RNA 3D Hub //

8BHL Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8BHL_0011/0/59:68No text annotation
homologous
HL_5J7L_134
NA
HL_8BHL_0021/0/87:95No text annotation
homologous
HL_5J7L_135
NA
HL_8BHL_0031/0/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.6
HL_8BHL_0041/0/137:142UNCG
geometric
HL_4LFB_031
HL_61337.1
HL_8BHL_0051/0/158:168No text annotation
homologous
HL_5J7L_138
NA
HL_8BHL_0061/0/194:201No text annotation
geometric
HL_7RQB_006
NA
HL_8BHL_0071/0/225:230No text annotation
homologous
HL_5J7L_140
NA
HL_8BHL_0081/0/246:252No text annotation
homologous
HL_7RQB_008
NA
HL_8BHL_0091/0/305:312T-loop with 1 bulged base
homologous
HL_7A0S_010
HL_13999.1
HL_8BHL_0101/0/319:323No text annotation
homologous
HL_5J7L_143
NA
HL_8BHL_0111/0/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_8BHL_0121/0/382:392No text annotation
homologous
HL_5J7L_145
NA
HL_8BHL_0131/0/410:417Pseudoknot geometry
homologous
HL_7A0S_014
HL_30680.4
HL_8BHL_0141/0/462:467GNRA
homologous
HL_4WF9_015
HL_34789.1
HL_8BHL_0151/0/487:493GNRA
homologous
HL_5J7L_148
NA
HL_8BHL_0161/0/543:550No text annotation
HL_8BHL_0171/0/566:575T-loop with 2 stacked bulged bases
homologous
HL_5J7L_150
NA
HL_8BHL_0181/0/611:617No text annotation
homologous
HL_5J7L_151
NA
HL_8BHL_0191/0/629:634GNRA
homologous
HL_4WF9_020
HL_34789.1
HL_8BHL_0201/0/641:647No text annotation
homologous
HL_5J7L_153
NA
HL_8BHL_0211/0/712:719GNRA wlth tandem sheared
homologous
HL_5J7L_154
NA
HL_8BHL_0221/0/744:753No text annotation
homologous
HL_4WF9_023
HL_50204.1
HL_8BHL_0231/0/779:785No text annotation
homologous
HL_7RQB_024
NA
HL_8BHL_0241/0/826:831No text annotation
homologous
HL_7RQB_025
NA
HL_8BHL_1061/0/955:962GNRA
homologous
HL_7A0S_026
HL_34789.1
HL_8BHL_0261/0/978:985No text annotation
homologous
HL_5J7L_160
NA
HL_8BHL_0291/0/1222:1227GNRA
homologous
HL_7A0S_031
HL_34789.1
HL_8BHL_0301/0/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_5J7L_165
NA
HL_8BHL_0311/0/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
NA
HL_8BHL_0321/0/1363:1368GNRA
homologous
HL_5J7L_167
NA
HL_8BHL_0331/0/1389:1398No text annotation
homologous
HL_5J7L_168
NA
HL_8BHL_0341/0/1451:1459Mini UNCG with extended bulge
geometric
HL_5J7L_169
NA
HL_8BHL_0351/0/1492:1498Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
NA
HL_8BHL_0371/0/1565:1568Mini UNCG
homologous
HL_5J7L_172
NA
HL_8BHL_0381/0/1612:1619No text annotation
homologous
HL_4WF9_038
HL_28592.1
HL_8BHL_0391/0/1630:1636GNRA
homologous
HL_5J7L_174
NA
HL_8BHL_0401/0/1691:1696No text annotation
homologous
HL_7RQB_042
NA
HL_8BHL_0411/0/1728:1731No text annotation
homologous
HL_5J7L_176
NA
HL_8BHL_0421/0/1752:1756No text annotation
homologous
HL_7RQB_044
NA
HL_8BHL_0431/0/1777:1787No text annotation
homologous
HL_4WF9_043
HL_87681.1
HL_8BHL_0441/0/1806:1811GNRA related
homologous
HL_5J7L_179
NA
HL_8BHL_0451/0/1868:1873GNRA with GA tSW pair
geometric
HL_4ZT0_006
NA
HL_8BHL_0461/0/1910:1920No text annotation
geometric
HL_5TBW_049
NA
HL_8BHL_0471/0/1949:1957No text annotation
homologous
HL_5J7L_182
NA
HL_8BHL_0481/0/2027:2036No text annotation
homologous
HL_4WF9_047
HL_78372.1
HL_8BHL_0501/0/2209:2215No text annotation
homologous
HL_5J7L_185
NA
HL_8BHL_0511/0/2248:2256No text annotation
homologous
HL_7A0S_052
HL_11974.1
HL_8BHL_0521/0/2264:2276No text annotation
homologous
HL_5J7L_187
NA
HL_8BHL_1071/0/2304:2312No text annotation
homologous
HL_5J7L_219
NA
HL_8BHL_1081/0/2324:2331Pseudoknot geometry
homologous
HL_5J7L_189
NA
HL_8BHL_0551/0/2356:2361GNRA
homologous
HL_5J7L_190
NA
HL_8BHL_0561/0/2374:2379GNRA
homologous
HL_5J7L_191
NA
HL_8BHL_0571/0/2404:2413No text annotation
homologous
HL_5J7L_192
NA
HL_8BHL_0581/0/2471:2479No text annotation
homologous
HL_4WF9_056
