RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6WNW_0011/3/12:22No text annotation
homologous
HL_5J7L_001
NA
HL_6WNW_0061/3/259:267GNRA related
homologous
HL_5J7L_006
NA
HL_6WNW_0071/3/296:301GNRA
homologous
HL_5J7L_007
NA
HL_6WNW_0081/3/320:333No text annotation
homologous
HL_4LFB_008
HL_39665.1
HL_6WNW_0091/3/342:347UNCG
homologous
HL_4LFB_009
HL_61337.3
HL_6WNW_0111/3/419:424No text annotation
geometric
HL_4V88_198
NA
HL_6WNW_0131/3/522:527No text annotation
geometric
HL_2Y8W_001
HL_40612.1
HL_6WNW_0141/3/617:623GNRA-like with tWH
homologous
HL_5J7L_014
NA
HL_6WNW_0151/3/689:698No text annotation
homologous
HL_4LFB_015
HL_38491.2
HL_6WNW_0161/3/726:731GNRA
homologous
HL_5J7L_016
NA
HL_6WNW_0171/3/786:796No text annotation
homologous
HL_4LFB_017
HL_38491.2
HL_6WNW_0191/3/862:867GNRA
homologous
HL_5J7L_019
NA
HL_6WNW_0201/3/897:902GNRA
homologous
HL_4LFB_020
HL_34789.4
HL_6WNW_0211/3/963:972No text annotation
homologous
HL_5J7L_021
NA
HL_6WNW_0221/3/1012:1017GNRA
homologous
HL_4LFB_022
HL_34789.4
HL_6WNW_0241/3/1076:1081GNRA
homologous
HL_5J7L_023
NA
HL_6WNW_0251/3/1089:1096T-loop related
homologous
HL_4LFB_025
HL_63894.2
HL_6WNW_0261/3/1134:1140No text annotation
homologous
HL_6CZR_097
NA
HL_6WNW_0271/3/1165:1171GNRA
homologous
HL_4LFB_027
HL_34789.4
HL_6WNW_0281/3/1265:1270GNRA
homologous
HL_5J7L_027
NA
HL_6WNW_0291/3/1314:1323T-loop with 3 stacked bulged bases
homologous
HL_5J7L_028
NA
HL_6WNW_0301/3/1356:1366No text annotation
homologous
HL_4LFB_030
HL_86432.1
HL_6WNW_0311/3/1449:1454UNCG
homologous
HL_5J7L_030
NA
HL_6WNW_0321/3/1515:1520GNRA
homologous
HL_6CZR_103
NA
HL_6WNW_0331/4/59:68Pseudoknot geometry
geometric
HL_4GXY_003
HL_97725.1
HL_6WNW_0341/4/87:95No text annotation
geometric
HL_5J7L_135
NA
HL_6WNW_0351/4/123:128No text annotation
geometric
HL_7RQB_003
NA
HL_6WNW_1121/4/137:142No text annotation
HL_6WNW_0371/4/158:168No text annotation
geometric
HL_5J7L_138
NA
HL_6WNW_0381/4/194:201No text annotation
geometric
HL_5J7L_139
NA
HL_6WNW_0391/4/225:230No text annotation
geometric
HL_5J7L_140
NA
HL_6WNW_0401/4/246:252No text annotation
geometric
HL_5J7L_141
NA
HL_6WNW_0411/4/305:312T-loop with 2 stacked bulged bases
geometric
HL_5J7L_142
NA
HL_6WNW_0421/4/327:335T-loop with unstacked turn
geometric
HL_5J7L_144
NA
HL_6WNW_0431/4/382:392No text annotation
geometric
HL_5J7L_145
NA
HL_6WNW_0441/4/410:417Pseudoknot geometry
geometric
HL_5J7L_146
NA
HL_6WNW_0451/4/462:467GNRA
geometric
HL_5TBW_064
NA
HL_6WNW_0461/4/487:493GNRA
geometric
HL_5J7L_148
NA
HL_6WNW_0471/4/544:549No text annotation
geometric
HL_5U3G_001
HL_75660.7
HL_6WNW_0481/4/566:575T-loop with 2 stacked bulged bases
geometric
HL_5J7L_150
NA
HL_6WNW_0491/4/611:617No text annotation
geometric
HL_5J7L_151
NA
HL_6WNW_0501/4/629:634GNRA
geometric
HL_5J7L_152
NA
HL_6WNW_0511/4/641:647No text annotation
geometric
HL_5J7L_153
NA
HL_6WNW_0521/4/712:719GNRA wlth tandem sheared
geometric
HL_5J7L_154
NA
HL_6WNW_0531/4/744:753No text annotation
geometric
HL_4WF9_023
HL_50204.1
HL_6WNW_0541/4/779:785No text annotation
geometric
HL_5U3G_001
HL_75660.7
HL_6WNW_0551/4/826:831No text annotation
geometric
HL_7RQB_025
NA
HL_6WNW_0571/4/955:962GNRA
geometric
HL_7A0S_026
HL_34789.4
HL_6WNW_0581/4/978:985No text annotation
geometric
HL_5TBW_006
NA
HL_6WNW_1091/4/1100:1114No text annotation
homologous
HL_5J7L_215
NA
HL_6WNW_0601/4/1104:1110No text annotation
homologous
HL_5J7L_203
NA
HL_6WNW_1101/4/1296:1309No text annotation
HL_6WNW_0631/4/1299:1306No text annotation
HL_6WNW_0641/4/1350:1355GNRA
