RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6XZA_0011/A1/12:22No text annotation
homologous
HL_5J7L_001
NA
HL_6XZA_0031/A1/158:163GNRA
homologous
HL_5J7L_003
NA
HL_6XZA_0071/A1/296:301GNRA
homologous
HL_5J7L_007
NA
HL_6XZA_0081/A1/320:333No text annotation
homologous
HL_5J7L_008
NA
HL_6XZA_0091/A1/342:347UNCG
homologous
HL_4LFB_009
HL_61337.2
HL_6XZA_0151/A1/689:698No text annotation
homologous
HL_5J7L_015
NA
HL_6XZA_0161/A1/726:731GNRA
homologous
HL_5J7L_016
NA
HL_6XZA_0171/A1/786:796No text annotation
homologous
HL_5J7L_017
NA
HL_6XZA_0191/A1/862:867GNRA
homologous
HL_4LFB_019
HL_34789.2
HL_6XZA_0201/A1/897:902GNRA
homologous
HL_4LFB_020
HL_34789.2
HL_6XZA_0221/A1/1012:1017GNRA
homologous
HL_4LFB_022
HL_34789.2
HL_6XZA_0241/A1/1076:1081GNRA
homologous
HL_4LFB_024
HL_34789.2
HL_6XZA_0251/A1/1089:1096T-loop related
homologous
HL_4LFB_025
HL_63894.2
HL_6XZA_0261/A1/1134:1140No text annotation
homologous
HL_4LFB_026
HL_92935.1
HL_6XZA_0271/A1/1165:1171GNRA
homologous
HL_5J7L_026
NA
HL_6XZA_0281/A1/1265:1270GNRA
homologous
HL_4LFB_028
HL_34789.2
HL_6XZA_0291/A1/1314:1323T-loop with 3 stacked bulged bases
homologous
HL_5J7L_028
NA
HL_6XZA_0301/A1/1356:1366No text annotation
homologous
HL_5J7L_029
NA
HL_6XZA_0311/A1/1449:1454UNCG
homologous
HL_4LFB_031
HL_61337.2
HL_6XZA_0331/A2/59:68No text annotation
homologous
HL_5J7L_134
NA
HL_6XZA_0341/A2/87:95No text annotation
homologous
HL_5J7L_135
NA
HL_6XZA_0351/A2/123:128No text annotation
homologous
HL_5J7L_136
NA
HL_6XZA_0361/A2/137:142UNCG
geometric
HL_4AY2_001
HL_61337.2
HL_6XZA_0371/A2/158:168No text annotation
homologous
HL_5J7L_138
NA
HL_6XZA_0381/A2/194:201No text annotation
homologous
HL_5J7L_139
NA
HL_6XZA_0391/A2/225:230No text annotation
homologous
HL_5J7L_140
NA
HL_6XZA_0401/A2/246:252No text annotation
homologous
HL_5J7L_141
NA
HL_6XZA_0411/A2/305:312T-loop with 2 stacked bulged bases
homologous
HL_5J7L_142
NA
HL_6XZA_0421/A2/319:323No text annotation
homologous
HL_7RQB_011
NA
HL_6XZA_0431/A2/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
NA
HL_6XZA_0441/A2/382:392No text annotation
homologous
HL_5J7L_145
NA
HL_6XZA_0451/A2/410:417Pseudoknot geometry
homologous
HL_5J7L_146
NA
HL_6XZA_0461/A2/462:467GNRA
homologous
HL_7RQB_015
NA
HL_6XZA_0471/A2/487:493GNRA
homologous
HL_5J7L_148
NA
HL_6XZA_0481/A2/543:550No text annotation
homologous
HL_5J7L_149
NA
HL_6XZA_0491/A2/566:575T-loop with 2 stacked bulged bases
geometric
HL_5J7L_150
NA
HL_6XZA_0501/A2/611:617No text annotation
homologous
HL_5J7L_151
NA
HL_6XZA_0511/A2/629:634GNRA
homologous
HL_5J7L_152
NA
HL_6XZA_0521/A2/641:647No text annotation
homologous
HL_5J7L_153
NA
HL_6XZA_0531/A2/712:719GNRA wlth tandem sheared
homologous
HL_5J7L_154
NA
HL_6XZA_0541/A2/744:753No text annotation
homologous
HL_5J7L_155
NA
HL_6XZA_0551/A2/779:785No text annotation
homologous
HL_7RQB_024
NA
HL_6XZA_0561/A2/826:831No text annotation
homologous
HL_7RQB_025
NA
HL_6XZA_1081/A2/955:962GNRA
homologous
HL_5J7L_211
NA
HL_6XZA_0591/A2/978:985No text annotation
homologous
HL_5J7L_160
NA
HL_6XZA_0631/A2/1222:1227GNRA
homologous
HL_5J7L_164
NA
HL_6XZA_0641/A2/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_5J7L_165
NA
HL_6XZA_0651/A2/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
NA
HL_6XZA_0661/A2/1363:1368GNRA
homologous
HL_5J7L_167
NA
HL_6XZA_0671/A2/1389:1398No text annotation
homologous
HL_5J7L_168
NA
HL_6XZA_0681/A2/1451:1459Mini UNCG with extended bulge
homologous
HL_5J7L_169
NA
HL_6XZA_0691/A2/1492:1498Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
NA
HL_6XZA_0701/A2/1533:1538UNCG
homologous
HL_5J7L_171
NA
