RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8VSA_0011/16S/12:22No text annotation
homologous
HL_5J7L_001
NA
HL_8VSA_0041/16S/186:191GNRA
homologous
HL_5J7L_004
NA
HL_8VSA_0071/16S/296:301GNRA
homologous
HL_5J7L_007
NA
HL_8VSA_1151/16S/320:333No text annotation
homologous
HL_6CZR_079
NA
HL_8VSA_0081/16S/322:332No text annotation
HL_8VSA_0131/16S/522:527No text annotation
geometric
HL_2Y8W_001
HL_40612.1
HL_8VSA_0141/16S/617:623GNRA-like with tWH
homologous
HL_4LFB_014
HL_86621.1
HL_8VSA_0151/16S/689:698No text annotation
homologous
HL_5J7L_015
NA
HL_8VSA_0161/16S/726:731GNRA
homologous
HL_5J7L_016
NA
HL_8VSA_0171/16S/786:796No text annotation
homologous
HL_5J7L_017
NA
HL_8VSA_0191/16S/862:867GNRA
homologous
HL_5J7L_019
NA
HL_8VSA_0201/16S/897:902GNRA
homologous
HL_5J7L_020
NA
HL_8VSA_0211/16S/963:972No text annotation
homologous
HL_5J7L_021
NA
HL_8VSA_0231/16S/1076:1081GNRA
homologous
HL_5J7L_023
NA
HL_8VSA_0241/16S/1089:1096T-loop related
homologous
HL_5J7L_024
NA
HL_8VSA_0291/16S/1356:1366No text annotation
homologous
HL_4LFB_030
HL_86432.1
HL_8VSA_0311/16S/1515:1520GNRA variation
geometric
HL_4V88_222
NA
HL_8VSA_0321/23S/59:68No text annotation
homologous
HL_5J7L_134
NA
HL_8VSA_0341/23S/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.7
HL_8VSA_0361/23S/158:168No text annotation
homologous
HL_5J7L_138
NA
HL_8VSA_0371/23S/194:201No text annotation
geometric
HL_4WF9_006
HL_48677.1
HL_8VSA_0391/23S/246:252No text annotation
homologous
HL_7A0S_008
HL_76371.2
HL_8VSA_0411/23S/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_8VSA_0421/23S/382:392No text annotation
homologous
HL_5J7L_145
NA
HL_8VSA_0431/23S/410:417Pseudoknot geometry
homologous
HL_5J7L_146
NA
HL_8VSA_0441/23S/462:467GNRA
homologous
HL_4WF9_015
HL_34789.2
HL_8VSA_0451/23S/487:493GNRA
homologous
HL_5J7L_148
NA
HL_8VSA_0471/23S/566:575T-loop with 2 stacked bulged bases
geometric
HL_5J7L_150
NA
HL_8VSA_0481/23S/611:617No text annotation
homologous
HL_5J7L_151
NA
HL_8VSA_0491/23S/629:634GNRA
homologous
HL_5J7L_152
NA
HL_8VSA_0521/23S/744:753No text annotation
homologous
HL_4WF9_023
HL_50204.1
HL_8VSA_0531/23S/779:785UNCG variation
homologous
HL_7A0S_023
HL_51020.2
HL_8VSA_0541/23S/826:831No text annotation
homologous
HL_7RQB_025
NA
HL_8VSA_0561/23S/955:962GNRA
homologous
HL_4WF9_027
HL_34789.2
HL_8VSA_0571/23S/978:985No text annotation
homologous
HL_7A0S_027
HL_47171.1
HL_8VSA_0611/23S/1222:1227GNRA
homologous
HL_5J7L_164
NA
HL_8VSA_0631/23S/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
NA
HL_8VSA_0641/23S/1363:1368GNRA
homologous
HL_5J7L_167
NA
HL_8VSA_0651/23S/1389:1398No text annotation
homologous
HL_7RQB_036
NA
HL_8VSA_0661/23S/1450:1461No text annotation
geometric
HL_8VTW_008
NA
HL_8VSA_0691/23S/1565:1568No text annotation
homologous
HL_7RQB_039
NA
HL_8VSA_0701/23S/1612:1619No text annotation
homologous
HL_7A0S_040
HL_28592.1
HL_8VSA_0711/23S/1630:1636GNRA
homologous
HL_5J7L_174
NA
HL_8VSA_0721/23S/1691:1696No text annotation
homologous
HL_7RQB_042
NA
HL_8VSA_0731/23S/1727:1733UNCG variation
geometric
HL_7A0S_023
HL_51020.2
HL_8VSA_0741/23S/1752:1756No text annotation
homologous
HL_5J7L_177
NA
HL_8VSA_0751/23S/1777:1787No text annotation
homologous
HL_7RQB_045
NA
HL_8VSA_0761/23S/1806:1811GNRA related
homologous
HL_5J7L_179
NA
HL_8VSA_0781/23S/1910:1920No text annotation
geometric
HL_5TBW_049
NA
HL_8VSA_0791/23S/1949:1957No text annotation
homologous
HL_5J7L_182
NA
HL_8VSA_0801/23S/1992:1996No text annotation
HL_8VSA_0811/23S/2027:2036No text annotation
homologous
HL_4WF9_047
HL_78372.1
HL_8VSA_0831/23S/2209:2215No text annotation
homologous
HL_5J7L_185