HL_52011.1
HL_8BHL_0591/0/2528:2535GNRA variation
homologous
HL_5J7L_194
NA
HL_8BHL_0601/0/2551:2557No text annotation
homologous
HL_4WF9_058
HL_48677.1
HL_8BHL_0611/0/2594:2599GNRA
homologous
HL_7RQB_063
NA
HL_8BHL_0621/0/2658:2663GNRA
geometric
HL_5J7L_197
NA
HL_8BHL_0631/0/2701:2706Ribsomal LSU H95
homologous
HL_7A0S_064
HL_12125.1
HL_8BHL_0641/0/2745:2759No text annotation
homologous
HL_5J7L_199
NA
HL_8BHL_0651/0/2795:2801UNCG variation
homologous
HL_5J7L_200
NA
HL_8BHL_0661/0/2819:2827No text annotation
homologous
HL_5J7L_201
NA
HL_8BHL_0671/0/2856:2861GNRA
homologous
HL_7A0S_068
HL_34789.1
HL_8BHL_0681/1/38:44No text annotation
geometric
HL_5J7L_203
NA
HL_8BHL_0691/1/86:90Mini UNCG
homologous
HL_5J7L_204
NA
HL_8BHL_0701/2/12:22No text annotation
homologous
HL_4LFB_001
HL_31940.1
HL_8BHL_0721/2/158:163GNRA
homologous
HL_5J7L_003
NA
HL_8BHL_0731/2/186:191GNRA
homologous
HL_5J7L_004
NA
HL_8BHL_0751/2/259:267GNRA related
homologous
HL_5J7L_006
NA
HL_8BHL_0761/2/296:301GNRA
homologous
HL_5J7L_007
NA
HL_8BHL_0771/2/320:333No text annotation
homologous
HL_4LFB_008
HL_39665.1
HL_8BHL_0781/2/342:347UNCG
homologous
HL_4LFB_009
HL_61337.1
HL_8BHL_0791/2/379:384GNRA
homologous
HL_4LFB_010
HL_34789.1
HL_8BHL_0801/2/419:424UNCG
homologous
HL_4LFB_011
HL_61337.1
HL_8BHL_0811/2/462:470GNRA wlth extra near cWW
homologous
HL_5J7L_012
NA
HL_8BHL_0821/2/522:527No text annotation
geometric
HL_4WF9_003
HL_75660.6
HL_8BHL_0831/2/617:623GNRA-like with tWH
homologous
HL_4LFB_014
HL_92337.1
HL_8BHL_0841/2/689:698No text annotation
geometric
HL_4LFB_015
HL_38491.1
HL_8BHL_0851/2/726:731GNRA
homologous
HL_5J7L_016
NA
HL_8BHL_0861/2/785:797No text annotation
HL_8BHL_0881/2/862:867GNRA
homologous
HL_4LFB_019
HL_34789.1
HL_8BHL_0891/2/897:902GNRA
homologous
HL_4LFB_020
HL_34789.1
HL_8BHL_0901/2/963:972No text annotation
homologous
HL_4LFB_021
HL_97521.1
HL_8BHL_0911/2/1009:1018No text annotation
HL_8BHL_0931/2/1076:1081GNRA
homologous
HL_5J7L_023
NA
HL_8BHL_0941/2/1089:1096T-loop related
homologous
HL_4LFB_025
HL_63894.1
HL_8BHL_0951/2/1134:1140No text annotation
homologous
HL_4LFB_026
HL_92935.1
HL_8BHL_0961/2/1165:1171GNRA
homologous
HL_5J7L_026
NA
HL_8BHL_0971/2/1265:1270GNRA
homologous
HL_5J7L_027
NA
HL_8BHL_0981/2/1314:1323T-loop with 3 stacked bulged bases
homologous
HL_4LFB_029
HL_93658.1
HL_8BHL_0991/2/1356:1366No text annotation
homologous
HL_4LFB_030
HL_86432.1
HL_8BHL_1001/2/1449:1454UNCG
homologous
HL_4LFB_031
HL_61337.1
HL_8BHL_1011/2/1515:1520GNRA variation
geometric
HL_4V88_222
NA
HL_8BHL_1021/4/12:22tRNA D-loop
homologous
HL_1QF6_001
NA
HL_8BHL_1031/4/31:39tRNA anticodon loop
homologous
HL_4WT8_216
NA
HL_8BHL_1041/4/53:61T-loop with 2 stacked bulged bases
homologous
HL_5WT1_003
HL_33597.1

Problematic loops

#loop idProblemSequence
HL_8BHL_025tRNA anticodon loop
HL_8BHL_027No text annotation
HL_8BHL_028No text annotation
HL_8BHL_036UNCG
HL_8BHL_049No text annotation
HL_8BHL_053No text annotation
HL_8BHL_054No text annotation
HL_8BHL_071No text annotation
HL_8BHL_105No text annotation
HL_8BHL_074UNCG
HL_8BHL_087No text annotation
HL_8BHL_092No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8BHL_0011/0/24:30,
1/0/510:516		Triple sheared with non-canonical cWW
homologous
IL_5J7L_245
NA
IL_8BHL_0021/0/36:37,
1/0/442:444		Single bulged A
homologous
IL_7RQB_002
NA
IL_8BHL_0031/0/43:44,
1/0/434:436		Minor groove platform
homologous
IL_5J7L_247
NA
IL_8BHL_0041/0/81:85,
1/0/97:105		No text annotation
homologous
IL_5J7L_248
NA
IL_8BHL_0051/0/183:184,
1/0/212:214		Single stack bend
homologous
IL_5J7L_249
NA
IL_8BHL_0061/0/188:194,
1/0/201:208		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_250
NA
IL_8BHL_0071/0/239:245,