geometric
HL_5J7L_164
NA
HL_6WNW_0651/4/1409:1417T-loop with 2 stacked bulged bases
geometric
HL_5J7L_165
NA
HL_6WNW_0661/4/1452:1458Pseudoknot geometry with 3' bulge
geometric
HL_5J7L_166
NA
HL_6WNW_0671/4/1491:1496GNRA
geometric
HL_5J7L_167
NA
HL_6WNW_0681/4/1517:1526No text annotation
geometric
HL_4V9F_037
HL_77449.1
HL_6WNW_0691/4/1579:1587Mini UNCG
geometric
HL_4V9F_041
HL_90436.3
HL_6WNW_0701/4/1620:1626Pseudoknot geometry with 3' bulge
geometric
HL_5J7L_170
NA
HL_6WNW_0721/4/1693:1696No text annotation
geometric
HL_7RQB_039
NA
HL_6WNW_0731/4/1740:1747No text annotation
geometric
HL_7RQB_040
NA
HL_6WNW_0741/4/1758:1764GNRA
geometric
HL_5J7L_174
NA
HL_6WNW_0751/4/1819:1824UNCG
geometric
HL_4PMI_004
HL_61337.3
HL_6WNW_0761/4/1855:1861No text annotation
geometric
HL_361D_002
NA
HL_6WNW_0771/4/1880:1884No text annotation
geometric
HL_5J7L_177
NA
HL_6WNW_0781/4/1905:1915No text annotation
geometric
HL_5J7L_178
NA
HL_6WNW_0791/4/1934:1939GNRA related
geometric
HL_5J7L_179
NA
HL_6WNW_0801/4/1996:2001GNRA related
geometric
HL_5J7L_179
NA
HL_6WNW_0811/4/2038:2048No text annotation
geometric
HL_5TBW_049
NA
HL_6WNW_0821/4/2077:2085No text annotation
geometric
HL_7RQB_049
NA
HL_6WNW_0831/4/2155:2164No text annotation
geometric
HL_4WF9_047
HL_78372.1
HL_6WNW_0841/4/2270:2277No text annotation
geometric
HL_8C3A_039
NA
HL_6WNW_0851/4/2337:2343No text annotation
geometric
HL_5J7L_185
NA
HL_6WNW_0861/4/2376:2384No text annotation
geometric
HL_7A0S_052
HL_11974.2
HL_6WNW_0871/4/2392:2404No text annotation
geometric
HL_5J7L_187
NA
HL_6WNW_1131/4/2432:2440No text annotation
geometric
HL_5J7L_219
NA
HL_6WNW_0891/4/2452:2459Pseudoknot geometry
geometric
HL_5J7L_189
NA
HL_6WNW_0901/4/2484:2489GNRA
geometric
HL_5J7L_190
NA
HL_6WNW_0911/4/2502:2507GNRA
geometric
HL_7RQB_020
NA
HL_6WNW_0921/4/2532:2541No text annotation
geometric
HL_5J7L_192
NA
HL_6WNW_0931/4/2599:2607No text annotation
geometric
HL_4WF9_056
HL_52011.1
HL_6WNW_0941/4/2656:2663GNRA variation
geometric
HL_5J7L_194
NA
HL_6WNW_0951/4/2679:2685No text annotation
geometric
HL_5TBW_063
NA
HL_6WNW_0961/4/2722:2727GNRA
geometric
HL_5J7L_027
NA
HL_6WNW_0971/4/2786:2791GNRA
geometric
HL_7RQB_064
NA
HL_6WNW_0981/4/2829:2834Ribsomal LSU H95
geometric
HL_5J7L_198
NA
HL_6WNW_0991/4/2873:2887No text annotation
geometric
HL_5J7L_199
NA
HL_6WNW_1011/4/2947:2955No text annotation
geometric
HL_5J7L_201
NA
HL_6WNW_1021/4/2984:2989GNRA
geometric
HL_5J7L_202
NA
HL_6WNW_1031/5/13:22tRNA D-loop
homologous
HL_1QF6_001
HL_20490.1
HL_6WNW_1041/5/31:39tRNA anticodon loop
homologous
HL_6CFJ_107
HL_81376.3
HL_6WNW_1051/5/53:61T-loop with 2 stacked bulged bases
homologous
HL_3WQY_003
HL_33597.3
HL_6WNW_1071/7/31:39tRNA anticodon loop
homologous
HL_5IBB_210
HL_81376.3
HL_6WNW_1081/7/53:61T-loop with 2 stacked bulged bases
homologous
HL_3WQY_003
HL_33597.3

Problematic loops

#loop idProblemSequence
HL_6WNW_002No text annotation
HL_6WNW_111No text annotation
HL_6WNW_003GNRA
HL_6WNW_004GNRA
HL_6WNW_005No text annotation
HL_6WNW_010GNRA
HL_6WNW_012GNRA wlth extra near cWW
HL_6WNW_018Externally structured
HL_6WNW_023No text annotation
HL_6WNW_036No text annotation
HL_6WNW_056Externally structured
HL_6WNW_059No text annotation
HL_6WNW_061Externally structured
HL_6WNW_062No text annotation
HL_6WNW_071UNCG
HL_6WNW_088No text annotation
HL_6WNW_100UNCG variation
HL_6WNW_106No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6WNW_0011/3/30:32,
1/3/552:553		Single bulged G
homologous
IL_6CZR_113
NA
IL_6WNW_0021/3/44:45,