NA
HL_8VSA_0841/23S/2248:2256No text annotation
homologous
HL_7RQB_053
NA
HL_8VSA_0851/23S/2264:2276No text annotation
homologous
HL_7RQB_054
NA
HL_8VSA_0881/23S/2356:2361GNRA
homologous
HL_5J7L_190
NA
HL_8VSA_0891/23S/2374:2379GNRA
homologous
HL_4WF9_054
HL_34789.2
HL_8VSA_0901/23S/2404:2413No text annotation
homologous
HL_5J7L_192
NA
HL_8VSA_0911/23S/2471:2479No text annotation
homologous
HL_4WF9_056
HL_52011.1
HL_8VSA_0921/23S/2528:2535GNRA variation
homologous
HL_5J7L_194
NA
HL_8VSA_0931/23S/2551:2557No text annotation
homologous
HL_5J7L_195
NA
HL_8VSA_0941/23S/2594:2599GNRA
homologous
HL_7RQB_063
NA
HL_8VSA_0951/23S/2658:2663GNRA
homologous
HL_7RQB_064
NA
HL_8VSA_0991/23S/2819:2827No text annotation
homologous
HL_5J7L_201
NA
HL_8VSA_1001/23S/2856:2861GNRA
homologous
HL_7A0S_068
HL_34789.2
HL_8VSA_1021/5S/86:90Mini UNCG
homologous
HL_5J7L_204
NA
HL_8VSA_1041/ATRN/31:39tRNA anticodon loop
homologous
HL_4YCO_002
HL_81376.2
HL_8VSA_1051/ATRN/53:61T-loop with 2 stacked bulged bases
homologous
HL_4V90_034
NA

Problematic loops

#loop idProblemSequence
HL_8VSA_112No text annotation
HL_8VSA_002No text annotation
HL_8VSA_120No text annotation
HL_8VSA_113GNRA
HL_8VSA_003No text annotation
HL_8VSA_114No text annotation
HL_8VSA_005No text annotation
HL_8VSA_006GNRA related
HL_8VSA_009UNCG
HL_8VSA_116tRNA anticodon loop
HL_8VSA_010GNRA
HL_8VSA_011UNCG
HL_8VSA_012GNRA wlth extra near cWW
HL_8VSA_018No text annotation
HL_8VSA_117No text annotation
HL_8VSA_022GNRA
HL_8VSA_025No text annotation
HL_8VSA_026GNRA
HL_8VSA_027GNRA
HL_8VSA_028T-loop with 3 stacked bulged bases
HL_8VSA_030UNCG
HL_8VSA_033No text annotation
HL_8VSA_035UNCG variation
HL_8VSA_038No text annotation
HL_8VSA_040T-loop with 1 bulged base
HL_8VSA_046No text annotation
HL_8VSA_050No text annotation
HL_8VSA_051GNRA wlth tandem sheared
HL_8VSA_055No text annotation
HL_8VSA_058No text annotation
HL_8VSA_059No text annotation
HL_8VSA_060No text annotation
HL_8VSA_062T-loop with 2 stacked bulged bases
HL_8VSA_067Pseudoknot geometry with 3' bulge
HL_8VSA_068UNCG
HL_8VSA_077GNRA variation
HL_8VSA_082No text annotation
HL_8VSA_086No text annotation
HL_8VSA_121No text annotation
HL_8VSA_087Pseudoknot geometry
HL_8VSA_118GNRA with extra cWW
HL_8VSA_096Ribsomal LSU H95
HL_8VSA_097No text annotation
HL_8VSA_098UNCG variation
HL_8VSA_101No text annotation
HL_8VSA_103tRNA D-loop
HL_8VSA_106No text annotation
HL_8VSA_119No text annotation
HL_8VSA_107No text annotation
HL_8VSA_122No text annotation
HL_8VSA_108No text annotation
HL_8VSA_109No text annotation
HL_8VSA_110No text annotation
HL_8VSA_111T-loop with 2 stacked bulged bases

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8VSA_0011/16S/30:32,
1/16S/552:553		Single bulged G
homologous
IL_5J7L_001
NA
IL_8VSA_0021/16S/44:45,
1/16S/396:398		Single bulged A
homologous
IL_4LFB_002
IL_14190.2
IL_8VSA_0031/16S/47:52,
1/16S/359:361		No text annotation
homologous
IL_5J7L_003
NA
IL_8VSA_0041/16S/54:56,
1/16S/356:357		Minor groove platform
homologous
IL_5J7L_004
NA
IL_8VSA_0091/16S/128:131,
1/16S/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
NA
IL_8VSA_0161/16S/242:247,
1/16S/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_8VSA_2081/16S/249:252,
1/16S/274:275		No text annotation
homologous
IL_4LFB_012
IL_22002.1
IL_8VSA_0181/16S/292:293,
1/16S/304:308		C-loop
homologous
IL_5J7L_016
NA
IL_8VSA_0191/16S/320:322,
1/16S/332:333		Single stack bend
geometric
IL_4C7O_002
IL_15011.2
IL_8VSA_0201/16S/367:369,
1/16S/392:393		Single bulged U
homologous
IL_4LFB_014
IL_97561.2
IL_8VSA_0221/16S/375:376,
1/16S/387:389		Single bulged G
geometric