1/0/253:258		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_251
NA
IL_8BHL_0081/0/269:271,
1/0/366:370		No text annotation
homologous
IL_5J7L_252
NA
IL_8BHL_0091/0/274:281,
1/0/359:363		No text annotation
homologous
IL_5J7L_253
NA
IL_8BHL_0101/0/293:295,
1/0/343:347		No text annotation
homologous
IL_5J7L_254
NA
IL_8BHL_0111/0/481:484,
1/0/496:509		No text annotation
homologous
IL_7RQB_014
NA
IL_8BHL_0121/0/536:539,
1/0/554:557		Double sheared
homologous
IL_5J7L_256
NA
IL_8BHL_0131/0/564:566,
1/0/575:577		No text annotation
geometric
IL_7RQB_015
NA
IL_8BHL_0141/0/606:610,
1/0/618:622		AAA cross-strand stack
homologous
IL_5J7L_258
NA
IL_8BHL_0151/0/672:674,
1/0/806:808		No text annotation
geometric
IL_7RQB_017
NA
IL_8BHL_0161/0/674:678,
1/0/799:806		tHW-tHW cross-strand stack
homologous
IL_5J7L_260
NA
IL_8BHL_0171/0/697:698,
1/0/763:765		Single bulged A
geometric
IL_5J7L_261
NA
IL_8BHL_0181/0/702:703,
1/0/728:730		Single bulged G
homologous
IL_7A0S_017
IL_28408.1
IL_8BHL_0191/0/703:707,
1/0/724:728		Triple sheared
geometric
IL_4WF9_024
IL_15190.1
IL_8BHL_0201/0/738:740,
1/0/757:758		Major groove platform
homologous
IL_5J7L_264
NA
IL_8BHL_0211/0/775:777,
1/0/787:791		Multiple bulged bases
homologous
IL_5J7L_265
NA
IL_8BHL_0221/0/837:838,
1/0/940:942		Single stack bend
homologous
IL_7A0S_022
IL_15011.1
IL_8BHL_0231/0/844:847,
1/0/933:934		90 degree turn
geometric
IL_5J7L_267
NA
IL_8BHL_1781/0/844:848,
1/0/930:934		No text annotation
homologous
IL_5J7L_399
NA
IL_8BHL_0241/0/847:848,
1/0/930:933		Stack outside cWW
homologous
IL_5J7L_268
NA
IL_8BHL_0251/0/850:851,
1/0/926:928		Single stack bend
homologous
IL_5J7L_269
NA
IL_8BHL_0261/0/856:862,
1/0/915:921		7x7 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_5J7L_270
NA
IL_8BHL_0271/0/862:863,
1/0/913:915		Single bulged G
homologous
IL_5J7L_271
NA
IL_8BHL_0281/0/864:868,
1/0/909:912		C-loop with bulged stacked A's
homologous
IL_5J7L_272
NA
IL_8BHL_0291/0/870:872,
1/0/905:907		Isolated non-canonical cWW pair
homologous
IL_5J7L_273
NA
IL_8BHL_0301/0/875:879,
1/0/898:902		Double sheared with non-canonical cWW
homologous
IL_5J7L_274
NA
IL_8BHL_0311/0/880:881,
1/0/895:897		No text annotation
homologous
IL_5J7L_275
NA
IL_8BHL_0331/0/994:996,
1/0/1159:1160		Single bulged C
homologous
IL_5J7L_276
NA
IL_8BHL_0341/0/998:1002,
1/0/1153:1157		UAA/GAN
homologous
IL_7A0S_033
IL_08938.1
IL_8BHL_0351/0/1004:1011,
1/0/1150:1151		SSU/LSU pseudoknot
homologous
IL_4WF9_037
IL_11411.1
IL_8BHL_0361/0/1011:1013,
1/0/1149:1150		Single bulged U
geometric
IL_5J7L_279
NA
IL_8BHL_0371/0/1018:1024,
1/0/1140:1144		No text annotation
homologous
IL_7RQB_039
NA
IL_8BHL_1791/0/1024:1030,
1/0/1124:1140		No text annotation
homologous
IL_5J7L_281
NA
IL_8BHL_0381/0/1031:1034,
1/0/1121:1123		Isolated non-canonical cWW pair
homologous
IL_5J7L_282
NA
IL_8BHL_0391/0/1038:1041,
1/0/1114:1117		Tandem non-canonical cWW pairs
homologous
IL_5J7L_283
NA
IL_8BHL_0411/0/1196:1198,
1/0/1247:1250		Isolated cWS basepair
homologous
IL_4WF9_044
IL_42997.4
IL_8BHL_0421/0/1202:1206,
1/0/1240:1243		No text annotation
homologous
IL_5J7L_287
NA
IL_8BHL_0431/0/1208:1215,
1/0/1234:1238		Kink-turn
homologous
IL_5J7L_288
NA
IL_8BHL_0441/0/1262:1269,
1/0/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_8BHL_0451/0/1310:1313,
1/0/1603:1604		Major groove platform; stack outside cWW
homologous
IL_5J7L_290
NA
IL_8BHL_0461/0/1319:1323,
1/0/1331:1333		C-loop
homologous
IL_5J7L_291
NA
IL_8BHL_0471/0/1351:1355,
1/0/1376:1380		UAA/GAN
homologous
IL_5J7L_292
NA
IL_8BHL_0481/0/1357:1361,
1/0/1370:1374		tSH-tHW-tHS
homologous
IL_5J7L_293
NA
IL_8BHL_0491/0/1415:1416,
1/0/1582:1587		No text annotation
homologous
IL_5J7L_294
NA
IL_8BHL_0501/0/1417:1421,
1/0/1577:1581		UAA/GAN
homologous
IL_5J7L_295