1/3/396:398		Single bulged A
homologous
IL_5J7L_002
NA
IL_6WNW_0031/3/47:52,
1/3/359:361		No text annotation
geometric
IL_5J7L_003
NA
IL_6WNW_0041/3/54:56,
1/3/356:357		Minor groove platform
homologous
IL_4LFB_004
IL_34520.3
IL_6WNW_1901/3/63:66,
1/3/103:104		Multiple bulged bases
homologous
IL_4LFB_005
IL_71421.2
IL_6WNW_0061/3/67:69,
1/3/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
NA
IL_6WNW_0091/3/128:131,
1/3/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
NA
IL_6WNW_0101/3/132:136,
1/3/227:230		Minor groove platform related
homologous
IL_5J7L_010
NA
IL_6WNW_0141/3/242:247,
1/3/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
NA
IL_6WNW_0151/3/249:252,
1/3/274:275		No text annotation
homologous
IL_4LFB_012
IL_22002.1
IL_6WNW_0161/3/292:293,
1/3/304:308		C-loop
homologous
IL_4LFB_013
IL_06671.1
IL_6WNW_0171/3/367:369,
1/3/392:393		Single bulged U
geometric
IL_4LFB_014
IL_97561.3
IL_6WNW_0181/3/371:375,
1/3/389:390		C-loop
homologous
IL_6CZR_127
NA
IL_6WNW_0191/3/375:376,
1/3/387:389		Single bulged G
geometric
IL_5J7L_019
NA
IL_6WNW_0201/3/408:416,
1/3/427:434		No text annotation
IL_6WNW_0211/3/440:442,
1/3/492:497		No text annotation
homologous
IL_5J7L_021
NA
IL_6WNW_0251/3/504:511,
1/3/540:541		SSU/LSU pseudoknot
homologous
IL_5J7L_024
NA
IL_6WNW_0261/3/515:521,
1/3/528:536		Kink-turn related
geometric
IL_4V88_415
NA
IL_6WNW_0271/3/569:575,
1/3/880:881		No text annotation
homologous
IL_4LFB_022
IL_20847.1
IL_6WNW_0281/3/580:584,
1/3/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
NA
IL_6WNW_0291/3/594:596,
1/3/644:645		Major groove platform
homologous
IL_4LFB_024
IL_48076.8
IL_6WNW_0301/3/597:598,
1/3/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_73108.2
IL_6WNW_0311/3/605:612,
1/3/628:633		No text annotation
homologous
IL_5J7L_030
NA
IL_6WNW_0321/3/654:655,
1/3/751:754		Major groove platform; stack outside cWW
geometric
IL_5J7L_031
NA
IL_6WNW_0331/3/659:660,
1/3/745:747		Single stack bend
homologous
IL_5J7L_032
NA
IL_6WNW_0341/3/662:666,
1/3/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
NA
IL_6WNW_1791/3/673:677,
1/3/713:717		Triple non-canonical cWW pairs
homologous
IL_5J7L_361
NA
IL_6WNW_0361/3/684:688,
1/3/699:706		Kink-turn
homologous
IL_5J7L_035
NA
IL_6WNW_0371/3/774:778,
1/3/804:805		Left turn
homologous
IL_4LFB_032
IL_29346.3
IL_6WNW_0381/3/779:783,
1/3/799:803		tSH-tHW-tHS
homologous
IL_5J7L_037
NA
IL_6WNW_0391/3/887:894,
1/3/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
NA
IL_6WNW_0401/3/922:923,
1/3/1393:1395		Single bulged A
homologous
IL_4LFB_035
IL_14190.2
IL_6WNW_0411/3/925:927,
1/3/1390:1391		Single bulged G
homologous
IL_4LFB_036
IL_28408.2
IL_6WNW_0421/3/933:935,
1/3/1380:1384		Minor groove platform
homologous
IL_5J7L_041
NA
IL_6WNW_0431/3/953:954,
1/3/1226:1228		No text annotation
homologous
IL_6CZR_150
NA
IL_6WNW_0441/3/993:997,
1/3/1044:1045		Minor groove platform
geometric
IL_5J7L_043
NA
IL_6WNW_0461/3/1048:1050,
1/3/1208:1209		Single bulged U
homologous
IL_5J7L_046
NA
IL_6WNW_1811/3/1052:1056,
1/3/1204:1206		Isolated cWS basepair
homologous
IL_4LFB_044
IL_82453.1
IL_6WNW_0481/3/1057:1058,
1/3/1199:1203		Minor groove platform
homologous
IL_5J7L_048
NA
IL_6WNW_0491/3/1060:1061,
1/3/1195:1197		Single bulged U
homologous
IL_4LFB_046
IL_97561.3
IL_6WNW_0501/3/1061:1063,
1/3/1193:1195		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
NA
IL_6WNW_0511/3/1124:1128,
1/3/1144:1149		No text annotation
homologous
IL_5J7L_051
NA
IL_6WNW_0521/3/1129:1132,
1/3/1142:1143		Minor groove platform