HL_6XZA_0711/A2/1565:1568No text annotation
homologous
HL_7RQB_039
NA
HL_6XZA_0721/A2/1612:1619No text annotation
homologous
HL_5J7L_173
NA
HL_6XZA_0731/A2/1630:1636GNRA
homologous
HL_5J7L_174
NA
HL_6XZA_0741/A2/1691:1696No text annotation
homologous
HL_7RQB_042
NA
HL_6XZA_0751/A2/1728:1731No text annotation
geometric
HL_5J7L_176
NA
HL_6XZA_0761/A2/1752:1756No text annotation
homologous
HL_5J7L_177
NA
HL_6XZA_0771/A2/1777:1787No text annotation
homologous
HL_5J7L_178
NA
HL_6XZA_0781/A2/1806:1811GNRA related
homologous
HL_5J7L_179
NA
HL_6XZA_0791/A2/1868:1873GNRA
geometric
HL_6LAX_002
HL_34789.2
HL_6XZA_0801/A2/1910:1920No text annotation
homologous
HL_5J7L_181
NA
HL_6XZA_0811/A2/1949:1957No text annotation
homologous
HL_5J7L_182
NA
HL_6XZA_0821/A2/2027:2036No text annotation
homologous
HL_5J7L_183
NA
HL_6XZA_0841/A2/2209:2215No text annotation
homologous
HL_5J7L_185
NA
HL_6XZA_0851/A2/2248:2256No text annotation
homologous
HL_7RQB_053
NA
HL_6XZA_0861/A2/2264:2276No text annotation
homologous
HL_5J7L_187
NA
HL_6XZA_1101/A2/2304:2312No text annotation
homologous
HL_5J7L_219
NA
HL_6XZA_0881/A2/2324:2331Pseudoknot geometry
homologous
HL_5J7L_189
NA
HL_6XZA_0891/A2/2356:2361GNRA
homologous
HL_5J7L_190
NA
HL_6XZA_0901/A2/2374:2379GNRA
homologous
HL_5J7L_191
NA
HL_6XZA_0911/A2/2404:2413No text annotation
homologous
HL_5J7L_192
NA
HL_6XZA_0921/A2/2471:2479No text annotation
homologous
HL_7RQB_060
NA
HL_6XZA_0931/A2/2528:2535GNRA variation
homologous
HL_5J7L_194
NA
HL_6XZA_0941/A2/2551:2557No text annotation
homologous
HL_5J7L_195
NA
HL_6XZA_0951/A2/2594:2599GNRA
homologous
HL_5J7L_196
NA
HL_6XZA_0961/A2/2658:2663GNRA
homologous
HL_5J7L_197
NA
HL_6XZA_0971/A2/2701:2706Ribsomal LSU H95
homologous
HL_5J7L_198
NA
HL_6XZA_0981/A2/2745:2759No text annotation
homologous
HL_5J7L_199
NA
HL_6XZA_0991/A2/2795:2801UNCG variation
homologous
HL_5J7L_200
NA
HL_6XZA_1001/A2/2819:2827No text annotation
homologous
HL_5J7L_201
NA
HL_6XZA_1011/A2/2856:2861GNRA
homologous
HL_5J7L_202
NA
HL_6XZA_1091/B2/34:48No text annotation
homologous
HL_5J7L_215
NA
HL_6XZA_1021/B2/38:44No text annotation
homologous
HL_5J7L_203
NA
HL_6XZA_1031/B2/86:90Mini UNCG
homologous
HL_5J7L_204
NA
HL_6XZA_1041/f2/13:22No text annotation
homologous
HL_6PMO_003
NA
HL_6XZA_1051/f2/31:39tRNA anticodon loop
homologous
HL_6CFJ_107
HL_81376.2
HL_6XZA_1061/f2/53:61T-loop with 2 stacked bulged bases
homologous
HL_6CFJ_108
HL_33597.2

Problematic loops

#loop idProblemSequence
HL_6XZA_002No text annotation
HL_6XZA_004GNRA
HL_6XZA_107No text annotation
HL_6XZA_005No text annotation
HL_6XZA_006GNRA related
HL_6XZA_010GNRA
HL_6XZA_011UNCG
HL_6XZA_012GNRA wlth extra near cWW
HL_6XZA_013No text annotation
HL_6XZA_014GNRA-like with tWH
HL_6XZA_018Externally structured
HL_6XZA_021No text annotation
HL_6XZA_023No text annotation
HL_6XZA_032GNRA
HL_6XZA_057No text annotation
HL_6XZA_058No text annotation
HL_6XZA_060No text annotation
HL_6XZA_061GNRA wlth tandem sheared
HL_6XZA_062No text annotation
HL_6XZA_083No text annotation
HL_6XZA_087No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6XZA_0011/A1/30:32,
1/A1/552:553		Single bulged G
homologous
IL_5J7L_001
NA
IL_6XZA_0031/A1/47:52,
1/A1/359:361		No text annotation
homologous
IL_5J7L_003
NA
IL_6XZA_0051/A1/63:66,
1/A1/103:104		Multiple bulged bases
homologous
IL_5J7L_005
NA
IL_6XZA_0061/A1/67:69,
1/A1/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
NA
IL_6XZA_0091/A1/128:131,
1/A1/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
NA
IL_6XZA_0101/A1/132:136,
1/A1/227:230		Minor groove platform related
homologous
IL_5J7L_010
NA
IL_6XZA_0111/A1/144:146,