IL_4LFB_016
IL_28408.2
IL_8VSA_0261/16S/440:442,
1/16S/492:497		No text annotation
homologous
IL_5J7L_021
NA
IL_8VSA_0301/16S/504:511,
1/16S/540:541		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_11411.1
IL_8VSA_0311/16S/515:521,
1/16S/528:536		Kink-turn related
geometric
IL_4V88_415
NA
IL_8VSA_0321/16S/569:575,
1/16S/880:881		No text annotation
homologous
IL_5J7L_026
NA
IL_8VSA_0331/16S/580:584,
1/16S/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
NA
IL_8VSA_0361/16S/597:598,
1/16S/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_029
NA
IL_8VSA_0381/16S/654:655,
1/16S/751:754		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_74641.2
IL_8VSA_0401/16S/662:666,
1/16S/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
NA
IL_8VSA_0411/16S/673:678,
1/16S/712:717		No text annotation
homologous
IL_4LFB_030
NA
IL_8VSA_0421/16S/684:688,
1/16S/699:706		Kink-turn
homologous
IL_5J7L_035
NA
IL_8VSA_0431/16S/774:778,
1/16S/804:805		Left turn
homologous
IL_5J7L_036
NA
IL_8VSA_0441/16S/779:783,
1/16S/799:803		tSH-tHW-tHS
homologous
IL_4LFB_033
IL_05821.1
IL_8VSA_0451/16S/887:894,
1/16S/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_8VSA_0461/16S/922:923,
1/16S/1393:1395		Single bulged A
homologous
IL_5J7L_039
NA
IL_8VSA_0471/16S/925:927,
1/16S/1390:1391		Single bulged G
homologous
IL_4LFB_036
IL_28408.2
IL_8VSA_0481/16S/933:935,
1/16S/1380:1384		Minor groove platform
homologous
IL_5J7L_041
NA
IL_8VSA_0501/16S/993:997,
1/16S/1044:1045		Minor groove platform
geometric
IL_5J7L_043
NA
IL_8VSA_0561/16S/1060:1061,
1/16S/1195:1197		Single bulged A
homologous
IL_5J7L_049
NA
IL_8VSA_0571/16S/1061:1063,
1/16S/1193:1195		Isolated non-canonical cWW pair
geometric
IL_5VCI_001
IL_68118.2
IL_8VSA_0621/16S/1247:1253,
1/16S/1284:1290		No text annotation
homologous
IL_4LFB_051
IL_12056.1
IL_8VSA_0631/16S/1255:1258,
1/16S/1277:1282		180 degree turn
homologous
IL_5J7L_055
NA
IL_8VSA_0661/16S/1399:1401,
1/16S/1501:1504		No text annotation
geometric
IL_5J7L_058
NA
IL_8VSA_0671/16S/1401:1404,
1/16S/1497:1501		No text annotation
geometric
IL_4V88_464
NA
IL_8VSA_0681/16S/1405:1407,
1/16S/1494:1496		Isolated non-canonical cWW pair
geometric
IL_4WF9_020
IL_01003.2
IL_8VSA_0691/16S/1407:1409,
1/16S/1491:1494		Decoding loop related
geometric
IL_3C3Z_002
IL_53541.1
IL_8VSA_0701/16S/1412:1414,
1/16S/1486:1488		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
NA
IL_8VSA_0711/16S/1416:1419,
1/16S/1481:1484		Double sheared
homologous
IL_6CZR_169
NA
IL_8VSA_0721/16S/1430:1435,
1/16S/1466:1470		Triple sheared related
homologous
IL_5J7L_063
NA
IL_8VSA_0761/23S/24:30,
1/23S/510:516		Triple sheared with non-canonical cWW
homologous
IL_5J7L_245
NA
IL_8VSA_0771/23S/36:37,
1/23S/442:444		Single bulged A
homologous
IL_7RQB_002
NA
IL_8VSA_2271/23S/43:44,
1/23S/434:436		Minor groove platform
homologous
IL_5J7L_247
NA
IL_8VSA_0791/23S/81:85,
1/23S/97:105		No text annotation
homologous
IL_5J7L_248
NA
IL_8VSA_0811/23S/183:184,
1/23S/212:214		Single stack bend
homologous
IL_5J7L_249
NA
IL_8VSA_0821/23S/188:194,
1/23S/201:208		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_006
NA
IL_8VSA_0831/23S/239:245,
1/23S/253:258		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_251
NA
IL_8VSA_0861/23S/293:295,
1/23S/343:347		No text annotation
homologous
IL_5J7L_254
NA
IL_8VSA_0871/23S/481:484,
1/23S/496:509		No text annotation
homologous
IL_5J7L_255
NA
IL_8VSA_0881/23S/536:539,
1/23S/554:557		Double sheared
homologous
IL_5J7L_256
NA
IL_8VSA_0891/23S/564:566,
1/23S/575:577		Isolated non-canonical cWW pair
homologous
IL_5J7L_257
NA
IL_8VSA_0911/23S/672:674,