homologous
IL_5J7L_052
NA
IL_6WNW_0531/3/1158:1161,
1/3/1175:1181		No text annotation
geometric
IL_5J7L_053
NA
IL_6WNW_0541/3/1247:1253,
1/3/1284:1290		No text annotation
homologous
IL_5J7L_054
NA
IL_6WNW_0551/3/1255:1258,
1/3/1277:1282		180 degree turn
homologous
IL_5J7L_055
NA
IL_6WNW_0561/3/1259:1263,
1/3/1272:1276		Double sheared with non-canonical cWW
homologous
IL_5J7L_056
NA
IL_6WNW_0571/3/1303:1308,
1/3/1329:1334		No text annotation
geometric
IL_4LFB_055
IL_57885.2
IL_6WNW_0581/3/1399:1401,
1/3/1501:1504		No text annotation
homologous
IL_5J7L_058
NA
IL_6WNW_0591/3/1401:1404,
1/3/1497:1501		No text annotation
geometric
IL_4V88_464
NA
IL_6WNW_0601/3/1405:1407,
1/3/1494:1496		Isolated non-canonical cWW pair
geometric
IL_5VCI_002
IL_01003.3
IL_6WNW_0611/3/1407:1409,
1/3/1491:1494		Decoding loop related
geometric
IL_2O3X_003
IL_53541.1
IL_6WNW_1821/3/1412:1414,
1/3/1486:1488		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
NA
IL_6WNW_0631/3/1416:1419,
1/3/1481:1484		Double sheared
homologous
IL_5J7L_062
NA
IL_6WNW_0641/3/1430:1435,
1/3/1466:1470		Triple sheared related
homologous
IL_5J7L_063
NA
IL_6WNW_0651/3/1440:1442,
1/3/1460:1461		Single bulged A
homologous
IL_5J7L_064
NA
IL_6WNW_0661/3/1445:1448,
1/3/1455:1457		No text annotation
homologous
IL_5J7L_065
NA
IL_6WNW_0671/4/24:30,
1/4/510:516		Triple sheared with non-canonical cWW
geometric
IL_4WF9_001
IL_22311.1
IL_6WNW_0681/4/36:37,
1/4/442:444		Single bulged A
geometric
IL_7RQB_002
NA
IL_6WNW_0691/4/43:44,
1/4/434:436		Minor groove platform
geometric
IL_5J7L_247
NA
IL_6WNW_0701/4/81:85,
1/4/97:105		Kink-turn
homologous
IL_9DFE_004
IL_71972.1
IL_6WNW_0711/4/183:184,
1/4/212:214		Single stack bend
geometric
IL_5J7L_249
NA
IL_6WNW_0721/4/188:194,
1/4/201:208		8x7 Sarcin-Ricin; G-bulge
geometric
IL_7RQB_006
NA
IL_6WNW_0731/4/239:245,
1/4/253:258		7x6 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_251
NA
IL_6WNW_0741/4/269:271,
1/4/366:370		No text annotation
geometric
IL_5J7L_252
NA
IL_6WNW_0751/4/274:281,
1/4/359:363		No text annotation
geometric
IL_5J7L_253
NA
IL_6WNW_0761/4/293:295,
1/4/343:347		No text annotation
geometric
IL_5J7L_254
NA
IL_6WNW_0771/4/481:484,
1/4/496:509		No text annotation
geometric
IL_5J7L_255
NA
IL_6WNW_0781/4/536:539,
1/4/554:557		Double sheared
geometric
IL_5J7L_256
NA
IL_6WNW_0791/4/564:566,
1/4/575:577		Isolated non-canonical cWW pair
geometric
IL_5J7L_257
NA
IL_6WNW_0801/4/606:610,
1/4/618:622		AAA cross-strand stack
geometric
IL_5J7L_258
NA
IL_6WNW_0811/4/672:674,
1/4/806:808		No text annotation
geometric
IL_7RQB_017
NA
IL_6WNW_0821/4/674:678,
1/4/799:806		tHW-tHW cross-strand stack
geometric
IL_7RQB_018
NA
IL_6WNW_0831/4/697:698,
1/4/763:765		Single bulged A
geometric
IL_5J7L_261
NA
IL_6WNW_0841/4/702:703,
1/4/728:730		Single bulged G
geometric
IL_4V9F_026
IL_28408.2
IL_6WNW_0851/4/703:707,
1/4/724:728		Triple sheared
geometric
IL_5J7L_263
NA
IL_6WNW_0861/4/738:740,
1/4/757:758		Major groove platform
geometric
IL_5J7L_264
NA
IL_6WNW_0871/4/775:777,
1/4/787:791		Multiple bulged bases
geometric
IL_5J7L_265
NA
IL_6WNW_0881/4/837:838,
1/4/940:942		Single stack bend
geometric
IL_7RQB_024
NA
IL_6WNW_0891/4/844:847,
1/4/933:934		90 degree turn
geometric
IL_5J7L_267
NA
IL_6WNW_1841/4/844:848,
1/4/930:934		No text annotation
geometric
IL_5J7L_399
NA
IL_6WNW_0901/4/847:848,
1/4/930:933		Stack outside cWW
geometric
IL_5J7L_268
NA
IL_6WNW_0911/4/850:851,
1/4/926:928		Single stack bend
geometric
IL_5J7L_269
NA
IL_6WNW_0921/4/856:862,