1/A1/176:178		Isolated cWH basepair
homologous
IL_5J7L_011
NA
IL_6XZA_0121/A1/147:153,
1/A1/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
NA
IL_6XZA_0141/A1/242:247,
1/A1/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_6XZA_0161/A1/292:293,
1/A1/304:308		C-loop
homologous
IL_4LFB_013
IL_06671.1
IL_6XZA_0241/A1/504:511,
1/A1/540:541		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_11411.1
IL_6XZA_0261/A1/569:575,
1/A1/880:881		No text annotation
homologous
IL_5J7L_026
NA
IL_6XZA_0271/A1/580:584,
1/A1/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
NA
IL_6XZA_0281/A1/594:596,
1/A1/644:645		Major groove platform
homologous
IL_5J7L_028
NA
IL_6XZA_0291/A1/597:598,
1/A1/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_029
NA
IL_6XZA_0301/A1/605:612,
1/A1/628:633		No text annotation
homologous
IL_5J7L_030
NA
IL_6XZA_0311/A1/654:655,
1/A1/751:754		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_74641.2
IL_6XZA_0321/A1/658:659,
1/A1/746:748		Single stack bend
homologous
IL_5J7L_032
NA
IL_6XZA_1801/A1/659:660,
1/A1/745:747		Single stack bend
homologous
IL_5J7L_032
NA
IL_6XZA_0331/A1/662:666,
1/A1/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
NA
IL_6XZA_1811/A1/673:677,
1/A1/713:717		Triple non-canonical cWW pairs
homologous
IL_5J7L_361
NA
IL_6XZA_0351/A1/684:688,
1/A1/699:706		Kink-turn
homologous
IL_5J7L_035
NA
IL_6XZA_0361/A1/774:778,
1/A1/804:805		Left turn
homologous
IL_4LFB_032
IL_29346.3
IL_6XZA_0371/A1/779:783,
1/A1/799:803		tSH-tHW-tHS
homologous
IL_4LFB_033
IL_05821.1
IL_6XZA_0381/A1/887:894,
1/A1/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_6XZA_0391/A1/922:923,
1/A1/1393:1395		Single bulged A
homologous
IL_5J7L_039
NA
IL_6XZA_0401/A1/925:927,
1/A1/1390:1391		Single bulged G
homologous
IL_5J7L_040
NA
IL_6XZA_0411/A1/933:935,
1/A1/1380:1384		Minor groove platform
homologous
IL_5J7L_041
NA
IL_6XZA_0421/A1/953:954,
1/A1/1226:1228		Minor groove platform
homologous
IL_4LFB_038
IL_34520.2
IL_6XZA_0431/A1/993:997,
1/A1/1044:1045		Minor groove platform
homologous
IL_5J7L_043
NA
IL_6XZA_1821/A1/997:999,
1/A1/1041:1044		No text annotation
geometric
IL_8C3A_070
NA
IL_6XZA_0441/A1/998:999,
1/A1/1041:1043		Single stack bend
homologous
IL_5J7L_044
NA
IL_6XZA_0451/A1/1048:1050,
1/A1/1208:1209		Single bulged U
geometric
IL_5J7L_046
NA
IL_6XZA_0471/A1/1052:1056,
1/A1/1204:1206		Isolated cWS basepair
geometric
IL_4LFB_044
IL_82453.1
IL_6XZA_0481/A1/1057:1058,
1/A1/1199:1203		Minor groove platform
homologous
IL_5J7L_048
NA
IL_6XZA_0491/A1/1060:1061,
1/A1/1195:1197		Single bulged A
geometric
IL_5J7L_049
NA
IL_6XZA_0501/A1/1061:1063,
1/A1/1193:1195		Isolated non-canonical cWW pair
homologous
IL_5J7L_050
NA
IL_6XZA_0511/A1/1124:1128,
1/A1/1144:1149		No text annotation
homologous
IL_5J7L_051
NA
IL_6XZA_0521/A1/1129:1132,
1/A1/1142:1143		Minor groove platform
homologous
IL_5J7L_052
NA
IL_6XZA_0531/A1/1158:1161,
1/A1/1175:1181		No text annotation
homologous
IL_5J7L_053
NA
IL_6XZA_0541/A1/1247:1253,
1/A1/1284:1290		No text annotation
homologous
IL_5J7L_054
NA
IL_6XZA_0551/A1/1255:1258,
1/A1/1277:1282		180 degree turn
homologous
IL_5J7L_055
NA
IL_6XZA_0561/A1/1259:1263,
1/A1/1272:1276		Double sheared with non-canonical cWW
homologous
IL_5J7L_056
NA
IL_6XZA_0571/A1/1303:1308,
1/A1/1329:1334		No text annotation
homologous
IL_5J7L_057
NA
IL_6XZA_0581/A1/1399:1401,
1/A1/1501:1504		No text annotation
homologous
IL_5J7L_058
NA
IL_6XZA_0611/A1/1412:1414,
1/A1/1486:1488		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
NA
IL_6XZA_0621/A1/1416:1419,
1/A1/1481:1484		Double sheared
homologous
IL_5J7L_062
NA
IL_6XZA_0631/A1/1430:1435,
