RNA 3D Hub //

6O8X Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6O8X_0011/A/68:75No text annotation
homologous
HL_4WF9_001
HL_08550.2
HL_6O8X_0021/A/88:96Pseudoknot geometry
homologous
HL_4WF9_002
HL_00911.2
HL_6O8X_0031/A/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.7
HL_6O8X_0041/A/137:144GNRA wlth tandem sheared
homologous
HL_4WF9_004
HL_98423.3
HL_6O8X_0051/A/160:170No text annotation
homologous
HL_5J7L_138
NA
HL_6O8X_0061/A/197:204No text annotation
homologous
HL_4WF9_006
HL_48677.1
HL_6O8X_0071/A/228:233No text annotation
homologous
HL_4WF9_007
HL_51020.2
HL_6O8X_0081/A/249:255No text annotation
homologous
HL_7RQB_008
NA
HL_6O8X_0101/A/342:349T-loop with 2 stacked bulged bases
geometric
HL_4WF9_010
HL_13999.3
HL_6O8X_0111/A/356:360No text annotation
homologous
HL_4WF9_011
HL_75660.7
HL_6O8X_0121/A/364:372T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_6O8X_0131/A/421:433No text annotation
homologous
HL_4WF9_013
HL_69139.1
HL_6O8X_0141/A/450:457No text annotation
homologous
HL_7RQB_014
NA
HL_6O8X_0151/A/502:507GNRA
homologous
HL_4WF9_015
HL_34789.4
HL_6O8X_0161/A/527:532GNRA
homologous
HL_7RQB_016
NA
HL_6O8X_0171/A/581:588No text annotation
homologous
HL_4WF9_017
HL_50318.1
HL_6O8X_0181/A/603:612T-loop with 2 stacked bulged bases
geometric
HL_7A0S_018
HL_33597.3
HL_6O8X_0191/A/649:655No text annotation
geometric
HL_4WF9_003
HL_75660.7
HL_6O8X_0201/A/668:673GNRA
homologous
HL_4WF9_020
HL_34789.4
HL_6O8X_0211/A/680:686No text annotation
homologous
HL_7RQB_021
NA
HL_6O8X_0221/A/751:760Externally structured
geometric
HL_8C3A_022
NA
HL_6O8X_0231/A/784:793No text annotation
homologous
HL_7A0S_022
HL_50204.1
HL_6O8X_1041/A/819:825No text annotation
homologous
HL_5J7L_156
NA
HL_6O8X_0251/A/866:871No text annotation
homologous
HL_4WF9_025
HL_27530.1
HL_6O8X_0261/A/926:932No text annotation
HL_6O8X_0271/A/995:1002GNRA
homologous
HL_7A0S_026
HL_34789.4
HL_6O8X_0281/A/1018:1025No text annotation
homologous
HL_5J7L_160
NA
HL_6O8X_0311/A/1259:1264GNRA
homologous
HL_7A0S_031
HL_34789.4
HL_6O8X_0321/A/1317:1325T-loop with 2 stacked bulged bases
homologous
HL_4WF9_032
HL_33597.3
HL_6O8X_0331/A/1360:1366Pseudoknot geometry with 3' bulge
homologous
HL_7A0S_033
HL_49081.1
HL_6O8X_0341/A/1399:1404GNRA
homologous
HL_5J7L_167
NA
HL_6O8X_0351/A/1425:1434No text annotation
homologous
HL_4WF9_035
HL_77449.1
HL_6O8X_0361/A/1493:1504No text annotation
HL_6O8X_0371/A/1534:1540Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
NA
HL_6O8X_0381/A/1574:1587No text annotation
HL_6O8X_0391/A/1611:1614Mini UNCG
homologous
HL_5J7L_172
NA
HL_6O8X_0401/A/1655:1662No text annotation
homologous
HL_4WF9_038
HL_28592.2
HL_6O8X_0411/A/1673:1679GNRA
homologous
HL_5J7L_174
NA
HL_6O8X_0421/A/1734:1739UNCG
homologous
HL_7A0S_042
HL_61337.3
HL_6O8X_0431/A/1755:1760No text annotation
homologous
HL_7A0S_043
NA
HL_6O8X_0441/A/1766:1770No text annotation
homologous
HL_7RQB_044
NA
HL_6O8X_0451/A/1791:1801No text annotation
homologous
HL_4WF9_043
HL_87681.1
HL_6O8X_0461/A/1820:1825GNRA
homologous
HL_7RQB_046
NA
HL_6O8X_0471/A/1883:1886No text annotation
HL_6O8X_0491/A/1963:1971No text annotation
homologous
HL_5J7L_182
NA
HL_6O8X_0501/A/2041:2050No text annotation
homologous
HL_4WF9_047
HL_78372.1
HL_6O8X_0511/A/2156:2163No text annotation
HL_6O8X_0521/A/2223:2229No text annotation
homologous
HL_5J7L_185
NA
HL_6O8X_0531/A/2262:2270No text annotation
homologous
HL_4WF9_049
HL_11974.2
HL_6O8X_0541/A/2278:2290No text annotation
homologous
HL_4WF9_050
HL_02042.1
HL_6O8X_0551/A/2317:2327No text annotation
homologous
HL_7RQB_055
NA
HL_6O8X_0561/A/2338:2345Pseudoknot geometry