NA
IL_8BHL_0511/0/1432:1435,
1/0/1557:1561		Tandem non-canonical cWW pairs
homologous
IL_5J7L_296
NA
IL_8BHL_0521/0/1437:1440,
1/0/1551:1555		tSH-tHW
homologous
IL_5J7L_297
NA
IL_8BHL_0531/0/1450:1451,
1/0/1459:1461		Single bulged U
homologous
IL_5J7L_298
NA
IL_8BHL_0541/0/1468:1471,
1/0/1520:1524		No text annotation
homologous
IL_5J7L_299
NA
IL_8BHL_0551/0/1474:1478,
1/0/1513:1517		tSH-tHW-tHS
homologous
IL_5J7L_300
NA
IL_8BHL_0561/0/1481:1482,
1/0/1507:1510		180 degree turn
homologous
IL_5J7L_301
NA
IL_8BHL_0571/0/1489:1491,
1/0/1499:1500		Single bulged A
homologous
IL_5J7L_302
NA
IL_8BHL_0581/0/1526:1529,
1/0/1542:1546		UAA/GAN variation
homologous
IL_5J7L_303
NA
IL_8BHL_0591/0/1651:1656,
1/0/2004:2006		No text annotation
homologous
IL_5J7L_304
NA
IL_8BHL_0601/0/1663:1665,
1/0/1995:1997		Isolated tWW turn
homologous
IL_5J7L_305
NA
IL_8BHL_0611/0/1666:1669,
1/0/1993:1994		Major groove platform; stack outside cWW
geometric
IL_4WF9_064
IL_74641.1
IL_8BHL_1811/0/1666:1674,
1/0/1990:1994		No text annotation
homologous
IL_4WF9_117
IL_80252.1
IL_8BHL_0621/0/1669:1674,
1/0/1990:1993		Intercalated tWH
homologous
IL_4WF9_065
IL_28217.1
IL_8BHL_0631/0/1686:1691,
1/0/1696:1702		tSH-tSH-tHH-tHS
geometric
IL_5J7L_308
NA
IL_8BHL_0641/0/1712:1718,
1/0/1742:1746		6x5 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_309
NA
IL_8BHL_0651/0/1720:1724,
1/0/1736:1740		Triple sheared
homologous
IL_5J7L_310
NA
IL_8BHL_0661/0/1727:1728,
1/0/1731:1733		Single bulged C
geometric
IL_5J7L_311
NA
IL_8BHL_0671/0/1770:1771,
1/0/1980:1982		Single bulged A
homologous
IL_5J7L_312
NA
IL_8BHL_0681/0/1798:1804,
1/0/1813:1821		Kink-turn related
homologous
IL_5J7L_313
NA
IL_8BHL_0691/0/1837:1840,
1/0/1902:1903		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
NA
IL_8BHL_0701/0/1841:1842,
1/0/1898:1901		Major groove intercalation
homologous
IL_5J7L_315
NA
IL_8BHL_0711/0/1846:1849,
1/0/1893:1894		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_316
NA
IL_8BHL_1821/0/1851:1860,
1/0/1882:1891		No text annotation
homologous
IL_5J7L_387
NA
IL_8BHL_0721/0/1864:1867,
1/0/1874:1878		UAA/GAN related
homologous
IL_5J7L_317
NA
IL_8BHL_0731/0/1933:1934,
1/0/1964:1967		Bulged stacked bases
geometric
IL_4WF9_076
IL_24886.1
IL_8BHL_0741/0/1934:1945,
1/0/1961:1964		No text annotation
homologous
IL_7A0S_072
IL_04332.3
IL_8BHL_0751/0/2050:2052,
1/0/2617:2618		Major groove platform
homologous
IL_7RQB_078
NA
IL_8BHL_0761/0/2054:2056,
1/0/2612:2615		No text annotation
homologous
IL_5J7L_321
NA
IL_8BHL_0771/0/2067:2069,
1/0/2442:2443		Single bulged U
homologous
IL_4WF9_080
IL_97561.1
IL_8BHL_0781/0/2070:2071,
1/0/2438:2441		Minor groove platform
homologous
IL_7RQB_081
NA
IL_8BHL_0791/0/2081:2083,
1/0/2236:2239		Isolated tHS basepair with bulges
homologous
IL_5J7L_325
NA
IL_8BHL_0801/0/2085:2087,
1/0/2232:2234		Isolated non-canonical cWW pair
homologous
IL_7A0S_078
IL_71625.1
IL_8BHL_0811/0/2202:2204,
1/0/2220:2221		Single bulged U
homologous
IL_5J7L_331
NA
IL_8BHL_0821/0/2297:2299,
1/0/2317:2321		No text annotation
geometric
IL_5J7L_332
NA
IL_8BHL_0831/0/2350:2353,
1/0/2364:2367		Double sheared
homologous
IL_7RQB_089
NA
IL_8BHL_0841/0/2401:2403,
1/0/2414:2415		Single bulged U
homologous
IL_4WF9_088
IL_97561.1
IL_8BHL_0851/0/2453:2454,
1/0/2498:2500		Single stack bend
homologous
IL_4WF9_089
IL_15011.1
IL_8BHL_0861/0/2454:2455,
1/0/2496:2498		Major groove platform
geometric
IL_4WF9_090
IL_48076.7
IL_8BHL_0871/0/2457:2459,
1/0/2493:2494		Major groove platform
geometric
IL_7A0S_085
IL_48076.7
IL_8BHL_0881/0/2459:2461,
1/0/2489:2493		Major groove minor groove platform with extra cWW
homologous
IL_7A0S_086
IL_36931.1
IL_8BHL_0891/0/2466:2470,
1/0/2480:2484		Double sheared with non-canonical cWW