1/A1/1466:1470		Triple sheared related
homologous
IL_5J7L_063
NA
IL_6XZA_0641/A1/1440:1442,
1/A1/1460:1461		Single bulged A
homologous
IL_5J7L_064
NA
IL_6XZA_0651/A1/1445:1448,
1/A1/1455:1457		No text annotation
homologous
IL_5J7L_065
NA
IL_6XZA_0661/A2/24:30,
1/A2/510:516		Triple sheared with non-canonical cWW
geometric
IL_5J7L_245
NA
IL_6XZA_0671/A2/36:37,
1/A2/442:444		Single bulged A
homologous
IL_7RQB_002
NA
IL_6XZA_0681/A2/43:44,
1/A2/434:436		Minor groove platform
homologous
IL_5J7L_247
NA
IL_6XZA_0691/A2/81:85,
1/A2/97:105		No text annotation
homologous
IL_5J7L_248
NA
IL_6XZA_0701/A2/183:184,
1/A2/212:214		Single stack bend
homologous
IL_5J7L_249
NA
IL_6XZA_0711/A2/188:194,
1/A2/201:208		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_250
NA
IL_6XZA_0721/A2/239:245,
1/A2/253:258		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_251
NA
IL_6XZA_0731/A2/269:271,
1/A2/366:370		No text annotation
homologous
IL_5J7L_252
NA
IL_6XZA_0751/A2/293:295,
1/A2/343:347		No text annotation
homologous
IL_5J7L_254
NA
IL_6XZA_0761/A2/481:484,
1/A2/496:509		No text annotation
homologous
IL_5J7L_255
NA
IL_6XZA_0771/A2/536:539,
1/A2/554:557		Double sheared
homologous
IL_5J7L_256
NA
IL_6XZA_0781/A2/564:566,
1/A2/575:577		Isolated non-canonical cWW pair
homologous
IL_5J7L_257
NA
IL_6XZA_0791/A2/606:610,
1/A2/618:622		AAA cross-strand stack
homologous
IL_5J7L_258
NA
IL_6XZA_0801/A2/672:674,
1/A2/806:808		No text annotation
homologous
IL_7RQB_017
NA
IL_6XZA_0811/A2/674:678,
1/A2/799:806		tHW-tHW cross-strand stack
geometric
IL_5J7L_260
NA
IL_6XZA_0821/A2/697:698,
1/A2/763:765		Single bulged A
geometric
IL_5J7L_261
NA
IL_6XZA_0831/A2/702:703,
1/A2/728:730		Single bulged G
homologous
IL_5J7L_262
NA
IL_6XZA_0841/A2/703:707,
1/A2/724:728		Triple sheared
geometric
IL_7RQB_021
NA
IL_6XZA_0851/A2/738:740,
1/A2/757:758		Major groove platform
homologous
IL_5J7L_264
NA
IL_6XZA_0861/A2/775:777,
1/A2/787:791		Multiple bulged bases
geometric
IL_5J7L_265
NA
IL_6XZA_0871/A2/844:847,
1/A2/933:934		90 degree turn
homologous
IL_5J7L_267
NA
IL_6XZA_1841/A2/844:848,
1/A2/930:934		No text annotation
geometric
IL_5J7L_399
NA
IL_6XZA_0881/A2/847:848,
1/A2/930:933		Stack outside cWW
homologous
IL_5J7L_268
NA
IL_6XZA_0891/A2/850:851,
1/A2/926:928		Single stack bend
homologous
IL_5J7L_269
NA
IL_6XZA_0901/A2/856:862,
1/A2/915:921		7x7 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_5J7L_270
NA
IL_6XZA_0911/A2/862:863,
1/A2/913:915		Single bulged G
homologous
IL_5J7L_271
NA
IL_6XZA_0921/A2/864:868,
1/A2/909:912		C-loop with bulged stacked A's
homologous
IL_5J7L_272
NA
IL_6XZA_0931/A2/870:872,
1/A2/905:907		Isolated non-canonical cWW pair
homologous
IL_5J7L_273
NA
IL_6XZA_0941/A2/875:879,
1/A2/898:902		Double sheared with non-canonical cWW
homologous
IL_5J7L_274
NA
IL_6XZA_0951/A2/994:996,
1/A2/1159:1160		Single bulged C
homologous
IL_5J7L_276
NA
IL_6XZA_0961/A2/998:1002,
1/A2/1153:1157		UAA/GAN
homologous
IL_4WF9_036
IL_08938.1
IL_6XZA_0971/A2/1004:1011,
1/A2/1150:1151		SSU/LSU pseudoknot
homologous
IL_5J7L_278
NA
IL_6XZA_0981/A2/1011:1013,
1/A2/1149:1150		Single bulged U
geometric
IL_5J7L_279
NA
IL_6XZA_0991/A2/1018:1024,
1/A2/1140:1144		Kink-turn related
geometric
IL_5J7L_280
NA
IL_6XZA_1001/A2/1024:1030,
1/A2/1124:1140		No text annotation
geometric
IL_5J7L_281
NA
IL_6XZA_1011/A2/1031:1034,
1/A2/1121:1123		Isolated non-canonical cWW pair
homologous
IL_7RQB_041
NA
IL_6XZA_1021/A2/1038:1041,
1/A2/1114:1117		Tandem non-canonical cWW pairs
homologous
IL_5J7L_283
NA
IL_6XZA_1031/A2/1043:1051,
1/A2/1108:1112		Kink-turn
homologous
IL_5J7L_284
NA
IL_6XZA_1061/A2/1196:1198,