1/4/915:921		7x7 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_5J7L_270
NA
IL_6WNW_0931/4/862:863,
1/4/913:915		Single bulged G
geometric
IL_5J7L_271
NA
IL_6WNW_0941/4/864:868,
1/4/909:912		C-loop with bulged stacked A's
geometric
IL_5J7L_272
NA
IL_6WNW_0951/4/870:872,
1/4/905:907		Isolated non-canonical cWW pair
geometric
IL_5J7L_273
NA
IL_6WNW_0961/4/875:879,
1/4/898:902		Double sheared with non-canonical cWW
geometric
IL_4WFL_001
IL_87767.2
IL_6WNW_0981/4/994:996,
1/4/1287:1288		Single bulged C
geometric
IL_7RQB_035
NA
IL_6WNW_0991/4/998:1002,
1/4/1281:1285		UAA/GAN
geometric
IL_4WF9_036
IL_08938.1
IL_6WNW_1001/4/1004:1011,
1/4/1278:1279		SSU/LSU pseudoknot
geometric
IL_5J7L_278
NA
IL_6WNW_1011/4/1011:1013,
1/4/1277:1278		Single bulged U
geometric
IL_5J7L_279
NA
IL_6WNW_1021/4/1018:1024,
1/4/1268:1272		Kink-turn related
geometric
IL_4WF9_039
IL_57188.6
IL_6WNW_1031/4/1039:1047,
1/4/1137:1145		Bacterial 5S Loop E
geometric
IL_5J7L_359
NA
IL_6WNW_1041/4/1083:1084,
1/4/1131:1133		Major groove intercalation
homologous
IL_5J7L_355
NA
IL_6WNW_1051/4/1089:1094,
1/4/1122:1126		No text annotation
homologous
IL_5J7L_356
NA
IL_6WNW_1061/4/1096:1097,
1/4/1117:1120		Major groove minor groove platform; mini C-loop
homologous
IL_4V9F_103
IL_73108.2
IL_6WNW_1071/4/1100:1104,
1/4/1110:1114		Symmetric double minor groove platform
geometric
IL_5J7L_358
NA
IL_6WNW_1081/4/1159:1162,
1/4/1249:1251		Isolated non-canonical cWW pair
geometric
IL_7RQB_041
NA
IL_6WNW_1091/4/1166:1169,
1/4/1242:1245		Tandem non-canonical cWW pairs
geometric
IL_5J7L_283
NA
IL_6WNW_1101/4/1171:1179,
1/4/1236:1240		Kink-turn
geometric
IL_4V9F_042
IL_99692.3
IL_6WNW_1131/4/1324:1326,
1/4/1375:1378		Isolated cWS basepair
geometric
IL_5J7L_286
NA
IL_6WNW_1141/4/1330:1334,
1/4/1368:1371		No text annotation
geometric
IL_5J7L_287
NA
IL_6WNW_1151/4/1336:1343,
1/4/1362:1366		Kink-turn
geometric
IL_5J7L_288
NA
IL_6WNW_1161/4/1390:1397,
1/4/2139:2145		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_289
NA
IL_6WNW_1171/4/1438:1441,
1/4/1731:1732		Major groove platform; stack outside cWW
geometric
IL_7RQB_050
NA
IL_6WNW_1181/4/1447:1451,
1/4/1459:1461		C-loop
geometric
IL_5J7L_291
NA
IL_6WNW_1191/4/1479:1483,
1/4/1504:1508		UAA/GAN
geometric
IL_5J7L_292
NA
IL_6WNW_1201/4/1485:1489,
1/4/1498:1502		tSH-tHW-tHS
geometric
IL_5J7L_293
NA
IL_6WNW_1211/4/1543:1544,
1/4/1710:1715		No text annotation
geometric
IL_5J7L_294
NA
IL_6WNW_1221/4/1545:1549,
1/4/1705:1709		UAA/GAN
geometric
IL_5J7L_295
NA
IL_6WNW_1231/4/1560:1563,
1/4/1685:1689		Tandem non-canonical cWW pairs
geometric
IL_5J7L_296
NA
IL_6WNW_1241/4/1565:1568,
1/4/1679:1683		tSH-tHW
geometric
IL_5J7L_297
NA
IL_6WNW_1251/4/1578:1579,
1/4/1587:1589		Single bulged U
geometric
IL_5J7L_298
NA
IL_6WNW_1261/4/1596:1599,
1/4/1648:1652		No text annotation
geometric
IL_5J7L_299
NA
IL_6WNW_1271/4/1602:1606,
1/4/1641:1645		tSH-tHW-tHS
geometric
IL_5J7L_300
NA
IL_6WNW_1281/4/1609:1610,
1/4/1635:1638		180 degree turn
geometric
IL_5J7L_301
NA
IL_6WNW_1291/4/1617:1619,
1/4/1627:1628		Single bulged A
geometric
IL_5J7L_302
NA
IL_6WNW_1301/4/1654:1657,
1/4/1670:1674		UAA/GAN variation
geometric
IL_5J7L_303
NA
IL_6WNW_1311/4/1779:1784,
1/4/2132:2134		No text annotation
geometric
IL_5J7L_304
NA
IL_6WNW_1321/4/1791:1793,
1/4/2123:2125		Isolated tWW turn
geometric
IL_5J7L_305
NA
IL_6WNW_1331/4/1794:1797,
1/4/2121:2122		Major groove platform; stack outside cWW
geometric
IL_7RQB_066
NA
IL_6WNW_1861/4/1794:1802,
1/4/2118:2122		No text annotation
geometric
IL_5J7L_386
NA
IL_6WNW_1341/4/1797:1802,