homologous
IL_5J7L_338
NA
IL_8BHL_0901/0/2507:2508,
1/0/2580:2582		Major groove platform
homologous
IL_7A0S_088
IL_46637.1
IL_8BHL_0911/0/2510:2512,
1/0/2574:2578		Isolated non-canonical cWW with bulges
geometric
IL_5J7L_340
NA
IL_8BHL_0921/0/2512:2513,
1/0/2571:2574		No text annotation
homologous
IL_5J7L_341
NA
IL_8BHL_0931/0/2522:2523,
1/0/2540:2543		Major groove platform with intercalation
homologous
IL_7A0S_091
IL_94991.1
IL_8BHL_0951/0/2591:2592,
1/0/2601:2603		Single bulged A
homologous
IL_7RQB_101
NA
IL_8BHL_0961/0/2636:2640,
1/0/2774:2782		tSH-tHS-tHW
homologous
IL_5J7L_345
NA
IL_8BHL_0971/0/2652:2658,
1/0/2663:2668		Sarcin-Ricin target in LSU H95; G-bulge
homologous
IL_7A0S_094
IL_16458.5
IL_8BHL_0981/0/2680:2684,
1/0/2725:2727		C-loop
homologous
IL_4WF9_101
IL_63596.12
IL_8BHL_0991/0/2687:2691,
1/0/2718:2722		UAA/GAN related, with intercalation
homologous
IL_4WF9_102
IL_82016.1
IL_8BHL_1001/0/2695:2696,
1/0/2711:2714		Multiple bulged bases
homologous
IL_4WF9_103
IL_44609.1
IL_8BHL_1011/0/2737:2742,
1/0/2762:2767		UAA/GAN with extra cWW
homologous
IL_5J7L_350
NA
IL_8BHL_1021/0/2806:2811,
1/0/2889:2892		No text annotation
homologous
IL_5J7L_351
NA
IL_8BHL_1831/0/2838:2839,
1/0/2878:2880		Major groove intercalation
homologous
IL_5J7L_352
NA
IL_8BHL_1041/0/2843:2846,
1/0/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
NA
IL_8BHL_1051/0/2847:2852,
1/0/2865:2869		tHS double platform
homologous
IL_5J7L_354
NA
IL_8BHL_1061/1/17:18,
1/1/65:67		Major groove intercalation
homologous
IL_5J7L_355
NA
IL_8BHL_1071/1/23:28,
1/1/56:60		No text annotation
homologous
IL_5J7L_356
NA
IL_8BHL_1081/1/30:31,
1/1/51:54		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_357
NA
IL_8BHL_1091/1/34:38,
1/1/44:48		Symmetric double minor groove platform
homologous
IL_5J7L_358
NA
IL_8BHL_1101/1/71:79,
1/1/97:105		Bacterial 5S Loop E
homologous
IL_5J7L_359
NA
IL_8BHL_1111/2/30:32,
1/2/552:553		Single bulged G
homologous
IL_5J7L_001
NA
IL_8BHL_1121/2/44:45,
1/2/396:398		Single bulged A
homologous
IL_5J7L_002
NA
IL_8BHL_1131/2/47:52,
1/2/359:361		No text annotation
homologous
IL_5J7L_003
NA
IL_8BHL_1141/2/54:56,
1/2/356:357		Minor groove platform
homologous
IL_4LFB_004
IL_34520.1
IL_8BHL_1151/2/63:66,
1/2/103:104		Multiple bulged bases
homologous
IL_5J7L_005
NA
IL_8BHL_1161/2/67:69,
1/2/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
NA
IL_8BHL_1171/2/70:73,
1/2/97:98		Minor groove platform
homologous
IL_5J7L_007
NA
IL_8BHL_1181/2/75:79,
1/2/90:95		No text annotation
IL_8BHL_1191/2/128:131,
1/2/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
NA
IL_8BHL_1201/2/132:136,
1/2/227:230		Minor groove platform related
homologous
IL_5J7L_010
NA
IL_8BHL_1211/2/144:146,
1/2/176:178		Isolated cWH basepair
homologous
IL_5J7L_011
NA
IL_8BHL_1221/2/147:153,
1/2/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
NA
IL_8BHL_1231/2/203:206,
1/2/213:214		Minor groove platform
geometric
IL_3MXH_005
IL_87975.1
IL_8BHL_1241/2/242:247,
1/2/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_8BHL_1841/2/249:252,
1/2/274:275		No text annotation
homologous
IL_6CZR_405
NA
IL_8BHL_1261/2/292:293,
1/2/304:308		C-loop
homologous
IL_4LFB_013
IL_06671.1
IL_8BHL_1271/2/367:369,
1/2/392:393		Single bulged U
homologous
IL_5J7L_017
NA
IL_8BHL_1281/2/371:375,
1/2/389:390		C-loop
homologous
IL_5J7L_018
NA
IL_8BHL_1291/2/375:376,
1/2/387:389		Single bulged G
geometric
IL_5J7L_019
NA
IL_8BHL_1301/2/409:416,
1/2/427:433		No text annotation
homologous
IL_5J7L_020
NA
IL_8BHL_1311/2/440:442,
1/2/492:497		No text annotation
homologous
IL_5J7L_021
NA
IL_8BHL_1321/2/446:450,
1/2/483:488		tSH-tHW-tWW
geometric
IL_5J7L_022
NA
IL_8BHL_1331/2/450:455,
1/2/477:483		No text annotation
geometric