1/A2/1247:1250		Isolated cWS basepair
homologous
IL_5J7L_286
NA
IL_6XZA_1071/A2/1202:1206,
1/A2/1240:1243		No text annotation
homologous
IL_5J7L_287
NA
IL_6XZA_1081/A2/1208:1215,
1/A2/1234:1238		Kink-turn
homologous
IL_5J7L_288
NA
IL_6XZA_1091/A2/1262:1269,
1/A2/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
NA
IL_6XZA_1101/A2/1310:1313,
1/A2/1603:1604		Major groove platform; stack outside cWW
homologous
IL_5J7L_290
NA
IL_6XZA_1111/A2/1319:1323,
1/A2/1331:1333		C-loop
homologous
IL_5J7L_291
NA
IL_6XZA_1121/A2/1351:1355,
1/A2/1376:1380		UAA/GAN
homologous
IL_5J7L_292
NA
IL_6XZA_1131/A2/1357:1361,
1/A2/1370:1374		tSH-tHW-tHS
homologous
IL_5J7L_293
NA
IL_6XZA_1141/A2/1415:1416,
1/A2/1582:1587		No text annotation
homologous
IL_5J7L_294
NA
IL_6XZA_1151/A2/1417:1421,
1/A2/1577:1581		UAA/GAN
homologous
IL_5J7L_295
NA
IL_6XZA_1161/A2/1432:1435,
1/A2/1557:1561		Tandem non-canonical cWW pairs
homologous
IL_5J7L_296
NA
IL_6XZA_1171/A2/1437:1440,
1/A2/1551:1555		tSH-tHW
homologous
IL_5J7L_297
NA
IL_6XZA_1181/A2/1450:1451,
1/A2/1459:1461		Single bulged U
geometric
IL_5J7L_298
NA
IL_6XZA_1191/A2/1468:1471,
1/A2/1520:1524		No text annotation
homologous
IL_5J7L_299
NA
IL_6XZA_1201/A2/1474:1478,
1/A2/1513:1517		tSH-tHW-tHS
homologous
IL_5J7L_300
NA
IL_6XZA_1211/A2/1481:1482,
1/A2/1507:1510		180 degree turn
homologous
IL_5J7L_301
NA
IL_6XZA_1221/A2/1489:1491,
1/A2/1499:1500		Single bulged A
homologous
IL_5J7L_302
NA
IL_6XZA_1231/A2/1526:1529,
1/A2/1542:1546		UAA/GAN variation
homologous
IL_5J7L_303
NA
IL_6XZA_1241/A2/1651:1656,
1/A2/2004:2006		No text annotation
homologous
IL_5J7L_304
NA
IL_6XZA_1251/A2/1663:1665,
1/A2/1995:1997		Isolated tWW turn
homologous
IL_5J7L_305
NA
IL_6XZA_1261/A2/1666:1669,
1/A2/1993:1994		Major groove platform; stack outside cWW
geometric
IL_5J7L_306
NA
IL_6XZA_1861/A2/1666:1674,
1/A2/1990:1994		No text annotation
homologous
IL_5J7L_386
NA
IL_6XZA_1271/A2/1669:1674,
1/A2/1990:1993		Intercalated tWH
homologous
IL_5J7L_307
NA
IL_6XZA_1281/A2/1686:1691,
1/A2/1696:1702		tSH-tSH-tHH-tHS
geometric
IL_5J7L_308
NA
IL_6XZA_1291/A2/1712:1718,
1/A2/1742:1746		6x5 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_309
NA
IL_6XZA_1301/A2/1720:1724,
1/A2/1736:1740		Triple sheared
homologous
IL_5J7L_310
NA
IL_6XZA_1311/A2/1727:1728,
1/A2/1731:1733		Single bulged C
homologous
IL_5J7L_311
NA
IL_6XZA_1321/A2/1770:1771,
1/A2/1980:1982		Single bulged A
homologous
IL_5J7L_312
NA
IL_6XZA_1331/A2/1798:1804,
1/A2/1813:1821		Kink-turn related
homologous
IL_5J7L_313
NA
IL_6XZA_1341/A2/1837:1840,
1/A2/1902:1903		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
NA
IL_6XZA_1351/A2/1841:1842,
1/A2/1898:1901		Major groove intercalation
homologous
IL_5J7L_315
NA
IL_6XZA_1361/A2/1846:1849,
1/A2/1893:1894		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_316
NA
IL_6XZA_1871/A2/1851:1860,
1/A2/1882:1891		No text annotation
homologous
IL_5J7L_387
NA
IL_6XZA_1371/A2/1864:1867,
1/A2/1874:1878		UAA/GAN related
homologous
IL_5J7L_317
NA
IL_6XZA_1381/A2/1933:1934,
1/A2/1964:1967		Bulged stacked bases
homologous
IL_5J7L_318
NA
IL_6XZA_1391/A2/1934:1945,
1/A2/1961:1964		No text annotation
geometric
IL_7A0S_072
IL_04332.3
IL_6XZA_1401/A2/2050:2052,
1/A2/2617:2618		Major groove platform
homologous
IL_5J7L_320
NA
IL_6XZA_1411/A2/2054:2056,
1/A2/2612:2615		No text annotation
homologous
IL_5J7L_321
NA
IL_6XZA_1881/A2/2067:2069,
1/A2/2442:2443		Single bulged U
homologous
IL_7A0S_075
IL_97561.2
IL_6XZA_1441/A2/2070:2071,
1/A2/2438:2441		Minor groove platform
homologous
IL_7RQB_081
NA
IL_6XZA_1451/A2/2081:2083,
1/A2/2236:2239		Isolated tHS basepair with bulges