1/23S/806:808		Isolated non-canonical cWW pair
geometric
IL_4LFB_010
IL_01003.2
IL_8VSA_0921/23S/674:678,
1/23S/799:806		tHW-tHW cross-strand stack
homologous
IL_7RQB_018
NA
IL_8VSA_0931/23S/697:698,
1/23S/763:765		Single bulged A
homologous
IL_5J7L_261
NA
IL_8VSA_0941/23S/702:703,
1/23S/728:730		Single bulged G
homologous
IL_7A0S_017
IL_28408.2
IL_8VSA_0951/23S/703:707,
1/23S/724:728		Triple sheared
geometric
IL_4V9F_027
IL_15190.2
IL_8VSA_0961/23S/738:740,
1/23S/757:758		Major groove platform
homologous
IL_5J7L_264
NA
IL_8VSA_0971/23S/775:777,
1/23S/787:791		Multiple bulged bases
homologous
IL_5J7L_265
NA
IL_8VSA_0981/23S/837:838,
1/23S/940:942		Single stack bend
homologous
IL_7RQB_024
NA
IL_8VSA_2141/23S/844:848,
1/23S/930:934		No text annotation
geometric
IL_5J7L_399
NA
IL_8VSA_1001/23S/847:848,
1/23S/930:933		Stack outside cWW
homologous
IL_5J7L_268
NA
IL_8VSA_1011/23S/850:851,
1/23S/926:928		Single stack bend
homologous
IL_5J7L_269
NA
IL_8VSA_1031/23S/862:863,
1/23S/913:915		Multiple bulged bases
geometric
IL_5WLH_001
IL_71421.2
IL_8VSA_1041/23S/864:868,
1/23S/909:912		C-loop with bulged stacked A's
homologous
IL_5J7L_272
NA
IL_8VSA_1051/23S/870:872,
1/23S/905:907		Isolated non-canonical cWW pair
homologous
IL_5J7L_273
NA
IL_8VSA_1081/23S/994:996,
1/23S/1159:1160		Single bulged C
homologous
IL_5J7L_276
NA
IL_8VSA_1091/23S/998:1002,
1/23S/1153:1157		UAA/GAN
homologous
IL_5J7L_277
NA
IL_8VSA_1101/23S/1004:1011,
1/23S/1150:1151		SSU/LSU pseudoknot
geometric
IL_5J7L_278
NA
IL_8VSA_1111/23S/1011:1013,
1/23S/1149:1150		Single bulged U
homologous
IL_4WF9_038
IL_97561.2
IL_8VSA_1121/23S/1018:1024,
1/23S/1140:1144		Kink-turn related
geometric
IL_4WF9_039
IL_57188.6
IL_8VSA_1131/23S/1024:1030,
1/23S/1124:1140		No text annotation
geometric
IL_5J7L_281
NA
IL_8VSA_1141/23S/1031:1034,
1/23S/1121:1123		Isolated non-canonical cWW pair
homologous
IL_7RQB_041
NA
IL_8VSA_1191/23S/1196:1198,
1/23S/1247:1250		Isolated cWS basepair
homologous
IL_5J7L_286
NA
IL_8VSA_1201/23S/1202:1206,
1/23S/1240:1243		No text annotation
homologous
IL_5J7L_287
NA
IL_8VSA_1211/23S/1208:1215,
1/23S/1234:1238		Kink-turn
homologous
IL_5J7L_288
NA
IL_8VSA_1221/23S/1262:1269,
1/23S/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_7RQB_049
NA
IL_8VSA_1231/23S/1310:1313,
1/23S/1603:1604		Major groove platform; stack outside cWW
homologous
IL_4WF9_049
IL_74641.2
IL_8VSA_1241/23S/1319:1323,
1/23S/1331:1333		C-loop
homologous
IL_5J7L_291
NA
IL_8VSA_1251/23S/1351:1355,
1/23S/1376:1380		UAA/GAN
homologous
IL_5J7L_292
NA
IL_8VSA_1261/23S/1357:1361,
1/23S/1370:1374		tSH-tHW-tHS
homologous
IL_5J7L_293
NA
IL_8VSA_1291/23S/1432:1435,
1/23S/1557:1561		Tandem non-canonical cWW pairs
homologous
IL_5J7L_296
NA
IL_8VSA_1301/23S/1437:1440,
1/23S/1551:1555		tSH-tHW
homologous
IL_5J7L_297
NA
IL_8VSA_1311/23S/1468:1471,
1/23S/1520:1524		No text annotation
homologous
IL_5J7L_299
NA
IL_8VSA_1321/23S/1474:1478,
1/23S/1513:1517		tSH-tHW-tHS
homologous
IL_5J7L_300
NA
IL_8VSA_1351/23S/1526:1529,
1/23S/1542:1546		UAA/GAN variation
homologous
IL_5J7L_303
NA
IL_8VSA_1371/23S/1651:1656,
1/23S/2004:2006		No text annotation
homologous
IL_5J7L_304
NA
IL_8VSA_2181/23S/1663:1665,
1/23S/1995:1997		Isolated tWW turn
homologous
IL_4WF9_063
IL_10432.1
IL_8VSA_2191/23S/1666:1669,
1/23S/1993:1994		Major groove platform; stack outside cWW
geometric
IL_8VTW_065
NA
IL_8VSA_2201/23S/1666:1674,
1/23S/1990:1994		No text annotation
geometric
IL_4WF9_117
IL_80252.1
IL_8VSA_2211/23S/1669:1674,
1/23S/1990:1993		Intercalated tWH
homologous
IL_4WF9_065
IL_28217.1
IL_8VSA_1381/23S/1686:1691,
1/23S/1696:1702		tSH-tSH-tHH-tHS
geometric