homologous
HL_4WF9_052
HL_52651.2
HL_6O8X_0571/A/2369:2376GNRA with extra cWW
homologous
HL_4WF9_053
HL_87268.2
HL_6O8X_0581/A/2388:2393GNRA
homologous
HL_7A0S_057
HL_34789.4
HL_6O8X_0591/A/2418:2427No text annotation
homologous
HL_4WF9_055
HL_51853.2
HL_6O8X_0601/A/2485:2493No text annotation
homologous
HL_4WF9_056
HL_52011.1
HL_6O8X_0611/A/2542:2549GNRA variation
homologous
HL_5J7L_194
NA
HL_6O8X_0621/A/2565:2571No text annotation
homologous
HL_4WF9_058
HL_48677.1
HL_6O8X_0631/A/2608:2613GNRA
homologous
HL_7A0S_062
HL_34789.4
HL_6O8X_0641/A/2672:2677GNRA
homologous
HL_7RQB_064
NA
HL_6O8X_0651/A/2715:2720Ribsomal LSU H95
homologous
HL_4WF9_061
HL_12125.2
HL_6O8X_0661/A/2759:2773No text annotation
homologous
HL_5J7L_199
NA
HL_6O8X_1051/A/2807:2814No text annotation
HL_6O8X_0681/A/2830:2838No text annotation
homologous
HL_7RQB_068
NA
HL_6O8X_0691/A/2867:2872GNRA
homologous
HL_7A0S_068
HL_34789.4
HL_6O8X_0701/B/36:42No text annotation
homologous
HL_5J7L_203
NA
HL_6O8X_0711/B/83:89No text annotation
geometric
HL_2ZZM_002
HL_33487.1
HL_6O8X_0721/a/9:19No text annotation
homologous
HL_4LFB_001
HL_73535.1
HL_6O8X_0741/a/164:169GNRA
homologous
HL_4LFB_003
HL_34789.4
HL_6O8X_0751/a/199:204No text annotation
geometric
HL_5NFV_001
HL_69752.4
HL_6O8X_1081/a/223:230No text annotation
HL_6O8X_0771/a/274:282GNRA related
homologous
HL_5J7L_006
NA
HL_6O8X_0781/a/311:316GNRA
homologous
HL_5J7L_007
NA
HL_6O8X_0791/a/335:348No text annotation
homologous
HL_6CZR_079
NA
HL_6O8X_0801/a/357:362UNCG
homologous
HL_5J7L_009
NA
HL_6O8X_0811/a/394:399GNRA
homologous
HL_6CZR_081
NA
HL_6O8X_1061/a/472:492No text annotation
HL_6O8X_0831/a/476:487No text annotation
HL_6O8X_0841/a/537:542No text annotation
geometric
HL_4WF9_003
HL_75660.7
HL_6O8X_0851/a/632:638GNRA-like with tWH
homologous
HL_5J7L_014
NA
HL_6O8X_0861/a/704:713No text annotation
homologous
HL_4LFB_015
HL_38491.2
HL_6O8X_0871/a/741:746GNRA
homologous
HL_4LFB_016
HL_34789.4
HL_6O8X_0881/a/801:811No text annotation
homologous
HL_5J7L_017
NA
HL_6O8X_0901/a/878:883GNRA
homologous
HL_4LFB_019
HL_34789.4
HL_6O8X_0911/a/913:918GNRA
homologous
HL_4LFB_020
HL_34789.4
HL_6O8X_0921/a/979:988No text annotation
homologous
HL_4LFB_021
HL_97521.1
HL_6O8X_0951/a/1092:1097GNRA
homologous
HL_5J7L_023
NA
HL_6O8X_0961/a/1104:1113No text annotation
HL_6O8X_0981/a/1180:1186GNRA
homologous
HL_4LFB_027
HL_34789.4
HL_6O8X_1011/a/1371:1381No text annotation
homologous
HL_5J7L_029
NA
HL_6O8X_1031/a/1531:1536GNRA
geometric
HL_4WF9_015
HL_34789.4

Problematic loops

#loop idProblemSequence
HL_6O8X_009No text annotation
HL_6O8X_024No text annotation
HL_6O8X_029No text annotation
HL_6O8X_030No text annotation
HL_6O8X_048No text annotation
HL_6O8X_067No text annotation
HL_6O8X_073No text annotation
HL_6O8X_076No text annotation
HL_6O8X_082UNCG
HL_6O8X_089No text annotation
HL_6O8X_093GNRA
HL_6O8X_094No text annotation
HL_6O8X_107No text annotation
HL_6O8X_097No text annotation
HL_6O8X_099GNRA
HL_6O8X_100T-loop with 3 stacked bulged bases
HL_6O8X_102No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6O8X_0011/A/25:31,
1/A/549:555		Triple sheared with non-canonical cWW
homologous
IL_4WF9_001
IL_22311.1
IL_6O8X_0021/A/37:38,
1/A/482:484		Single bulged A
homologous
IL_7A0S_002
IL_14190.2
IL_6O8X_0031/A/44:45,
1/A/474:476		Minor groove platform
homologous
IL_5J7L_247
NA
IL_6O8X_1771/A/57:77,
1/A/110:114		No text annotation
geometric
IL_5TBW_144
NA
IL_6O8X_0041/A/82:86,
1/A/98:105		Kink-turn
homologous
IL_4WF9_004
IL_71972.1
IL_6O8X_0051/A/153:156,
1/A/174:177		Tandem non-canonical cWW pairs
geometric
IL_5TBW_128
NA
IL_6O8X_0061/A/186:187,