1/4/2118:2121		Intercalated tWH
geometric
IL_5J7L_307
NA
IL_6WNW_1351/4/1814:1819,
1/4/1824:1830		tSH-tSH-tHH-tHS
geometric
IL_7RQB_068
NA
IL_6WNW_1361/4/1840:1846,
1/4/1870:1874		6x5 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_309
NA
IL_6WNW_1371/4/1848:1852,
1/4/1864:1868		Triple sheared
geometric
IL_5J7L_310
NA
IL_6WNW_1381/4/1898:1899,
1/4/2108:2110		Single bulged A
geometric
IL_7A0S_064
IL_14190.2
IL_6WNW_1391/4/1926:1932,
1/4/1941:1949		Kink-turn related
geometric
IL_5J7L_313
NA
IL_6WNW_1401/4/1965:1968,
1/4/2030:2031		Minor groove platform, major groove intercalation
geometric
IL_5J7L_314
NA
IL_6WNW_1411/4/1969:1970,
1/4/2026:2029		Major groove intercalation
geometric
IL_5J7L_315
NA
IL_6WNW_1421/4/1974:1977,
1/4/2021:2022		Major groove minor groove platform; mini C-loop
geometric
IL_1S03_003
IL_73108.2
IL_6WNW_1871/4/1979:1988,
1/4/2010:2019		No text annotation
geometric
IL_5J7L_387
NA
IL_6WNW_1431/4/1992:1995,
1/4/2002:2006		UAA/GAN related
geometric
IL_5J7L_317
NA
IL_6WNW_1441/4/2061:2062,
1/4/2092:2095		Bulged stacked bases
geometric
IL_5J7L_318
NA
IL_6WNW_1451/4/2062:2073,
1/4/2089:2092		No text annotation
geometric
IL_7A0S_072
IL_04332.3
IL_6WNW_1461/4/2178:2180,
1/4/2745:2746		Major groove platform
geometric
IL_5J7L_320
NA
IL_6WNW_1471/4/2182:2184,
1/4/2740:2743		No text annotation
geometric
IL_5J7L_321
NA
IL_6WNW_1481/4/2195:2197,
1/4/2570:2571		Single bulged U
geometric
IL_4V9F_074
IL_97561.3
IL_6WNW_1491/4/2198:2199,
1/4/2566:2569		Minor groove platform
geometric
IL_7RQB_081
NA
IL_6WNW_1501/4/2209:2211,
1/4/2364:2367		Isolated tHS basepair with bulges
geometric
IL_5J7L_325
NA
IL_6WNW_1511/4/2213:2215,
1/4/2360:2362		Isolated non-canonical cWW pair
geometric
IL_5J7L_326
NA
IL_6WNW_1541/4/2330:2332,
1/4/2348:2349		Single bulged U
geometric
IL_5J7L_331
NA
IL_6WNW_1551/4/2478:2481,
1/4/2492:2495		Double sheared
geometric
IL_5J7L_333
NA
IL_6WNW_1561/4/2529:2531,
1/4/2542:2543		No text annotation
geometric
IL_9AXU_122
IL_97561.3
IL_6WNW_1571/4/2581:2582,
1/4/2626:2628		Single stack bend
geometric
IL_5TBW_070
NA
IL_6WNW_1581/4/2582:2583,
1/4/2624:2626		Major groove platform
geometric
IL_4WF9_090
IL_48076.8
IL_6WNW_1591/4/2585:2587,
1/4/2621:2622		Major groove platform
geometric
IL_7A0S_085
IL_48076.8
IL_6WNW_1601/4/2587:2589,
1/4/2617:2621		Major groove minor groove platform with extra cWW
geometric
IL_5J7L_337
NA
IL_6WNW_1611/4/2594:2598,
1/4/2608:2612		Double sheared with non-canonical cWW
geometric
IL_5J7L_338
NA
IL_6WNW_1621/4/2635:2636,
1/4/2708:2710		Major groove platform
geometric
IL_5TBW_107
NA
IL_6WNW_1631/4/2638:2640,
1/4/2702:2706		Isolated non-canonical cWW with bulges
geometric
IL_5J7L_340
NA
IL_6WNW_1641/4/2640:2641,
1/4/2699:2702		No text annotation
geometric
IL_5J7L_341
NA
IL_6WNW_1651/4/2650:2651,
1/4/2668:2671		Major groove platform with intercalation
geometric
IL_5J7L_342
NA
IL_6WNW_1661/4/2719:2720,
1/4/2729:2731		Single bulged A
geometric
IL_7RQB_101
NA
IL_6WNW_1671/4/2764:2768,
1/4/2902:2910		tSH-tHS-tHW
geometric
IL_5J7L_345
NA
IL_6WNW_1681/4/2780:2786,
1/4/2791:2796		Sarcin-Ricin target in LSU H95; G-bulge
geometric
IL_7RQB_103
NA
IL_6WNW_1691/4/2808:2812,
1/4/2853:2855		C-loop
geometric
IL_5J7L_347
NA
IL_6WNW_1701/4/2815:2819,
1/4/2846:2850		UAA/GAN related, with intercalation
geometric
IL_5J7L_348
NA
IL_6WNW_1711/4/2823:2824,
1/4/2839:2842		Multiple bulged bases
geometric
IL_4WF9_103
IL_44609.2
IL_6WNW_1721/4/2865:2870,
1/4/2890:2895		UAA/GAN with extra cWW
geometric
IL_5J7L_350
NA
IL_6WNW_1731/4/2934:2939,