IL_5J7L_308
NA
IL_8VSA_1421/23S/1770:1771,
1/23S/1980:1982		Single bulged A
geometric
IL_7A0S_064
IL_14190.2
IL_8VSA_1431/23S/1798:1804,
1/23S/1813:1821		Kink-turn related
homologous
IL_5J7L_313
NA
IL_8VSA_1441/23S/1837:1840,
1/23S/1902:1903		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
NA
IL_8VSA_1451/23S/1841:1842,
1/23S/1898:1901		Major groove intercalation
homologous
IL_7A0S_067
IL_77710.1
IL_8VSA_2231/23S/1851:1860,
1/23S/1882:1891		No text annotation
homologous
IL_5J7L_387
NA
IL_8VSA_1471/23S/1864:1867,
1/23S/1874:1878		UAA/GAN related
homologous
IL_5J7L_317
NA
IL_8VSA_1481/23S/1933:1934,
1/23S/1964:1967		Bulged stacked bases
homologous
IL_5J7L_318
NA
IL_8VSA_1491/23S/1934:1945,
1/23S/1961:1964		No text annotation
geometric
IL_7A0S_072
IL_04332.3
IL_8VSA_1511/23S/2054:2056,
1/23S/2612:2615		No text annotation
homologous
IL_5J7L_321
NA
IL_8VSA_1521/23S/2067:2069,
1/23S/2442:2443		Single bulged U
homologous
IL_7RQB_080
NA
IL_8VSA_1531/23S/2070:2071,
1/23S/2438:2441		Minor groove platform
homologous
IL_7RQB_081
NA
IL_8VSA_1551/23S/2081:2083,
1/23S/2236:2239		Isolated tHS basepair with bulges
homologous
IL_5J7L_325
NA
IL_8VSA_1561/23S/2085:2087,
1/23S/2232:2234		Isolated non-canonical cWW pair
homologous
IL_5J7L_326
NA
IL_8VSA_1651/23S/2202:2204,
1/23S/2220:2221		Single bulged U
homologous
IL_5J7L_331
NA
IL_8VSA_1691/23S/2453:2454,
1/23S/2498:2500		Single stack bend
geometric
IL_4WF9_089
IL_15011.2
IL_8VSA_1701/23S/2454:2455,
1/23S/2496:2498		Major groove platform
homologous
IL_4WF9_090
IL_48076.8
IL_8VSA_1711/23S/2457:2459,
1/23S/2493:2494		Major groove platform
homologous
IL_7A0S_085
IL_48076.8
IL_8VSA_1721/23S/2459:2461,
1/23S/2489:2493		Major groove minor groove platform with extra cWW
geometric
IL_7RQB_094
NA
IL_8VSA_1731/23S/2466:2470,
1/23S/2480:2484		Double sheared with non-canonical cWW
homologous
IL_7A0S_087
IL_87767.2
IL_8VSA_1741/23S/2507:2508,
1/23S/2580:2582		Major groove platform
homologous
IL_4WF9_094
IL_46637.2
IL_8VSA_1751/23S/2510:2512,
1/23S/2574:2578		Isolated non-canonical cWW with bulges
homologous
IL_7A0S_089
IL_68118.2
IL_8VSA_1761/23S/2512:2513,
1/23S/2571:2574		No text annotation
geometric
IL_5J7L_341
NA
IL_8VSA_1771/23S/2522:2523,
1/23S/2540:2543		Major groove platform with intercalation
homologous
IL_5J7L_342
NA
IL_8VSA_1781/23S/2591:2592,
1/23S/2601:2603		Single bulged A
homologous
IL_7RQB_101
NA
IL_8VSA_1791/23S/2636:2640,
1/23S/2774:2782		tSH-tHS-tHW
homologous
IL_5J7L_345
NA
IL_8VSA_1811/23S/2680:2684,
1/23S/2725:2727		C-loop
homologous
IL_5J7L_347
NA
IL_8VSA_1821/23S/2687:2691,
1/23S/2718:2722		UAA/GAN related, with intercalation
homologous
IL_5J7L_348
NA
IL_8VSA_1831/23S/2695:2696,
1/23S/2711:2714		Multiple bulged bases
homologous
IL_5J7L_349
NA
IL_8VSA_1841/23S/2737:2742,
1/23S/2762:2767		UAA/GAN with extra cWW
homologous
IL_5J7L_350
NA
IL_8VSA_1851/23S/2806:2811,
1/23S/2889:2892		No text annotation
homologous
IL_5J7L_351
NA
IL_8VSA_1861/23S/2838:2839,
1/23S/2878:2880		Major groove intercalation
homologous
IL_4WF9_106
IL_77710.1
IL_8VSA_1871/23S/2843:2846,
1/23S/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
NA
IL_8VSA_1881/23S/2847:2852,
1/23S/2865:2869		tHS double platform
homologous
IL_5J7L_354
NA
IL_8VSA_1931/5S/34:38,
1/5S/44:48		Symmetric double minor groove platform
geometric
IL_5J7L_358
NA
IL_8VSA_1941/5S/71:79,
1/5S/97:105		Bacterial 5S Loop E
homologous
IL_5J7L_359
NA

Problematic loops

#loop idProblemSequence
IL_8VSA_005Multiple bulged bases
IL_8VSA_006Minor groove platform with extra cWW
IL_8VSA_007Minor groove platform
IL_8VSA_008Major groove intercalation
IL_8VSA_226No text annotation