1/A/215:217		Single stack bend
homologous
IL_4WF9_007
IL_15011.2
IL_6O8X_0071/A/190:197,
1/A/204:212		9x8 Sarcin-Ricin; G-bulge
geometric
IL_4WF9_008
IL_93502.1
IL_6O8X_0081/A/241:248,
1/A/256:262		8x7 Sarcin-Ricin; G-bulge
homologous
IL_4WF9_009
IL_62167.3
IL_6O8X_0091/A/305:306,
1/A/403:406		Major groove minor groove platform; mini C-loop
geometric
IL_4LFB_025
IL_73108.2
IL_6O8X_0101/A/309:315,
1/A/397:400		No text annotation
IL_6O8X_0111/A/317:319,
1/A/394:395		Single bulged A
geometric
IL_1JZV_002
IL_14190.2
IL_6O8X_0121/A/320:322,
1/A/392:393		Single bulged C
geometric
IL_4WF9_035
IL_05642.2
IL_6O8X_0131/A/330:332,
1/A/380:384		No text annotation
homologous
IL_7RQB_013
NA
IL_6O8X_0141/A/340:342,
1/A/349:351		Isolated non-canonical cWW pair
geometric
IL_4ZC7_001
IL_01003.3
IL_6O8X_0151/A/521:524,
1/A/535:548		No text annotation
homologous
IL_4WF9_015
IL_44923.1
IL_6O8X_0161/A/575:578,
1/A/591:594		Double sheared
homologous
IL_4WF9_016
IL_58355.2
IL_6O8X_0171/A/601:603,
1/A/612:614		Isolated non-canonical cWW pair
homologous
IL_4WF9_017
IL_71625.3
IL_6O8X_0181/A/643:647,
1/A/657:661		AAA cross-strand stack
homologous
IL_4WF9_019
IL_66798.3
IL_6O8X_0191/A/712:714,
1/A/846:848		Isolated non-canonical cWW pair
homologous
IL_7A0S_014
IL_01003.3
IL_6O8X_0201/A/714:718,
1/A/839:846		tHW-tHW cross-strand stack
geometric
IL_4WF9_021
IL_73855.1
IL_6O8X_0211/A/720:722,
1/A/835:837		Isolated non-canonical cWW pair
geometric
IL_5MWI_002
IL_01003.3
IL_6O8X_0221/A/737:738,
1/A/803:805		Single bulged A
geometric
IL_5J7L_261
NA
IL_6O8X_0231/A/742:743,
1/A/768:770		Single bulged G
geometric
IL_5J7L_262
NA
IL_6O8X_0241/A/743:747,
1/A/764:768		Triple sheared
homologous
IL_7RQB_021
NA
IL_6O8X_0251/A/778:780,
1/A/797:798		Major groove platform
homologous
IL_5J7L_264
NA
IL_6O8X_0261/A/815:817,
1/A/827:831		Multiple bulged bases
geometric
IL_5J7L_265
NA
IL_6O8X_0271/A/877:878,
1/A/980:982		Single stack bend
homologous
IL_7A0S_022
IL_15011.2
IL_6O8X_0281/A/883:888,
1/A/973:975		No text annotation
IL_6O8X_0291/A/888:889,
1/A/971:973		90 degree turn
geometric
IL_7A0S_024
IL_79144.1
IL_6O8X_0301/A/893:894,
1/A/965:967		Single bulged U
homologous
IL_4WF9_030
IL_97561.3
IL_6O8X_0311/A/896:903,
1/A/956:963		No text annotation
IL_6O8X_2051/A/896:909,
1/A/950:963		No text annotation
IL_6O8X_0321/A/903:904,
1/A/954:956		Minor groove platform
geometric
IL_4WF9_032
IL_34520.3
IL_6O8X_0331/A/904:910,
1/A/949:954		No text annotation
IL_6O8X_0341/A/916:920,
1/A/939:943		No text annotation
IL_6O8X_0361/A/992:994,
1/A/1003:1005		Isolated non-canonical cWW pair
homologous
IL_7A0S_031
IL_01003.3
IL_6O8X_0371/A/1034:1036,
1/A/1199:1200		Single bulged C
homologous
IL_5J7L_276
NA
IL_6O8X_0381/A/1038:1042,
1/A/1193:1197		UAA/GAN
homologous
IL_7A0S_033
IL_08938.1
IL_6O8X_0391/A/1044:1051,
1/A/1190:1191		SSU/LSU pseudoknot
homologous
IL_4WF9_037
IL_11411.1
IL_6O8X_0401/A/1051:1053,
1/A/1189:1190		Single bulged U
geometric
IL_4WF9_038
IL_97561.3
IL_6O8X_0411/A/1058:1064,
1/A/1180:1184		Kink-turn related
geometric
IL_5J7L_280
NA
IL_6O8X_0421/A/1064:1070,
1/A/1164:1180		No text annotation
geometric
IL_5J7L_281
NA
IL_6O8X_0431/A/1071:1074,
1/A/1161:1163		Isolated non-canonical cWW pair
homologous
IL_7A0S_038
IL_76400.1
IL_6O8X_0441/A/1083:1091,
1/A/1148:1152		Kink-turn
homologous
IL_5J7L_284
NA
IL_6O8X_1821/A/1083:1094,
1/A/1145:1152		No text annotation
IL_6O8X_0471/A/1234:1236,
1/A/1284:1287		Isolated cWS basepair
homologous
IL_7A0S_041
IL_42997.5
IL_6O8X_0481/A/1242:1244,
1/A/1276:1278		Isolated cWH basepair
homologous
IL_4WF9_045
IL_10892.2
IL_6O8X_0491/A/1245:1252,
1/A/1271:1275		Kink-turn