1/4/3017:3020		No text annotation
geometric
IL_5J7L_351
NA
IL_6WNW_1741/4/2966:2967,
1/4/3006:3008		Major groove intercalation
geometric
IL_5J7L_352
NA
IL_6WNW_1751/4/2971:2974,
1/4/2998:3002		Multiple bulged bases with non-canonical cWW
geometric
IL_5J7L_353
NA
IL_6WNW_1761/4/2975:2980,
1/4/2993:2997		tHS double platform
geometric
IL_5J7L_354
NA

Problematic loops

#loop idProblemSequence
IL_6WNW_005Isolated non-canonical cWW pair
IL_6WNW_177No text annotation
IL_6WNW_007Minor groove platform
IL_6WNW_191No text annotation
IL_6WNW_008No text annotation
IL_6WNW_011Isolated cWH basepair
IL_6WNW_012tWH-tWH-tHW-tHW
IL_6WNW_013Minor groove platform
IL_6WNW_022tSH-tHW-tWW
IL_6WNW_023No text annotation
IL_6WNW_178No text annotation
IL_6WNW_024Isolated non-canonical cWW pair
IL_6WNW_035No text annotation
IL_6WNW_045Single stack bend
IL_6WNW_180No text annotation
IL_6WNW_047Tandem non-canonical cWW pairs
IL_6WNW_062Tandem non-canonical cWW pairs
IL_6WNW_183No text annotation
IL_6WNW_097Multiple bulged bases
IL_6WNW_185No text annotation
IL_6WNW_111No text annotation
IL_6WNW_112Major groove platform with extra cWW
IL_6WNW_152Other IL
IL_6WNW_192No text annotation
IL_6WNW_153No text annotation
IL_6WNW_188No text annotation
IL_6WNW_189No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6WNW_0011/3/46:47,
1/3/361:367,
1/3/393:395		No text annotation
homologous
J3_5J7L_001
NA
J3_6WNW_0281/3/46:52,
1/3/359:367,
1/3/393:395		No text annotation
homologous
J3_5J7L_050
NA
J3_6WNW_0021/3/586:588,
1/3/651:654,
1/3/754:755		No text annotation
geometric
J3_5J7L_002
NA
J3_6WNW_0291/3/586:588,
1/3/651:655,
1/3/751:755		No text annotation
homologous
J3_5J7L_051
NA
J3_6WNW_0031/3/672:673,
1/3/717:725,
1/3/732:734		No text annotation
homologous
J3_5J7L_003
NA
J3_6WNW_0041/3/826:829,
1/3/857:861,
1/3/868:874		No text annotation
homologous
J3_5J7L_004
NA
J3_6WNW_0051/3/936:939,
1/3/1344:1350,
1/3/1372:1379		No text annotation
homologous
J3_4LFB_002
J3_85722.1
J3_6WNW_0061/3/943:946,
1/3/1235:1237,
1/3/1337:1340		No text annotation
homologous
J3_4LFB_003
J3_44359.1
J3_6WNW_0071/3/955:962,
1/3/973:984,
1/3/1221:1225		No text annotation
homologous
J3_5J7L_006
NA
J3_6WNW_0081/3/990:993,
1/3/1045:1047,
1/3/1210:1215		No text annotation
homologous
J3_5J7L_007
NA
J3_6WNW_0301/3/990:997,
1/3/1044:1047,
1/3/1210:1215		No text annotation
homologous
J3_5J7L_053
NA
J3_6WNW_0101/3/1063:1068,
1/3/1107:1113,
1/3/1187:1193		No text annotation
homologous
J3_5J7L_008
NA
J3_6WNW_0381/3/1073:1074,
1/3/1083:1086,
1/3/1099:1102		No text annotation
homologous
J3_4LFB_017
J3_11018.1
J3_6WNW_0121/3/1116:1118,
1/3/1155:1158,
1/3/1181:1184		No text annotation
homologous
J3_5J7L_010
NA
J3_6WNW_0311/3/1116:1118,
1/3/1155:1161,
1/3/1175:1184		No text annotation
homologous
J3_5J7L_054
NA
J3_6WNW_0131/3/1237:1241,
1/3/1296:1303,
1/3/1334:1337		No text annotation
homologous
J3_5J7L_011
NA
J3_6WNW_0141/4/30:31,
1/4/474:481,
1/4/509:510		No text annotation
geometric
J3_8VTW_036
NA
J3_6WNW_0321/4/30:31,
1/4/474:484,
1/4/496:510		No text annotation
geometric
J3_5J7L_066
NA
J3_6WNW_0331/4/32:35,
1/4/445:461,
1/4/468:473		No text annotation
geometric
J3_5J7L_067
NA
J3_6WNW_0151/4/56:57,
1/4/70:76,
1/4/110:114		No text annotation
geometric
J3_5J7L_037
NA
J3_6WNW_0341/4/297:301,
1/4/316:325,
1/4/337:341		No text annotation
geometric
J3_5J7L_068
NA
J3_6WNW_0161/4/683:689,
1/4/773:775,
1/4/791:794		No text annotation
geometric
J3_5J7L_038
NA
J3_6WNW_0171/4/698:700,
1/4/732:736,
1/4/760:763		No text annotation