IL_5J7L_023
NA
IL_8BHL_1351/2/504:511,
1/2/540:541		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_11411.1
IL_8BHL_1361/2/515:521,
1/2/528:536		Kink-turn related
geometric
IL_4V88_415
NA
IL_8BHL_1371/2/569:575,
1/2/880:881		No text annotation
homologous
IL_4LFB_022
IL_20847.1
IL_8BHL_1381/2/580:584,
1/2/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
NA
IL_8BHL_1391/2/594:596,
1/2/644:645		Major groove platform
homologous
IL_5J7L_028
NA
IL_8BHL_1401/2/597:598,
1/2/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_029
NA
IL_8BHL_1411/2/605:612,
1/2/628:633		No text annotation
homologous
IL_5J7L_030
NA
IL_8BHL_1421/2/654:655,
1/2/751:754		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_74641.1
IL_8BHL_1881/2/658:659,
1/2/746:748		Single stack bend
homologous
IL_5J7L_032
NA
IL_8BHL_1431/2/659:660,
1/2/745:747		Single stack bend
homologous
IL_5J7L_032
NA
IL_8BHL_1441/2/662:666,
1/2/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
NA
IL_8BHL_1861/2/673:677,
1/2/713:717		Triple non-canonical cWW pairs
homologous
IL_4LFB_065
IL_71154.1
IL_8BHL_1461/2/684:689,
1/2/698:706		No text annotation
IL_8BHL_1471/2/774:778,
1/2/804:805		Left turn
homologous
IL_4LFB_032
IL_29346.3
IL_8BHL_1481/2/778:783,
1/2/799:804		No text annotation
geometric
IL_8ZA4_001
NA
IL_8BHL_1501/2/887:894,
1/2/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_8BHL_1511/2/922:923,
1/2/1393:1395		Single bulged A
homologous
IL_5J7L_039
NA
IL_8BHL_1521/2/925:927,
1/2/1390:1391		Single bulged G
homologous
IL_5J7L_040
NA
IL_8BHL_1531/2/933:935,
1/2/1380:1384		Minor groove platform
homologous
IL_5J7L_041
NA
IL_8BHL_1541/2/953:954,
1/2/1226:1228		Minor groove platform
homologous
IL_4LFB_038
IL_34520.1
IL_8BHL_1551/2/993:997,
1/2/1044:1045		Minor groove platform
geometric
IL_5J7L_043
NA
IL_8BHL_1561/2/998:999,
1/2/1041:1043		Single stack bend
homologous
IL_5J7L_044
NA
IL_8BHL_1871/2/998:1000,
1/2/1040:1043		No text annotation
geometric
IL_4WSM_372
IL_16315.1
IL_8BHL_1571/2/1048:1050,
1/2/1208:1209		Single bulged U
homologous
IL_5J7L_046
NA
IL_8BHL_1891/2/1052:1056,
1/2/1204:1206		No text annotation
homologous
IL_6CZR_154
NA
IL_8BHL_1591/2/1057:1058,
1/2/1199:1203		Minor groove platform
homologous
IL_5J7L_048
NA
IL_8BHL_1601/2/1060:1061,
1/2/1195:1197		Single bulged U
homologous
IL_4LFB_046
IL_97561.1
IL_8BHL_1611/2/1061:1063,
1/2/1193:1195		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
NA
IL_8BHL_1631/2/1124:1128,
1/2/1144:1149		No text annotation
homologous
IL_5J7L_051
NA
IL_8BHL_1641/2/1129:1132,
1/2/1142:1143		Minor groove platform
homologous
IL_5J7L_052
NA
IL_8BHL_1651/2/1158:1161,
1/2/1175:1181		No text annotation
geometric
IL_5J7L_053
NA
IL_8BHL_1661/2/1247:1253,
1/2/1284:1290		No text annotation
homologous
IL_5J7L_054
NA
IL_8BHL_1671/2/1255:1258,
1/2/1277:1282		180 degree turn
homologous
IL_5J7L_055
NA
IL_8BHL_1681/2/1259:1263,
1/2/1272:1276		Double sheared with non-canonical cWW
homologous
IL_5J7L_056
NA
IL_8BHL_1691/2/1399:1401,
1/2/1501:1504		No text annotation
geometric
IL_4V88_463
NA
IL_8BHL_1701/2/1401:1404,
1/2/1497:1501		No text annotation
geometric
IL_4V88_464
NA
IL_8BHL_1711/2/1405:1407,
1/2/1494:1496		Isolated non-canonical cWW pair
geometric
IL_5MWI_004
NA
IL_8BHL_1721/2/1407:1409,
1/2/1491:1494		Isolated non-canonical cWW pair
geometric
IL_5J7L_009
NA
IL_8BHL_1731/2/1412:1414,
1/2/1486:1488		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
NA
IL_8BHL_1741/2/1416:1419,
1/2/1481:1484		Double sheared
homologous
IL_6CZR_169
NA
IL_8BHL_1751/2/1430:1435,
1/2/1466:1470		Triple sheared related
homologous
IL_5J7L_063
NA
IL_8BHL_1761/2/1440:1442,
1/2/1460:1461		Single bulged A
homologous
IL_5J7L_064
NA
IL_8BHL_1771/2/1445:1448,
1/2/1455:1457		No text annotation