homologous
IL_7RQB_047
NA
IL_6O8X_0501/A/1256:1258,
1/A/1265:1267		Intercalated cWW
homologous
IL_4WF9_047
IL_53541.1
IL_6O8X_0511/A/1299:1306,
1/A/2025:2031		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_6O8X_0521/A/1346:1349,
1/A/1646:1647		Major groove platform; stack outside cWW
homologous
IL_4WF9_049
IL_74641.2
IL_6O8X_0531/A/1355:1359,
1/A/1367:1369		Major groove minor groove platform with tHH
homologous
IL_4WF9_050
IL_06671.1
IL_6O8X_0541/A/1387:1391,
1/A/1412:1416		UAA/GAN
homologous
IL_7A0S_048
IL_89021.4
IL_6O8X_0551/A/1393:1397,
1/A/1406:1410		tSH-tHW-tHS
homologous
IL_4WF9_052
IL_05821.1
IL_6O8X_1841/A/1446:1458,
1/A/1627:1635		No text annotation
IL_6O8X_0561/A/1459:1464,
1/A/1622:1626		No text annotation
IL_6O8X_0571/A/1474:1477,
1/A/1603:1607		No text annotation
IL_6O8X_0581/A/1479:1482,
1/A/1597:1601		tSH-tHW
homologous
IL_7RQB_057
NA
IL_6O8X_0591/A/1511:1514,
1/A/1564:1568		No text annotation
homologous
IL_5J7L_299
NA
IL_6O8X_1871/A/1511:1514,
1/A/1564:1569		No text annotation
IL_6O8X_0601/A/1518:1521,
1/A/1557:1560		Double sheared
geometric
IL_5J7L_333
NA
IL_6O8X_0611/A/1524:1526,
1/A/1548:1554		No text annotation
IL_6O8X_0621/A/1694:1699,
1/A/2018:2020		No text annotation
homologous
IL_4WF9_062
IL_12566.5
IL_6O8X_0631/A/1706:1708,
1/A/2009:2011		Isolated tWW turn
homologous
IL_5J7L_305
NA
IL_6O8X_0641/A/1709:1712,
1/A/2007:2008		Major groove platform; stack outside cWW
homologous
IL_4WF9_064
IL_74641.2
IL_6O8X_1891/A/1709:1717,
1/A/2004:2008		No text annotation
homologous
IL_4WF9_117
IL_80252.1
IL_6O8X_0651/A/1712:1717,
1/A/2004:2007		Intercalated tWH
geometric
IL_7A0S_062
IL_28217.1
IL_6O8X_0661/A/1729:1734,
1/A/1739:1745		tSH-tSH-tHH-tHS
geometric
IL_7RQB_068
NA
IL_6O8X_0671/A/1784:1785,
1/A/1994:1996		Single bulged A
homologous
IL_5J7L_312
NA
IL_6O8X_0681/A/1812:1818,
1/A/1827:1835		Kink-turn related
homologous
IL_7A0S_065
IL_17069.6
IL_6O8X_0691/A/1851:1854,
1/A/1916:1917		Minor groove platform, major groove intercalation
homologous
IL_7A0S_066
IL_55206.1
IL_6O8X_0701/A/1855:1856,
1/A/1912:1915		Major groove intercalation
homologous
IL_4WF9_071
IL_71421.2
IL_6O8X_0711/A/1860:1863,
1/A/1907:1908		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_316
NA
IL_6O8X_0721/A/1865:1869,
1/A/1901:1905		UAA/GAN with extra stack
homologous
IL_4WF9_073
IL_89021.4
IL_6O8X_0731/A/1870:1874,
1/A/1896:1900		Triple sheared
homologous
IL_7RQB_075
NA
IL_6O8X_0741/A/1878:1881,
1/A/1888:1892		UAA/GAN related
homologous
IL_5J7L_317
NA
IL_6O8X_0751/A/1947:1948,
1/A/1978:1981		Bulged stacked bases
homologous
IL_7A0S_071
IL_24886.2
IL_6O8X_0761/A/1948:1959,
1/A/1975:1978		No text annotation
geometric
IL_4WF9_077
IL_84014.1
IL_6O8X_0771/A/2064:2066,
1/A/2631:2632		Major groove platform
homologous
IL_7RQB_078
NA
IL_6O8X_0781/A/2068:2070,
1/A/2626:2629		No text annotation
homologous
IL_4WF9_079
IL_80025.1
IL_6O8X_0791/A/2081:2083,
1/A/2456:2457		Single bulged U
homologous
IL_7RQB_080
NA
IL_6O8X_0801/A/2084:2085,
1/A/2452:2455		Minor groove platform
homologous
IL_7RQB_081
NA
IL_6O8X_0811/A/2095:2097,
1/A/2250:2253		Isolated tHS basepair with bulges
homologous
IL_5J7L_325
NA
IL_6O8X_0821/A/2109:2111,
1/A/2206:2208		Isolated non-canonical cWW pair
geometric
IL_4LFB_061
NA
IL_6O8X_1911/A/2121:2124,
1/A/2193:2196		Tandem non-canonical cWW pairs
geometric
IL_5EW4_002
IL_15225.2
IL_6O8X_0841/A/2122:2124,
1/A/2193:2195		Isolated non-canonical cWW pair
homologous
IL_3U4M_001
IL_71625.3
IL_6O8X_0851/A/2124:2134,
1/A/2192:2193		No text annotation
geometric
IL_8C3A_128
NA
IL_6O8X_0891/A/2216:2218,
1/A/2234:2235		Single bulged U
homologous
IL_5J7L_331
NA
