47:54,
1/A/115:120,
1/A/129:130,
1/A/149:151,
1/A/178:180		No text annotation
homologous
J5_9DFE_001
J5_01737.2
J5_6S13_0031/A/627:632,
1/A/713:716,
1/A/854:857,
1/A/1234:1235,
1/A/1288:1294		No text annotation
homologous
J5_4WF9_004
J5_74302.5
J5_6S13_0041/A/1718:1726,
1/A/1750:1751,
1/A/1778:1779,
1/A/1783:1791,
1/A/2015:2017		No text annotation
homologous
J5_4WF9_005
J5_62523.6
J5_6S13_0091/A/2084:2091,
1/A/2473:2480,
1/A/2527:2534,
1/A/2609:2615,
1/A/2633:2638		No text annotation
J5_6S13_0061/A/2101:2104,
1/A/2270:2273,
1/A/2285:2286,
1/A/2308:2309,
1/A/2454:2462		No text annotation
homologous
J5_7A0S_007
J5_39529.1
J5_6S13_0071/a/54:62,
1/a/105:112,
1/a/322:324,
1/a/345:347,
1/a/358:366		No text annotation
J7_6S13_0011/A/862:867,
1/A/880:881,
1/A/987:990,
1/A/1015:1020,
1/A/1031:1035,
1/A/1207:1209,
1/A/1223:1229		No text annotation
J10_6S13_0021/A/5:15,
1/A/570:578,
1/A/603:607,
1/A/620:622,
1/A/1299:1300,
1/A/2044:2050,
1/A/2067:2070,
1/A/2652:2657,
1/A/2815:2816,
1/A/2913:2917		No text annotation

Problematic loops

#loop idProblemSequence
J3_6S13_003No text annotation
J3_6S13_026No text annotation
J3_6S13_013No text annotation
J3_6S13_018No text annotation
J3_6S13_021No text annotation
J3_6S13_037No text annotation
J4_6S13_002No text annotation
J4_6S13_011No text annotation
J4_6S13_012No text annotation
J5_6S13_001No text annotation
J5_6S13_005No text annotation
J10_6S13_001No text annotation

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