homologous
IL_5J7L_325
NA
IL_6XZA_1461/A2/2085:2087,
1/A2/2232:2234		Isolated non-canonical cWW pair
homologous
IL_5J7L_326
NA
IL_6XZA_1511/A2/2202:2204,
1/A2/2220:2221		Single bulged U
homologous
IL_5J7L_331
NA
IL_6XZA_1521/A2/2297:2299,
1/A2/2317:2321		No text annotation
geometric
IL_5J7L_332
NA
IL_6XZA_1531/A2/2350:2353,
1/A2/2364:2367		Double sheared
homologous
IL_5J7L_333
NA
IL_6XZA_1541/A2/2401:2403,
1/A2/2414:2415		Single bulged U
homologous
IL_5J7L_334
NA
IL_6XZA_1911/A2/2453:2454,
1/A2/2498:2500		Single stack bend
homologous
IL_5J7L_391
NA
IL_6XZA_1921/A2/2454:2455,
1/A2/2496:2498		Major groove platform
homologous
IL_9DFE_092
IL_48076.8
IL_6XZA_1931/A2/2457:2459,
1/A2/2493:2494		Major groove platform
homologous
IL_5J7L_393
NA
IL_6XZA_1571/A2/2459:2461,
1/A2/2489:2493		Major groove minor groove platform with extra cWW
geometric
IL_5J7L_337
NA
IL_6XZA_1581/A2/2466:2470,
1/A2/2480:2484		Double sheared with non-canonical cWW
homologous
IL_5J7L_338
NA
IL_6XZA_1941/A2/2507:2508,
1/A2/2580:2582		Major groove platform
homologous
IL_5J7L_394
NA
IL_6XZA_1601/A2/2510:2512,
1/A2/2574:2578		Isolated non-canonical cWW with bulges
homologous
IL_5J7L_340
NA
IL_6XZA_1611/A2/2512:2513,
1/A2/2571:2574		No text annotation
geometric
IL_5J7L_341
NA
IL_6XZA_1621/A2/2522:2523,
1/A2/2540:2543		Major groove platform with intercalation
homologous
IL_5J7L_342
NA
IL_6XZA_1641/A2/2591:2592,
1/A2/2601:2603		Single bulged A
homologous
IL_7RQB_101
NA
IL_6XZA_1651/A2/2636:2640,
1/A2/2774:2782		tSH-tHS-tHW
homologous
IL_5J7L_345
NA
IL_6XZA_1661/A2/2652:2658,
1/A2/2663:2668		Sarcin-Ricin target in LSU H95; G-bulge
geometric
IL_5J7L_346
NA
IL_6XZA_1671/A2/2680:2684,
1/A2/2725:2727		C-loop
homologous
IL_5J7L_347
NA
IL_6XZA_1681/A2/2687:2691,
1/A2/2718:2722		UAA/GAN related, with intercalation
homologous
IL_5J7L_348
NA
IL_6XZA_1691/A2/2695:2696,
1/A2/2711:2714		Multiple bulged bases
homologous
IL_5J7L_349
NA
IL_6XZA_1701/A2/2737:2742,
1/A2/2762:2767		UAA/GAN with extra cWW
homologous
IL_5J7L_350
NA
IL_6XZA_1711/A2/2806:2811,
1/A2/2889:2892		No text annotation
geometric
IL_5J7L_351
NA
IL_6XZA_1721/A2/2838:2839,
1/A2/2878:2880		Major groove intercalation
homologous
IL_5J7L_352
NA
IL_6XZA_1731/A2/2843:2846,
1/A2/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
NA
IL_6XZA_1741/A2/2847:2852,
1/A2/2865:2869		tHS double platform
homologous
IL_5J7L_354
NA
IL_6XZA_1751/B2/17:18,
1/B2/65:67		Major groove intercalation
homologous
IL_5J7L_355
NA
IL_6XZA_1761/B2/23:28,
1/B2/56:60		No text annotation
homologous
IL_5J7L_356
NA
IL_6XZA_1771/B2/30:31,
1/B2/51:54		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_357
NA
IL_6XZA_1781/B2/34:38,
1/B2/44:48		Symmetric double minor groove platform
geometric
IL_5J7L_358
NA
IL_6XZA_1791/B2/71:79,
1/B2/97:105		Bacterial 5S Loop E
homologous
IL_5J7L_359
NA

Problematic loops

#loop idProblemSequence
IL_6XZA_002Single bulged A
IL_6XZA_004Minor groove platform
IL_6XZA_007Minor groove platform
IL_6XZA_008Major groove intercalation
IL_6XZA_013No text annotation
IL_6XZA_015No text annotation
IL_6XZA_017Single bulged U
IL_6XZA_018C-loop
IL_6XZA_019Single bulged G
IL_6XZA_020No text annotation
IL_6XZA_021No text annotation
IL_6XZA_022tSH-tHW-tWW
IL_6XZA_023No text annotation
IL_6XZA_025Kink-turn related
IL_6XZA_034No text annotation
IL_6XZA_183No text annotation
IL_6XZA_046No text annotation
IL_6XZA_059No text annotation
IL_6XZA_060No text annotation
IL_6XZA_074No text annotation
IL_6XZA_104No text annotation
IL_6XZA_185Major groove platform
IL_6XZA_105No text annotation
IL_6XZA_142No text annotation
IL_6XZA_143Isolated non-canonical cWW pair