IL_6O8X_0901/A/2311:2313,
1/A/2331:2335		Isolated tHS basepair with bulges
homologous
IL_4WF9_086
IL_14250.1
IL_6O8X_0911/A/2364:2367,
1/A/2378:2381		Double sheared
homologous
IL_5J7L_333
NA
IL_6O8X_0931/A/2415:2417,
1/A/2428:2429		Single bulged U
homologous
IL_5J7L_334
NA
IL_6O8X_0941/A/2467:2468,
1/A/2512:2514		Single stack bend
geometric
IL_5TBW_070
NA
IL_6O8X_0951/A/2468:2469,
1/A/2510:2512		Major groove platform
homologous
IL_7RQB_092
NA
IL_6O8X_0961/A/2471:2473,
1/A/2507:2508		Major groove platform
geometric
IL_7A0S_085
IL_48076.8
IL_6O8X_1921/A/2471:2475,
1/A/2503:2508		No text annotation
IL_6O8X_0971/A/2473:2475,
1/A/2503:2507		Major groove minor groove platform with extra cWW
homologous
IL_7RQB_094
NA
IL_6O8X_0981/A/2480:2484,
1/A/2494:2498		Double sheared with non-canonical cWW
homologous
IL_4WF9_093
IL_87767.2
IL_6O8X_1931/A/2521:2522,
1/A/2594:2596		Major groove platform
homologous
IL_4WF9_094
IL_46637.2
IL_6O8X_0991/A/2524:2526,
1/A/2588:2592		Isolated non-canonical cWW with bulges
homologous
IL_7A0S_089
IL_68118.3
IL_6O8X_1001/A/2526:2527,
1/A/2585:2588		Multiple bulged bases
geometric
IL_7A0S_090
IL_44609.2
IL_6O8X_1021/A/2605:2606,
1/A/2615:2617		Single bulged A
homologous
IL_7RQB_101
NA
IL_6O8X_1031/A/2650:2654,
1/A/2788:2796		tSH-tHS-tHW
homologous
IL_4WF9_099
IL_04638.4
IL_6O8X_1041/A/2666:2672,
1/A/2677:2682		Sarcin-Ricin target in LSU H95; G-bulge
geometric
IL_7A0S_094
IL_16458.6
IL_6O8X_1051/A/2694:2698,
1/A/2739:2741		C-loop
homologous
IL_7A0S_095
IL_63596.12
IL_6O8X_1061/A/2701:2705,
1/A/2732:2736		UAA/GAN related, with intercalation
homologous
IL_4WF9_102
IL_82016.1
IL_6O8X_1071/A/2709:2710,
1/A/2725:2728		Multiple bulged bases
homologous
IL_4WF9_103
IL_44609.2
IL_6O8X_1081/A/2751:2756,
1/A/2776:2781		UAA/GAN with extra cWW
homologous
IL_7RQB_107
NA
IL_6O8X_1101/A/2849:2850,
1/A/2889:2891		Major groove intercalation
homologous
IL_4WF9_106
IL_77710.1
IL_6O8X_1111/A/2854:2857,
1/A/2881:2885		No text annotation
homologous
IL_7RQB_109
NA
IL_6O8X_1121/A/2858:2863,
1/A/2876:2880		tHS double platform
homologous
IL_4WF9_108
IL_48489.1
IL_6O8X_1141/B/15:16,
1/B/63:65		Major groove intercalation
homologous
IL_4WF9_112
IL_14190.2
IL_6O8X_1151/B/21:27,
1/B/53:58		No text annotation
geometric
IL_9E6Q_106
IL_41504.1
IL_6O8X_1161/B/28:30,
1/B/48:52		No text annotation
homologous
IL_4WF9_114
NA
IL_6O8X_1171/B/32:36,
1/B/42:46		Symmetric double minor groove platform
geometric
IL_5NS3_002
IL_58103.12
IL_6O8X_2061/B/69:77,
1/B/95:103		Bacterial 5S Loop E
homologous
IL_5J7L_359
NA
IL_6O8X_1181/a/27:29,
1/a/567:568		Single bulged G
homologous
IL_5J7L_001
NA
IL_6O8X_1191/a/41:42,
1/a/411:413		Single bulged A
homologous
IL_5J7L_002
NA
IL_6O8X_1201/a/44:49,
1/a/374:376		No text annotation
geometric
IL_5J7L_003
NA
IL_6O8X_1211/a/51:53,
1/a/371:372		Minor groove platform
homologous
IL_4LFB_004
IL_34520.3
IL_6O8X_1221/a/60:63,
1/a/108:109		Multiple bulged bases
homologous
IL_5J7L_005
NA
IL_6O8X_1231/a/64:66,
1/a/105:107		Isolated non-canonical cWW pair
homologous
IL_4LFB_006
IL_01003.3
IL_6O8X_1241/a/134:137,
1/a/246:247		Multiple bulged bases
homologous
IL_4LFB_007
IL_75289.1
IL_6O8X_1251/a/138:142,
1/a/242:245		No text annotation
homologous
IL_4LFB_008
IL_60988.2
IL_6O8X_1261/a/150:152,
1/a/182:184		Isolated cWH basepair
homologous
IL_5J7L_011
NA
IL_6O8X_1271/a/153:159,
1/a/174:181		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
NA
IL_6O8X_1281/a/257:262,
1/a/292:299		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_6O8X_1291/a/264:267,
1/a/289:290		No text annotation
homologous
IL_5J7L_015
NA
IL_6O8X_1301/a/307:308,
1/a/319:323		C-loop