homologous
IL_5J7L_065
NA

Problematic loops

#loop idProblemSequence
IL_8BHL_032Isolated non-canonical cWW pair
IL_8BHL_180Tandem non-canonical cWW pairs
IL_8BHL_040Isolated cWH basepair
IL_8BHL_094Isolated non-canonical cWW pair
IL_8BHL_103Isolated non-canonical cWW with bulges
IL_8BHL_125No text annotation
IL_8BHL_134Isolated non-canonical cWW pair
IL_8BHL_185No text annotation
IL_8BHL_145No text annotation
IL_8BHL_149Minor groove platform
IL_8BHL_158Tandem non-canonical cWW pairs
IL_8BHL_162Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8BHL_0171/0/30:31,
1/0/474:481,
1/0/509:510		No text annotation
geometric
J3_4V9F_011
J3_68715.1
J3_8BHL_0181/0/30:31,
1/0/474:484,
1/0/496:510		No text annotation
homologous
J3_9DFE_002
J3_17917.1
J3_8BHL_0191/0/32:35,
1/0/445:461,
1/0/468:473		No text annotation
homologous
J3_5J7L_067
NA
J3_8BHL_0201/0/56:57,
1/0/70:76,
1/0/110:114		No text annotation
homologous
J3_5J7L_037
NA
J3_8BHL_0211/0/297:301,
1/0/316:325,
1/0/337:341		No text annotation
homologous
J3_5J7L_068
NA
J3_8BHL_0011/0/683:689,
1/0/773:775,
1/0/791:794		No text annotation
homologous
J3_5J7L_038
NA
J3_8BHL_0021/0/698:700,
1/0/732:736,
1/0/760:763		No text annotation
homologous
J3_7RQB_005
NA
J3_8BHL_0031/0/1298:1303,
1/0/1625:1627,
1/0/1639:1642		No text annotation
homologous
J3_5J7L_041
NA
J3_8BHL_0041/0/1306:1309,
1/0/1605:1611,
1/0/1620:1622		No text annotation
homologous
J3_7RQB_008
NA
J3_8BHL_0221/0/1344:1349,
1/0/1382:1385,
1/0/1402:1403		No text annotation
homologous
J3_5J7L_043
NA
J3_8BHL_0231/0/1424:1429,
1/0/1564:1565,
1/0/1568:1574		No text annotation
homologous
J3_7A0S_019
J3_34864.3
J3_8BHL_0051/0/2091:2093,
1/0/2196:2200,
1/0/2223:2228		Kink-turn 3-way junction
homologous
J3_5J7L_044
NA
J3_8BHL_0241/0/2282:2284,
1/0/2384:2395,
1/0/2421:2427		No text annotation
homologous
J3_5J7L_070
NA
J3_8BHL_0061/0/2295:2297,
1/0/2321:2323,
1/0/2332:2337		No text annotation
homologous
J3_5J7L_045
NA
J3_8BHL_0251/0/2295:2299,
1/0/2317:2323,
1/0/2332:2337		No text annotation
homologous
J3_5J7L_071
NA
J3_8BHL_0071/0/2517:2520,
1/0/2545:2547,
1/0/2561:2567		No text annotation
homologous
J3_5J7L_046
NA
J3_8BHL_0261/0/2789:2791,
1/0/2805:2806,
1/0/2892:2894		No text annotation
homologous
J3_5J7L_047
NA
J3_8BHL_0081/0/2812:2815,
1/0/2831:2836,
1/0/2882:2888		No text annotation
homologous
J3_5J7L_048
NA
J3_8BHL_0091/1/10:16,
1/1/68:70,
1/1/106:110		No text annotation
homologous
J3_5J7L_049
NA
J3_8BHL_0271/2/46:47,
1/2/361:367,
1/2/393:395		No text annotation
geometric
J3_4LFB_010
J3_58657.1
J3_8BHL_0281/2/46:52,
1/2/359:367,
1/2/393:395		No text annotation
homologous
J3_5J7L_050
NA
J3_8BHL_0291/2/586:588,
1/2/651:654,
1/2/754:755		No text annotation
geometric
J3_4LFB_011
J3_01633.1
J3_8BHL_0301/2/586:588,
1/2/651:655,
1/2/751:755		No text annotation
homologous
J3_4LFB_015
J3_17385.5
J3_8BHL_0311/2/672:673,
1/2/717:725,
1/2/732:734		No text annotation
homologous
J3_5J7L_003
NA
J3_8BHL_0111/2/826:829,
1/2/857:861,
1/2/868:874		No text annotation
homologous
J3_5J7L_004
NA
J3_8BHL_0321/2/936:939,
1/2/1344:1350,
1/2/1372:1379		No text annotation
homologous
J3_5J7L_052
NA
J3_8BHL_0121/2/942:946,
1/2/1235:1237,
1/2/1337:1341		No text annotation
J3_8BHL_0131/2/955:962,
1/2/973:984,
1/2/1221:1225		No text annotation
homologous
J3_4LFB_004
J3_88451.1
J3_8BHL_0141/2/988:993,
1/2/1045:1047,
1/2/1210:1217		No text annotation
J3_8BHL_0331/2/988:997,
1/2/1044:1047,
1/2/1210:1217		No text annotation
J3_8BHL_0341/2/1003:1009,
1/2/1018:1025,
1/2/1036:1037		No text annotation
J3_8BHL_0151/2/1063:1068,
1/2/1107:1113,
1/2/1187:1193		No text annotation
homologous
J3_4LFB_007
J3_01343.1
J3_8BHL_0351/2/1073:1074,
1/2/1083:1086,
1/2/1099:1102		No text annotation