IL_8VSA_010Minor groove platform related
IL_8VSA_011Isolated non-canonical cWW pair
IL_8VSA_012Isolated cWH basepair
IL_8VSA_013tWH-tWH-tHW-tHW
IL_8VSA_014No text annotation
IL_8VSA_015No text annotation
IL_8VSA_017No text annotation
IL_8VSA_209No text annotation
IL_8VSA_021C-loop
IL_8VSA_210Tandem non-canonical cWW pairs
IL_8VSA_023Single stack bend
IL_8VSA_024Single stack bend
IL_8VSA_025No text annotation
IL_8VSA_027tSH-tHW-tWW
IL_8VSA_028No text annotation
IL_8VSA_029Tandem non-canonical cWW pairs
IL_8VSA_034Isolated cWH basepair
IL_8VSA_035Major groove platform
IL_8VSA_211No text annotation
IL_8VSA_037No text annotation
IL_8VSA_039Single stack bend
IL_8VSA_049No text annotation
IL_8VSA_051Single stack bend
IL_8VSA_052No text annotation
IL_8VSA_053Single bulged U
IL_8VSA_054Tandem non-canonical cWW pairs
IL_8VSA_212Isolated cWS basepair
IL_8VSA_055Minor groove platform
IL_8VSA_058No text annotation
IL_8VSA_059No text annotation
IL_8VSA_060Minor groove platform
IL_8VSA_061No text annotation
IL_8VSA_064Double sheared with non-canonical cWW
IL_8VSA_065No text annotation
IL_8VSA_073Isolated non-canonical cWW pair
IL_8VSA_074Single bulged A
IL_8VSA_075No text annotation
IL_8VSA_078Major groove platform with extra cWW
IL_8VSA_080No text annotation
IL_8VSA_084No text annotation
IL_8VSA_085No text annotation
IL_8VSA_090No text annotation
IL_8VSA_213AAA cross-strand stack
IL_8VSA_09990 degree turn
IL_8VSA_1027x7 Sarcin-Ricin with intercalated A; G-bulge
IL_8VSA_106Double sheared with non-canonical cWW
IL_8VSA_107No text annotation
IL_8VSA_215No text annotation
IL_8VSA_228No text annotation
IL_8VSA_115Tandem non-canonical cWW pairs
IL_8VSA_116Kink-turn
IL_8VSA_216No text annotation
IL_8VSA_117No text annotation
IL_8VSA_118Major groove platform
IL_8VSA_127No text annotation
IL_8VSA_128UAA/GAN
IL_8VSA_217tSH-tHH-tHS
IL_8VSA_133180 degree turn
IL_8VSA_134Single bulged A
IL_8VSA_136Isolated non-canonical cWW pair
IL_8VSA_1396x5 Sarcin-Ricin; G-bulge
IL_8VSA_140Triple sheared
IL_8VSA_141Isolated non-canonical cWW pair
IL_8VSA_222Isolated non-canonical cWW pair
IL_8VSA_146Major groove minor groove platform; mini C-loop
IL_8VSA_150Major groove platform
IL_8VSA_154Isolated non-canonical cWW contact
IL_8VSA_157Isolated non-canonical cWW pair
IL_8VSA_158Isolated non-canonical cWW pair
IL_8VSA_159Isolated non-canonical cWW pair
IL_8VSA_160No text annotation
IL_8VSA_161Tandem non-canonical cWW pairs
IL_8VSA_162No text annotation
IL_8VSA_229No text annotation
IL_8VSA_163No text annotation
IL_8VSA_164No text annotation
IL_8VSA_224No text annotation
IL_8VSA_166Isolated non-canonical cWW contact
IL_8VSA_167Double sheared
IL_8VSA_168No text annotation
IL_8VSA_180Sarcin-Ricin target in LSU H95; G-bulge
IL_8VSA_189Major groove intercalation
IL_8VSA_190No text annotation
IL_8VSA_191Major groove minor groove platform; mini C-loop
IL_8VSA_192Isolated non-canonical cWW pair
IL_8VSA_195Isolated non-canonical cWW pair
IL_8VSA_196No text annotation
IL_8VSA_225No text annotation
IL_8VSA_197No text annotation
IL_8VSA_198No text annotation
IL_8VSA_199Isolated non-canonical cWW pair
IL_8VSA_200Isolated non-canonical cWW pair
IL_8VSA_201Isolated tHS basepair with bulges
IL_8VSA_202No text annotation
IL_8VSA_203No text annotation
IL_8VSA_204No text annotation
IL_8VSA_230No text annotation
IL_8VSA_205No text annotation
IL_8VSA_206No text annotation
IL_8VSA_231No text annotation
IL_8VSA_207No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8VSA_0201/16S/46:47,
1/16S/361:367,
1/16S/393:395		No text annotation
geometric
J3_8C3A_082
NA
J3_8VSA_0211/16S/46:52,