homologous
IL_5J7L_016
NA
IL_6O8X_1311/a/382:384,
1/a/407:408		Single bulged U
geometric
IL_5J7L_017
NA
IL_6O8X_1321/a/386:390,
1/a/404:405		C-loop
homologous
IL_4LFB_015
IL_26900.1
IL_6O8X_1331/a/390:391,
1/a/402:404		Single bulged G
geometric
IL_5J7L_019
NA
IL_6O8X_1341/a/424:431,
1/a/442:448		No text annotation
homologous
IL_4LFB_017
IL_62329.1
IL_6O8X_1971/a/461:472,
1/a/492:503		No text annotation
IL_6O8X_1361/a/519:526,
1/a/555:556		SSU/LSU pseudoknot
homologous
IL_6CZR_132
NA
IL_6O8X_1371/a/530:536,
1/a/543:551		Kink-turn related
homologous
IL_5J7L_025
NA
IL_6O8X_1381/a/584:590,
1/a/896:897		No text annotation
homologous
IL_6CZR_134
NA
IL_6O8X_1391/a/595:600,
1/a/771:776		No text annotation
geometric
IL_8ZA4_001
NA
IL_6O8X_1401/a/609:611,
1/a/659:660		Major groove platform
homologous
IL_5J7L_028
NA
IL_6O8X_1411/a/612:613,
1/a/655:658		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_029
NA
IL_6O8X_1421/a/619:620,
1/a/647:649		Single bulged U
geometric
IL_5J7L_298
NA
IL_6O8X_1431/a/620:627,
1/a/643:647		No text annotation
homologous
IL_5J7L_030
NA
IL_6O8X_1441/a/669:670,
1/a/766:769		Major groove platform; stack outside cWW
geometric
IL_4LFB_027
IL_74641.2
IL_6O8X_1451/a/671:674,
1/a/761:765		No text annotation
IL_6O8X_1461/a/677:681,
1/a/755:758		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
NA
IL_6O8X_1991/a/688:692,
1/a/728:732		Triple non-canonical cWW pairs
homologous
IL_4LFB_065
IL_71154.3
IL_6O8X_1481/a/699:703,
1/a/714:721		Kink-turn
geometric
IL_7A0S_004
IL_94910.1
IL_6O8X_1491/a/789:793,
1/a/819:820		Left turn
homologous
IL_5J7L_036
NA
IL_6O8X_1501/a/794:798,
1/a/814:818		tSH-tHW-tHS
homologous
IL_6CZR_145
NA
IL_6O8X_1511/a/903:910,
1/a/921:926		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4LFB_034
IL_84044.1
IL_6O8X_1521/a/938:943,
1/a/1405:1410		No text annotation
IL_6O8X_1541/a/969:970,
1/a/1241:1243		Minor groove platform
homologous
IL_5J7L_042
NA
IL_6O8X_2031/a/1073:1074,
1/a/1214:1218		Minor groove platform
homologous
IL_6CZR_155
NA
IL_6O8X_1591/a/1076:1077,
1/a/1210:1212		Single bulged A
homologous
IL_5J7L_049
NA
IL_6O8X_1631/a/1173:1176,
1/a/1190:1196		No text annotation
geometric
IL_5J7L_053
NA
IL_6O8X_2041/a/1262:1268,
1/a/1299:1305		No text annotation
homologous
IL_5J7L_054
NA
IL_6O8X_1691/a/1422:1424,
1/a/1507:1510		Other IL
geometric
IL_7A0S_092
IL_10892.2
IL_6O8X_1701/a/1427:1429,
1/a/1502:1504		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
NA
IL_6O8X_1711/a/1431:1434,
1/a/1497:1500		Double sheared
homologous
IL_6CZR_169
NA
IL_6O8X_1721/a/1439:1442,
1/a/1489:1492		Tandem non-canonical cWW pairs
geometric
IL_5TBW_100
NA
IL_6O8X_1731/a/1445:1450,
1/a/1482:1486		Triple sheared related
geometric
IL_4V9F_018
IL_67427.1
IL_6O8X_1741/a/1450:1452,
1/a/1480:1482		Isolated non-canonical cWW pair
geometric
IL_4LFB_010
IL_01003.3
IL_6O8X_1751/a/1455:1458,
1/a/1475:1477		Isolated tHS basepair with bulges
geometric
IL_7RQB_012
NA
IL_6O8X_1761/a/1460:1463,
1/a/1471:1473		No text annotation
homologous
IL_5J7L_065
NA

Problematic loops

#loop idProblemSequence
IL_6O8X_178No text annotation
IL_6O8X_179No text annotation
IL_6O8X_180Isolated cWS basepair
IL_6O8X_035No text annotation
IL_6O8X_181Isolated non-canonical cWW pair
IL_6O8X_045No text annotation
IL_6O8X_046No text annotation
IL_6O8X_183No text annotation
IL_6O8X_185No text annotation
IL_6O8X_186No text annotation
IL_6O8X_188No text annotation
IL_6O8X_190Other IL
IL_6O8X_083Isolated non-canonical cWW pair
IL_6O8X_086No text annotation
IL_6O8X_087Single stack bend
IL_6O8X_088No text annotation
IL_6O8X_092Not an internal loop
IL_6O8X_101No text annotation