IL_6XZA_147No text annotation
IL_6XZA_189No text annotation
IL_6XZA_195No text annotation
IL_6XZA_148No text annotation
IL_6XZA_190Kink-turn
IL_6XZA_149Kink-turn related
IL_6XZA_150Kink-turn
IL_6XZA_155No text annotation
IL_6XZA_156No text annotation
IL_6XZA_159No text annotation
IL_6XZA_163Tandem non-canonical cWW pairs

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6XZA_0011/A1/46:47,
1/A1/361:367,
1/A1/393:395		No text annotation
homologous
J3_5J7L_001
NA
J3_6XZA_0271/A1/46:52,
1/A1/359:367,
1/A1/393:395		No text annotation
homologous
J3_5J7L_050
NA
J3_6XZA_0021/A1/586:588,
1/A1/651:654,
1/A1/754:755		No text annotation
homologous
J3_5J7L_002
NA
J3_6XZA_0281/A1/586:588,
1/A1/651:655,
1/A1/751:755		No text annotation
homologous
J3_5J7L_051
NA
J3_6XZA_0031/A1/672:673,
1/A1/717:725,
1/A1/732:734		No text annotation
homologous
J3_5J7L_003
NA
J3_6XZA_0041/A1/826:829,
1/A1/857:861,
1/A1/868:874		No text annotation
homologous
J3_5J7L_004
NA
J3_6XZA_0051/A1/936:939,
1/A1/1344:1350,
1/A1/1372:1379		No text annotation
homologous
J3_4LFB_002
J3_85722.1
J3_6XZA_0061/A1/943:946,
1/A1/1235:1237,
1/A1/1337:1340		No text annotation
homologous
J3_4LFB_003
J3_44359.1
J3_6XZA_0071/A1/955:962,
1/A1/973:984,
1/A1/1221:1225		No text annotation
homologous
J3_5J7L_006
NA
J3_6XZA_0081/A1/990:993,
1/A1/1045:1047,
1/A1/1210:1215		No text annotation
homologous
J3_5J7L_007
NA
J3_6XZA_0291/A1/990:997,
1/A1/1044:1047,
1/A1/1210:1215		No text annotation
homologous
J3_5J7L_053
NA
J3_6XZA_0091/A1/1063:1068,
1/A1/1107:1113,
1/A1/1187:1193		No text annotation
homologous
J3_5J7L_008
NA
J3_6XZA_0371/A1/1073:1074,
1/A1/1083:1086,
1/A1/1099:1102		No text annotation
homologous
J3_4LFB_017
J3_11018.1
J3_6XZA_0111/A1/1116:1118,
1/A1/1155:1158,
1/A1/1181:1184		No text annotation
homologous
J3_5J7L_010
NA
J3_6XZA_0301/A1/1116:1118,
1/A1/1155:1161,
1/A1/1175:1184		No text annotation
homologous
J3_5J7L_054
NA
J3_6XZA_0121/A1/1237:1241,
1/A1/1296:1303,
1/A1/1334:1337		No text annotation
homologous
J3_5J7L_011
NA
J3_6XZA_0131/A2/30:31,
1/A2/474:481,
1/A2/509:510		No text annotation
homologous
J3_7RQB_001
NA
J3_6XZA_0311/A2/30:31,
1/A2/474:484,
1/A2/496:510		No text annotation
homologous
J3_9DFE_002
J3_17917.1
J3_6XZA_0321/A2/32:35,
1/A2/445:461,
1/A2/468:473		No text annotation
homologous
J3_5J7L_067
NA
J3_6XZA_0141/A2/56:57,
1/A2/70:76,
1/A2/110:114		No text annotation
homologous
J3_5J7L_037
NA
J3_6XZA_0331/A2/297:301,
1/A2/316:325,
1/A2/337:341		No text annotation
homologous
J3_5J7L_068
NA
J3_6XZA_0151/A2/683:689,
1/A2/773:775,
1/A2/791:794		No text annotation
homologous
J3_5J7L_038
NA
J3_6XZA_0161/A2/698:700,
1/A2/732:736,
1/A2/760:763		No text annotation
homologous
J3_7RQB_005
NA
J3_6XZA_0181/A2/1298:1303,
1/A2/1625:1627,
1/A2/1639:1642		No text annotation
homologous
J3_5J7L_041
NA
J3_6XZA_0191/A2/1306:1309,
1/A2/1605:1611,
1/A2/1620:1622		No text annotation
homologous
J3_7RQB_008
NA
J3_6XZA_0201/A2/1344:1349,
1/A2/1382:1385,
1/A2/1402:1403		No text annotation
homologous
J3_5J7L_043
NA
J3_6XZA_0341/A2/1424:1429,
1/A2/1564:1565,
1/A2/1568:1574		No text annotation
homologous
J3_5J7L_069
NA
J3_6XZA_0211/A2/2091:2093,
1/A2/2196:2200,
1/A2/2223:2228		Kink-turn 3-way junction
homologous
J3_5J7L_044
NA
J3_6XZA_0351/A2/2282:2284,
1/A2/2384:2395,
1/A2/2421:2427		No text annotation
homologous
J3_5J7L_070
NA
J3_6XZA_0221/A2/2295:2297,
1/A2/2321:2323,
1/A2/2332:2337		No text annotation
homologous
J3_5J7L_045
NA
J3_6XZA_0361/A2/2295:2299,
1/A2/2317:2323,
1/A2/2332:2337		No text annotation
homologous
J3_5J7L_071
NA
J3_6XZA_0231/A2/2517:2520,
1/A2/2545:2547,
1/A2/2561:2567		No text annotation