1/16S/359:367,
1/16S/393:395		No text annotation
homologous
J3_5J7L_050
NA
J3_8VSA_0221/16S/586:588,
1/16S/651:654,
1/16S/754:755		No text annotation
geometric
J3_6CZR_016
NA
J3_8VSA_0231/16S/586:588,
1/16S/651:655,
1/16S/751:755		No text annotation
homologous
J3_5J7L_051
NA
J3_8VSA_0241/16S/672:673,
1/16S/717:725,
1/16S/732:734		No text annotation
homologous
J3_5J7L_003
NA
J3_8VSA_0011/16S/826:829,
1/16S/857:861,
1/16S/868:874		No text annotation
homologous
J3_5J7L_004
NA
J3_8VSA_0021/16S/936:939,
1/16S/1344:1350,
1/16S/1372:1379		No text annotation
homologous
J3_5J7L_052
NA
J3_8VSA_0251/16S/943:946,
1/16S/1235:1237,
1/16S/1337:1340		No text annotation
homologous
J3_5J7L_005
NA
J3_8VSA_0041/16S/955:962,
1/16S/973:984,
1/16S/1221:1225		No text annotation
homologous
J3_5J7L_006
NA
J3_8VSA_0051/16S/990:993,
1/16S/1045:1047,
1/16S/1210:1215		No text annotation
homologous
J3_5J7L_007
NA
J3_8VSA_0261/16S/990:997,
1/16S/1044:1047,
1/16S/1210:1215		No text annotation
homologous
J3_5J7L_053
NA
J3_8VSA_0061/16S/1063:1068,
1/16S/1107:1113,
1/16S/1187:1193		No text annotation
homologous
J3_4LFB_007
J3_01343.1
J3_8VSA_0271/16S/1073:1074,
1/16S/1083:1086,
1/16S/1099:1102		No text annotation
homologous
J3_4LFB_017
J3_11018.1
J3_8VSA_0301/23S/30:31,
1/23S/474:481,
1/23S/509:510		No text annotation
geometric
J3_5J7L_036
NA
J3_8VSA_0311/23S/30:31,
1/23S/474:484,
1/23S/496:510		No text annotation
homologous
J3_9DFE_002
J3_17917.1
J3_8VSA_0321/23S/32:35,
1/23S/445:461,
1/23S/468:473		No text annotation
homologous
J3_5J7L_067
NA
J3_8VSA_0331/23S/56:57,
1/23S/70:76,
1/23S/110:114		No text annotation
homologous
J3_5J7L_037
NA
J3_8VSA_0341/23S/297:301,
1/23S/316:325,
1/23S/337:341		No text annotation
homologous
J3_5J7L_068
NA
J3_8VSA_0411/23S/683:689,
1/23S/773:775,
1/23S/791:794		No text annotation
homologous
J3_5J7L_038
NA
J3_8VSA_0101/23S/698:700,
1/23S/732:736,
1/23S/760:763		No text annotation
homologous
J3_4WF9_003
J3_69816.1
J3_8VSA_0121/23S/1298:1303,
1/23S/1625:1627,
1/23S/1639:1642		No text annotation
homologous
J3_5J7L_041
NA
J3_8VSA_0131/23S/1306:1309,
1/23S/1605:1611,
1/23S/1620:1622		No text annotation
homologous
J3_5J7L_042
NA
J3_8VSA_0431/23S/1344:1349,
1/23S/1382:1385,
1/23S/1402:1403		No text annotation
homologous
J3_5J7L_043
NA
J3_8VSA_0361/23S/1424:1429,
1/23S/1564:1565,
1/23S/1568:1574		No text annotation
homologous
J3_5J7L_069
NA
J3_8VSA_0151/23S/2091:2093,
1/23S/2196:2200,
1/23S/2223:2228		Kink-turn 3-way junction
homologous
J3_5J7L_044
NA
J3_8VSA_0371/23S/2282:2284,
1/23S/2384:2395,
1/23S/2421:2427		No text annotation
homologous
J3_5J7L_070
NA
J3_8VSA_0161/23S/2295:2299,
1/23S/2317:2323,
1/23S/2332:2337		No text annotation
homologous
J3_5J7L_071
NA
J3_8VSA_0171/23S/2517:2520,
1/23S/2545:2547,
1/23S/2561:2567		No text annotation
homologous
J3_5J7L_046
NA
J3_8VSA_0381/23S/2789:2791,
1/23S/2805:2806,
1/23S/2892:2894		No text annotation
homologous
J3_5J7L_047
NA
J3_8VSA_0181/23S/2812:2815,
1/23S/2831:2836,
1/23S/2882:2888		No text annotation
homologous
J3_5J7L_048
NA
J3_8VSA_0191/5S/10:16,
1/5S/68:70,
1/5S/106:110		No text annotation
homologous
J3_5J7L_049
NA
J3_8VSA_0441/TMRN/7:21,
1/TMRN/332:337,
1/TMRN/351:353		No text annotation
J4_8VSA_0011/16S/115:122,
1/16S/239:240,
1/16S/286:289,
1/16S/311:312		No text annotation
homologous
J4_5J7L_001
NA
J4_8VSA_0031/16S/575:577,
1/16S/764:769,
1/16S/810:821,
1/16S/879:880		No text annotation
homologous
J4_5J7L_003
NA
J4_8VSA_0051/23S/601:604,
1/23S/624:628,
1/23S/635:638,
1/23S/650:656		No text annotation
homologous
J4_5J7L_020
NA
J4_8VSA_0061/23S/1270:1276,
1/23S/1294:1295,
1/23S/1645:1648,