IL_6O8X_109Not an internal loop
IL_6O8X_113Not an internal loop
IL_6O8X_194No text annotation
IL_6O8X_195No text annotation
IL_6O8X_196Single bulged G, near cWW
IL_6O8X_135No text annotation
IL_6O8X_198No text annotation
IL_6O8X_147No text annotation
IL_6O8X_200Other IL
IL_6O8X_2019x7 Sarcin-Ricin with inserted C; G-bulge
IL_6O8X_202No text annotation
IL_6O8X_153Minor groove platform
IL_6O8X_155Minor groove platform
IL_6O8X_156Self complementary
IL_6O8X_207Single bulged U
IL_6O8X_157Isolated cWS basepair
IL_6O8X_158No text annotation
IL_6O8X_160Isolated non-canonical cWW pair
IL_6O8X_161Minor groove platform
IL_6O8X_162No text annotation
IL_6O8X_164No text annotation
IL_6O8X_165180 degree turn
IL_6O8X_166Tandem non-canonical cWW pairs
IL_6O8X_167No text annotation
IL_6O8X_168Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6O8X_0011/A/31:32,
1/A/514:521,
1/A/548:549		No text annotation
homologous
J3_5J7L_036
NA
J3_6O8X_0241/A/33:36,
1/A/485:501,
1/A/508:513		No text annotation
homologous
J3_9DFE_003
J3_07616.1
J3_6O8X_0021/A/57:68,
1/A/75:77,
1/A/110:114		No text annotation
homologous
J3_4WF9_001
J3_47707.1
J3_6O8X_0031/A/272:276,
1/A/295:302,
1/A/409:410		No text annotation
homologous
J3_7RQB_003
NA
J3_6O8X_0041/A/723:729,
1/A/813:815,
1/A/831:834		No text annotation
homologous
J3_5J7L_038
NA
J3_6O8X_0051/A/738:740,
1/A/772:776,
1/A/800:803		No text annotation
homologous
J3_7A0S_005
J3_69816.1
J3_6O8X_0061/A/1334:1339,
1/A/1668:1670,
1/A/1682:1685		No text annotation
homologous
J3_7RQB_007
NA
J3_6O8X_0071/A/1341:1345,
1/A/1648:1654,
1/A/1663:1666		No text annotation
homologous
J3_4WF9_005
J3_68164.1
J3_6O8X_0351/A/1380:1386,
1/A/1417:1421,
1/A/1438:1439		No text annotation
homologous
J3_7A0S_018
J3_94309.1
J3_6O8X_0261/A/1466:1471,
1/A/1610:1611,
1/A/1614:1620		No text annotation
homologous
J3_7A0S_019
J3_34864.3
J3_6O8X_0081/A/2105:2107,
1/A/2210:2215,
1/A/2236:2242		No text annotation
homologous
J3_4WF9_007
J3_07703.1
J3_6O8X_0271/A/2296:2298,
1/A/2398:2409,
1/A/2435:2441		No text annotation
homologous
J3_5J7L_070
NA
J3_6O8X_0091/A/2309:2311,
1/A/2335:2337,
1/A/2346:2351		No text annotation
homologous
J3_4WF9_008
J3_05327.1
J3_6O8X_0101/A/2531:2534,
1/A/2559:2561,
1/A/2575:2581		No text annotation
homologous
J3_4WF9_009
J3_32601.6
J3_6O8X_0111/A/2825:2826,
1/A/2842:2847,
1/A/2893:2897		No text annotation
homologous
J3_7RQB_014
NA
J3_6O8X_0121/B/9:14,
1/B/66:69,
1/B/103:107		No text annotation
J3_6O8X_0131/a/43:44,
1/a/376:382,
1/a/408:410		No text annotation
homologous
J3_5J7L_001
NA
J3_6O8X_0281/a/43:49,
1/a/374:382,
1/a/408:410		No text annotation
homologous
J3_4LFB_014
J3_63856.1
J3_6O8X_0141/a/601:603,
1/a/666:669,
1/a/769:770		No text annotation
homologous
J3_5J7L_002
NA
J3_6O8X_0291/a/601:603,
1/a/666:670,
1/a/766:770		No text annotation
homologous
J3_4LFB_015
J3_17385.5
J3_6O8X_0151/a/687:688,
1/a/732:740,
1/a/747:749		No text annotation
homologous
J3_5J7L_003
NA
J3_6O8X_0161/a/841:844,
1/a/873:877,
1/a/884:890		No text annotation
homologous
J3_5J7L_004
NA
J3_6O8X_0301/a/952:955,
1/a/1359:1365,
1/a/1387:1394		No text annotation
homologous
J3_5J7L_052
NA
J3_6O8X_0171/a/959:962,
1/a/1250:1252,
1/a/1352:1355		No text annotation
homologous
J3_4LFB_003
J3_44359.1
J3_6O8X_0201/a/1079:1084,
1/a/1123:1129,
1/a/1202:1208		No text annotation
homologous
J3_5J7L_008
NA
J3_6O8X_0361/a/1089:1090,
1/a/1099:1102,
1/a/1115:1118		No text annotation
homologous
J3_4LFB_017
J3_11018.1
J3_6O8X_0221/a/1132:1134,
1/a/1170:1173,
1/a/1196:1199		No text annotation
homologous
J3_5J7L_010
NA
J3_6O8X_0341/a/1132:1134,
1/a/1170:1176,
1/a/1190:1199		No text annotation