homologous
J3_4LFB_017
J3_11018.1
J3_8BHL_0161/2/1116:1118,
1/2/1155:1158,
1/2/1181:1184		No text annotation
homologous
J3_5J7L_010
NA
J3_8BHL_0361/2/1116:1118,
1/2/1155:1161,
1/2/1175:1184		No text annotation
homologous
J3_4LFB_018
J3_40706.1
J3_8BHL_0371/2/1237:1241,
1/2/1296:1308,
1/2/1329:1337		No text annotation
J4_8BHL_0011/0/268:269,
1/0/370:375,
1/0/399:406,
1/0/421:424		No text annotation
homologous
J4_5J7L_018
NA
J4_8BHL_0021/0/297:301,
1/0/316:319,
1/0/323:325,
1/0/337:341		No text annotation
homologous
J4_5J7L_019
NA
J4_8BHL_0031/0/601:604,
1/0/624:628,
1/0/635:638,
1/0/650:656		No text annotation
homologous
J4_5J7L_020
NA
J4_8BHL_0041/0/1270:1276,
1/0/1294:1295,
1/0/1645:1648,
1/0/2009:2010		No text annotation
homologous
J4_5J7L_021
NA
J4_8BHL_0051/0/1310:1314,
1/0/1338:1343,
1/0/1404:1405,
1/0/1597:1604		No text annotation
homologous
J4_5J7L_022
NA
J4_8BHL_0061/0/1313:1314,
1/0/1338:1343,
1/0/1404:1405,
1/0/1597:1603		No text annotation
homologous
J4_5J7L_023
NA
J4_8BHL_0071/0/1444:1445,
1/0/1466:1467,
1/0/1525:1526,
1/0/1546:1547		No text annotation
homologous
J4_5J7L_024
NA
J4_8BHL_0081/0/1772:1776,
1/0/1788:1792,
1/0/1827:1830,
1/0/1975:1979		No text annotation
homologous
J4_5J7L_025
NA
J4_8BHL_0091/0/1833:1835,
1/0/1905:1906,
1/0/1924:1933,
1/0/1967:1972		No text annotation
homologous
J4_9DFE_008
J4_42306.1
J4_8BHL_0101/0/2285:2289,
1/0/2343:2347,
1/0/2370:2372,
1/0/2381:2383		No text annotation
homologous
J4_5J7L_027
NA
J4_8BHL_0111/0/2643:2646,
1/0/2674:2676,
1/0/2731:2735,
1/0/2769:2771		No text annotation
homologous
J4_5J7L_028
NA
J4_8BHL_0121/2/115:122,
1/2/239:240,
1/2/286:289,
1/2/311:312		No text annotation
homologous
J4_5J7L_001
NA
J4_8BHL_0131/2/142:144,
1/2/178:184,
1/2/193:198,
1/2/219:221		No text annotation
homologous
J4_5J7L_002
NA
J4_8BHL_0141/2/575:577,
1/2/764:769,
1/2/810:821,
1/2/879:880		No text annotation
homologous
J4_5J7L_003
NA
J4_8BHL_0151/4/6:9,
1/4/25:27,
1/4/43:49,
1/4/65:66		tRNA junction
homologous
J4_9DFC_015
NA
J5_8BHL_0011/0/47:54,
1/0/116:121,
1/0/130:131,
1/0/148:150,
1/0/176:178		No text annotation
homologous
J5_5J7L_013
NA
J5_8BHL_0021/0/531:533,
1/0/560:564,
1/0/577:579,
1/0/1261:1262,
1/0/2017:2018		No text annotation
homologous
J5_5J7L_014
NA
J5_8BHL_0031/0/584:589,
1/0/668:671,
1/0/809:812,
1/0/1195:1196,
1/0/1250:1256		No text annotation
homologous
J5_5J7L_015
NA
J5_8BHL_0041/0/1674:1682,
1/0/1706:1707,
1/0/1751:1752,
1/0/1756:1764,
1/0/1988:1990		No text annotation
homologous
J5_5J7L_016
NA
J5_8BHL_0051/0/2057:2064,
1/0/2446:2453,
1/0/2500:2507,
1/0/2582:2588,
1/0/2606:2611		No text annotation
J5_8BHL_0061/0/2074:2077,
1/0/2243:2246,
1/0/2258:2259,
1/0/2281:2282,
1/0/2427:2435		No text annotation
homologous
J5_7A0S_007
J5_39529.2
J5_8BHL_0071/2/36:39,
1/2/403:406,
1/2/436:440,
1/2/497:500,
1/2/545:548		No text annotation
homologous
J5_5J7L_001
NA
J5_8BHL_0081/2/36:39,
1/2/403:406,
1/2/436:442,
1/2/492:500,
1/2/545:548		No text annotation
homologous
J5_5J7L_002
NA
J5_8BHL_0091/2/58:61,
1/2/106:113,
1/2/314:316,
1/2/337:339,
1/2/350:354		No text annotation
homologous
J5_4LFB_002
J5_58574.1
J6_8BHL_0011/0/45:46,
1/0/179:183,
1/0/214:224,
1/0/231:235,
1/0/262:266,
1/0/426:433		No text annotation
J6_8BHL_0021/0/2074:2077,
1/0/2243:2246,
1/0/2258:2259,
1/0/2281:2284,
1/0/2384:2395,
1/0/2421:2435		No text annotation
J7_8BHL_0011/0/8:15,
1/0/525:531,
1/0/2018:2023,
1/0/2040:2043,
1/0/2625:2630,
1/0/2788:2789,
1/0/2894:2895		No text annotation
J7_8BHL_0021/0/817:822,
1/0/835:838,
1/0/940:946,
1/0/971:976,
1/0/987:991,
1/0/1163:1164,
1/0/1185:1190		No text annotation

Problematic loops

#loop idProblemSequence
J3_8BHL_010No text annotation

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