1/23S/2009:2010		No text annotation
homologous
J4_5J7L_021
NA
J4_8VSA_0071/23S/1310:1314,
1/23S/1338:1343,
1/23S/1404:1405,
1/23S/1597:1604		No text annotation
homologous
J4_5J7L_022
NA
J4_8VSA_0081/23S/1313:1314,
1/23S/1338:1343,
1/23S/1404:1405,
1/23S/1597:1603		No text annotation
homologous
J4_5J7L_023
NA
J4_8VSA_0091/23S/1444:1445,
1/23S/1466:1467,
1/23S/1525:1526,
1/23S/1546:1547		No text annotation
homologous
J4_5J7L_024
NA
J4_8VSA_0101/23S/1772:1776,
1/23S/1788:1792,
1/23S/1827:1830,
1/23S/1975:1979		No text annotation
homologous
J4_5J7L_025
NA
J4_8VSA_0111/23S/1833:1835,
1/23S/1905:1906,
1/23S/1924:1933,
1/23S/1967:1972		No text annotation
homologous
J4_9DFE_008
J4_42306.1
J4_8VSA_0121/23S/2285:2289,
1/23S/2343:2347,
1/23S/2370:2372,
1/23S/2381:2383		No text annotation
homologous
J4_5J7L_027
NA
J4_8VSA_0131/23S/2643:2646,
1/23S/2674:2676,
1/23S/2731:2735,
1/23S/2769:2771		No text annotation
homologous
J4_5J7L_028
NA
J4_8VSA_0151/ATRN/7:10,
1/ATRN/25:27,
1/ATRN/43:49,
1/ATRN/65:66		tRNA junction
homologous
J4_7YSE_001
J4_95067.1
J5_8VSA_0011/16S/36:39,
1/16S/403:406,
1/16S/436:440,
1/16S/497:500,
1/16S/545:548		No text annotation
homologous
J5_5J7L_001
NA
J5_8VSA_0021/16S/36:39,
1/16S/403:406,
1/16S/436:442,
1/16S/492:500,
1/16S/545:548		No text annotation
homologous
J5_5J7L_002
NA
J5_8VSA_0111/16S/58:61,
1/16S/106:113,
1/16S/314:316,
1/16S/337:339,
1/16S/350:354		No text annotation
homologous
J5_5J7L_003
NA
J5_8VSA_0041/23S/47:54,
1/23S/116:121,
1/23S/130:131,
1/23S/148:150,
1/23S/176:178		No text annotation
homologous
J5_5J7L_013
NA
J5_8VSA_0051/23S/531:533,
1/23S/560:564,
1/23S/577:579,
1/23S/1261:1262,
1/23S/2017:2018		No text annotation
homologous
J5_5J7L_014
NA
J5_8VSA_0061/23S/584:589,
1/23S/668:671,
1/23S/809:812,
1/23S/1195:1196,
1/23S/1250:1256		No text annotation
homologous
J5_5J7L_015
NA
J5_8VSA_0071/23S/1310:1314,
1/23S/1338:1349,
1/23S/1382:1385,
1/23S/1402:1405,
1/23S/1597:1604		No text annotation
J5_8VSA_0081/23S/1674:1682,
1/23S/1706:1707,
1/23S/1751:1752,
1/23S/1756:1764,
1/23S/1988:1990		No text annotation
homologous
J5_5J7L_016
NA
J5_8VSA_0091/23S/2057:2064,
1/23S/2446:2453,
1/23S/2500:2507,
1/23S/2582:2588,
1/23S/2606:2611		No text annotation
J5_8VSA_0101/23S/2074:2077,
1/23S/2243:2246,
1/23S/2258:2259,
1/23S/2281:2282,
1/23S/2427:2435		No text annotation
homologous
J5_4WF9_007
J5_39529.2
J6_8VSA_0011/23S/45:46,
1/23S/179:183,
1/23S/214:224,
1/23S/231:235,
1/23S/262:266,
1/23S/426:433		No text annotation
J6_8VSA_0021/23S/2074:2077,
1/23S/2243:2246,
1/23S/2258:2259,
1/23S/2281:2284,
1/23S/2384:2395,
1/23S/2421:2435		No text annotation
J6_8VSA_0041/TMRN/48:55,
1/TMRN/78:108,
1/TMRN/137:138,
1/TMRN/181:200,
1/TMRN/229:252,
1/TMRN/279:303		No text annotation
J7_8VSA_0011/23S/8:15,
1/23S/525:531,
1/23S/2018:2023,
1/23S/2040:2043,
1/23S/2625:2630,
1/23S/2788:2789,
1/23S/2894:2895		No text annotation
J7_8VSA_0021/23S/817:822,
1/23S/835:837,
1/23S/942:946,
1/23S/971:976,
1/23S/987:991,
1/23S/1163:1164,
1/23S/1185:1190		No text annotation

Problematic loops

#loop idProblemSequence
J3_8VSA_003No text annotation
J3_8VSA_028No text annotation
J3_8VSA_029No text annotation
J3_8VSA_007No text annotation
J3_8VSA_040No text annotation
J3_8VSA_008No text annotation
J3_8VSA_009No text annotation
J3_8VSA_035No text annotation
J3_8VSA_042No text annotation
J3_8VSA_011No text annotation
J3_8VSA_014No text annotation
J3_8VSA_039No text annotation
J4_8VSA_002No text annotation
J4_8VSA_004No text annotation
J4_8VSA_014No text annotation
J5_8VSA_003No text annotation
J6_8VSA_003No text annotation

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