homologous
J3_5J7L_054
NA
J3_6O8X_0231/a/1252:1256,
1/a/1311:1318,
1/a/1349:1352		No text annotation
homologous
J3_4LFB_009
J3_03192.1
J4_6O8X_0011/A/271:272,
1/A/410:415,
1/A/439:446,
1/A/461:464		No text annotation
homologous
J4_4WF9_001
J4_94698.1
J4_6O8X_0021/A/334:338,
1/A/353:356,
1/A/360:362,
1/A/374:378		No text annotation
homologous
J4_7A0S_002
J4_16174.1
J4_6O8X_0031/A/638:641,
1/A/663:667,
1/A/674:678,
1/A/688:696		No text annotation
homologous
J4_4WF9_003
J4_69347.1
J4_6O8X_0041/A/1307:1312,
1/A/1330:1331,
1/A/1688:1691,
1/A/2023:2024		No text annotation
homologous
J4_4WF9_004
J4_64571.6
J4_6O8X_0051/A/1346:1350,
1/A/1374:1379,
1/A/1440:1441,
1/A/1640:1647		No text annotation
homologous
J4_4WF9_005
J4_77353.1
J4_6O8X_0061/A/1349:1350,
1/A/1374:1379,
1/A/1440:1441,
1/A/1640:1646		No text annotation
homologous
J4_4WF9_006
J4_48150.1
J4_6O8X_0071/A/1486:1493,
1/A/1504:1511,
1/A/1569:1573,
1/A/1588:1593		No text annotation
J4_6O8X_0081/A/1786:1790,
1/A/1802:1806,
1/A/1841:1845,
1/A/1988:1993		No text annotation
J4_6O8X_0091/A/1847:1849,
1/A/1919:1920,
1/A/1938:1947,
1/A/1981:1986		No text annotation
homologous
J4_9DFE_008
J4_42306.1
J4_6O8X_0101/A/2299:2303,
1/A/2357:2361,
1/A/2384:2386,
1/A/2395:2397		No text annotation
homologous
J4_9DFE_009
J4_98139.1
J4_6O8X_0111/A/2657:2660,
1/A/2688:2690,
1/A/2745:2749,
1/A/2783:2785		No text annotation
homologous
J4_4WF9_009
J4_77044.5
J4_6O8X_0121/a/120:128,
1/a/253:255,
1/a/301:304,
1/a/326:327		No text annotation
J4_6O8X_0131/a/148:150,
1/a/184:192,
1/a/211:219,
1/a/234:236		No text annotation
J4_6O8X_0141/a/590:592,
1/a/779:784,
1/a/825:836,
1/a/895:896		No text annotation
homologous
J4_5J7L_003
NA
J5_6O8X_0011/A/48:55,
1/A/116:121,
1/A/130:131,
1/A/150:152,
1/A/178:180		No text annotation
homologous
J5_4WF9_001
J5_27223.1
J5_6O8X_0021/A/271:276,
1/A/295:302,
1/A/409:415,
1/A/439:446,
1/A/461:464		No text annotation
J5_6O8X_0031/A/570:572,
1/A/597:601,
1/A/614:616,
1/A/1298:1299,
1/A/2031:2032		No text annotation
homologous
J5_4WF9_003
J5_43153.6
J5_6O8X_0041/A/621:626,
1/A/708:714,
1/A/846:852,
1/A/1233:1234,
1/A/1287:1293		No text annotation
J5_6O8X_0051/A/1717:1725,
1/A/1749:1750,
1/A/1765:1766,
1/A/1770:1778,
1/A/2002:2004		No text annotation
homologous
J5_4WF9_005
J5_99177.1
J5_6O8X_0061/A/2071:2078,
1/A/2460:2467,
1/A/2514:2521,
1/A/2596:2602,
1/A/2620:2625		No text annotation
J5_6O8X_0071/A/2088:2091,
1/A/2257:2260,
1/A/2272:2273,
1/A/2295:2296,
1/A/2441:2449		No text annotation
homologous
J5_7A0S_007
J5_39529.2
J5_6O8X_0081/a/33:36,
1/a/418:421,
1/a/451:456,
1/a/508:515,
1/a/560:563		No text annotation
homologous
J5_4LFB_001
J5_70703.1
J5_6O8X_0091/a/55:58,
1/a/111:118,
1/a/329:331,
1/a/352:354,
1/a/365:369		No text annotation
homologous
J5_4LFB_002
J5_58574.1
J6_6O8X_0011/A/46:47,
1/A/181:186,
1/A/217:227,
1/A/234:238,
1/A/265:269,
1/A/466:473		No text annotation
J6_6O8X_0021/A/2088:2091,
1/A/2257:2260,
1/A/2272:2273,
1/A/2295:2298,
1/A/2398:2409,
1/A/2435:2449		No text annotation
J7_6O8X_0011/A/857:862,
1/A/875:876,
1/A/983:986,
1/A/1011:1016,
1/A/1027:1031,
1/A/1203:1204,
1/A/1223:1228		No text annotation
J8_6O8X_0011/A/9:16,
1/A/564:570,
1/A/2032:2037,
1/A/2054:2057,
1/A/2639:2644,
1/A/2802:2805,
1/A/2816:2822,
1/A/2900:2905		No text annotation

Problematic loops

#loop idProblemSequence
J3_6O8X_025No text annotation
J3_6O8X_018No text annotation
J3_6O8X_019No text annotation
J3_6O8X_031No text annotation
J3_6O8X_032No text annotation
J3_6O8X_021No text annotation
J3_6O8X_033No text annotation

Coloring options:
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