homologous
J3_5J7L_046
NA
J3_6XZA_0241/A2/2789:2791,
1/A2/2805:2806,
1/A2/2892:2894		No text annotation
homologous
J3_5J7L_047
NA
J3_6XZA_0251/A2/2812:2815,
1/A2/2831:2836,
1/A2/2882:2888		No text annotation
homologous
J3_5J7L_048
NA
J3_6XZA_0261/B2/10:16,
1/B2/68:70,
1/B2/106:110		No text annotation
homologous
J3_5J7L_049
NA
J4_6XZA_0011/A1/115:122,
1/A1/239:240,
1/A1/286:289,
1/A1/311:312		No text annotation
homologous
J4_5J7L_001
NA
J4_6XZA_0031/A1/575:577,
1/A1/764:769,
1/A1/810:821,
1/A1/879:880		No text annotation
homologous
J4_5J7L_003
NA
J4_6XZA_0041/A2/268:269,
1/A2/370:375,
1/A2/399:406,
1/A2/421:424		No text annotation
homologous
J4_5J7L_018
NA
J4_6XZA_0051/A2/297:301,
1/A2/316:319,
1/A2/323:325,
1/A2/337:341		No text annotation
homologous
J4_5J7L_019
NA
J4_6XZA_0061/A2/601:604,
1/A2/624:628,
1/A2/635:638,
1/A2/650:656		No text annotation
homologous
J4_5J7L_020
NA
J4_6XZA_0071/A2/1270:1276,
1/A2/1294:1295,
1/A2/1645:1648,
1/A2/2009:2010		No text annotation
homologous
J4_5J7L_021
NA
J4_6XZA_0081/A2/1310:1314,
1/A2/1338:1343,
1/A2/1404:1405,
1/A2/1597:1604		No text annotation
homologous
J4_5J7L_022
NA
J4_6XZA_0091/A2/1313:1314,
1/A2/1338:1343,
1/A2/1404:1405,
1/A2/1597:1603		No text annotation
homologous
J4_5J7L_023
NA
J4_6XZA_0101/A2/1444:1445,
1/A2/1466:1467,
1/A2/1525:1526,
1/A2/1546:1547		No text annotation
homologous
J4_5J7L_024
NA
J4_6XZA_0111/A2/1772:1776,
1/A2/1788:1792,
1/A2/1827:1830,
1/A2/1975:1979		No text annotation
homologous
J4_5J7L_025
NA
J4_6XZA_0121/A2/1833:1835,
1/A2/1905:1906,
1/A2/1924:1933,
1/A2/1967:1972		No text annotation
homologous
J4_9DFE_008
J4_42306.1
J4_6XZA_0131/A2/2285:2289,
1/A2/2343:2347,
1/A2/2370:2372,
1/A2/2381:2383		No text annotation
homologous
J4_5J7L_027
NA
J4_6XZA_0141/A2/2643:2646,
1/A2/2674:2676,
1/A2/2731:2735,
1/A2/2769:2771		No text annotation
homologous
J4_5J7L_028
NA
J4_6XZA_0151/f2/7:10,
1/f2/25:27,
1/f2/43:49,
1/f2/65:66		tRNA junction
homologous
J4_9DFC_015
NA
J5_6XZA_0031/A1/58:61,
1/A1/106:113,
1/A1/314:316,
1/A1/337:339,
1/A1/350:354		No text annotation
homologous
J5_5J7L_003
NA
J5_6XZA_0041/A2/47:54,
1/A2/116:121,
1/A2/130:131,
1/A2/148:150,
1/A2/176:178		No text annotation
homologous
J5_5J7L_013
NA
J5_6XZA_0051/A2/531:533,
1/A2/560:564,
1/A2/577:579,
1/A2/1261:1262,
1/A2/2017:2018		No text annotation
homologous
J5_5J7L_014
NA
J5_6XZA_0061/A2/584:589,
1/A2/668:671,
1/A2/809:812,
1/A2/1195:1196,
1/A2/1250:1256		No text annotation
homologous
J5_5J7L_015
NA
J5_6XZA_0071/A2/1674:1682,
1/A2/1706:1707,
1/A2/1751:1752,
1/A2/1756:1764,
1/A2/1988:1990		No text annotation
homologous
J5_5J7L_016
NA
J5_6XZA_0081/A2/2057:2064,
1/A2/2446:2453,
1/A2/2500:2507,
1/A2/2582:2588,
1/A2/2606:2611		No text annotation
J5_6XZA_0091/A2/2074:2077,
1/A2/2243:2246,
1/A2/2258:2259,
1/A2/2281:2282,
1/A2/2427:2435		No text annotation
J6_6XZA_0011/A2/45:46,
1/A2/179:183,
1/A2/214:224,
1/A2/231:235,
1/A2/262:266,
1/A2/426:433		No text annotation
J6_6XZA_0021/A2/2074:2077,
1/A2/2243:2246,
1/A2/2258:2259,
1/A2/2281:2284,
1/A2/2384:2395,
1/A2/2421:2435		No text annotation
J7_6XZA_0011/A2/8:15,
1/A2/525:531,
1/A2/2018:2023,
1/A2/2040:2043,
1/A2/2625:2630,
1/A2/2788:2789,
1/A2/2894:2895		No text annotation
J7_6XZA_0021/A2/817:822,
1/A2/835:838,
1/A2/940:946,
1/A2/971:976,
1/A2/987:991,
1/A2/1163:1164,
1/A2/1185:1190		No text annotation

Problematic loops

#loop idProblemSequence
J3_6XZA_010No text annotation
J3_6XZA_017No text annotation
J4_6XZA_002No text annotation
J5_6XZA_001No text annotation
J5_6XZA_002No text annotation

Coloring options:
Copyright 2025 BGSU RNA group. Page generated in 0.0816 s