geometric
J3_8VTW_002
NA
J3_6WNW_0351/4/1024:1032,
1/4/1152:1158,
1/4/1252:1268		No text annotation
J3_6WNW_0181/4/1048:1052,
1/4/1076:1082,
1/4/1134:1136		No text annotation
homologous
J3_5J7L_049
NA
J3_6WNW_0201/4/1426:1431,
1/4/1753:1755,
1/4/1767:1770		No text annotation
geometric
J3_5J7L_041
NA
J3_6WNW_0211/4/1434:1437,
1/4/1733:1739,
1/4/1748:1750		No text annotation
geometric
J3_7A0S_007
J3_47341.1
J3_6WNW_0221/4/1472:1477,
1/4/1510:1513,
1/4/1530:1531		No text annotation
geometric
J3_5J7L_043
NA
J3_6WNW_0361/4/1552:1557,
1/4/1692:1693,
1/4/1696:1702		No text annotation
geometric
J3_5J7L_069
NA
J3_6WNW_0231/4/2219:2221,
1/4/2324:2328,
1/4/2351:2356		Kink-turn 3-way junction
geometric
J3_5J7L_044
NA
J3_6WNW_0371/4/2410:2412,
1/4/2512:2523,
1/4/2549:2555		No text annotation
geometric
J3_5J7L_070
NA
J3_6WNW_0241/4/2423:2427,
1/4/2445:2451,
1/4/2460:2465		No text annotation
J3_6WNW_0251/4/2645:2648,
1/4/2673:2675,
1/4/2689:2695		No text annotation
geometric
J3_5J7L_046
NA
J3_6WNW_0261/4/2917:2919,
1/4/2933:2934,
1/4/3020:3022		No text annotation
geometric
J3_5J7L_047
NA
J3_6WNW_0271/4/2940:2943,
1/4/2959:2964,
1/4/3010:3016		No text annotation
geometric
J3_5J7L_048
NA
J4_6WNW_0011/3/115:122,
1/3/239:240,
1/3/286:289,
1/3/311:312		No text annotation
homologous
J4_5J7L_001
NA
J4_6WNW_0021/3/142:144,
1/3/178:184,
1/3/193:198,
1/3/219:221		No text annotation
homologous
J4_5J7L_002
NA
J4_6WNW_0031/3/575:577,
1/3/764:769,
1/3/810:821,
1/3/879:880		No text annotation
homologous
J4_5J7L_003
NA
J4_6WNW_0041/4/268:269,
1/4/370:375,
1/4/399:406,
1/4/421:424		No text annotation
homologous
J4_5J7L_018
NA
J4_6WNW_0051/4/601:604,
1/4/624:628,
1/4/635:638,
1/4/650:656		No text annotation
homologous
J4_5J7L_020
NA
J4_6WNW_0061/4/1398:1404,
1/4/1422:1423,
1/4/1773:1776,
1/4/2137:2138		No text annotation
homologous
J4_5J7L_021
NA
J4_6WNW_0071/4/1438:1442,
1/4/1466:1471,
1/4/1532:1533,
1/4/1725:1732		No text annotation
homologous
J4_7A0S_005
J4_77353.1
J4_6WNW_0081/4/1441:1442,
1/4/1466:1471,
1/4/1532:1533,
1/4/1725:1731		No text annotation
homologous
J4_5J7L_023
NA
J4_6WNW_0091/4/1572:1573,
1/4/1594:1595,
1/4/1653:1654,
1/4/1674:1675		No text annotation
homologous
J4_5J7L_024
NA
J4_6WNW_0101/4/1900:1904,
1/4/1916:1920,
1/4/1955:1958,
1/4/2103:2107		No text annotation
homologous
J4_5J7L_025
NA
J4_6WNW_0111/4/1961:1963,
1/4/2033:2034,
1/4/2052:2061,
1/4/2095:2100		No text annotation
homologous
J4_9DFE_008
J4_42306.1
J4_6WNW_0121/4/2413:2417,
1/4/2471:2475,
1/4/2498:2500,
1/4/2509:2511		No text annotation
homologous
J4_9DFE_009
J4_98139.1
J4_6WNW_0131/4/2771:2774,
1/4/2802:2804,
1/4/2859:2863,
1/4/2897:2899		No text annotation
homologous
J4_5J7L_028
NA
J4_6WNW_0141/5/7:10,
1/5/25:27,
1/5/43:49,
1/5/65:66		tRNA junction
homologous
J4_9DFC_015
NA
J4_6WNW_0151/7/7:10,
1/7/25:27,
1/7/43:51,
1/7/63:66		No text annotation
homologous
J4_7U2I_014
NA
J5_6WNW_0011/3/36:39,
1/3/403:406,
1/3/436:440,
1/3/497:500,
1/3/545:548		No text annotation
homologous
J5_5J7L_001
NA
J5_6WNW_0021/3/36:39,
1/3/403:406,
1/3/436:442,
1/3/492:500,
1/3/545:548		No text annotation
homologous
J5_5J7L_002
NA
J5_6WNW_0031/3/58:61,
1/3/106:113,
1/3/314:316,
1/3/337:339,
1/3/350:354		No text annotation
homologous
J5_4LFB_002
J5_58574.1
J5_6WNW_0041/4/47:54,
1/4/116:121,
1/4/130:131,
1/4/148:150,
1/4/176:178		No text annotation
homologous
J5_5J7L_013
NA
J5_6WNW_0051/4/531:533,
1/4/560:564,
1/4/577:579,
1/4/1389:1390,
1/4/2145:2146		No text annotation
homologous
J5_5J7L_014
NA
J5_6WNW_0061/4/584:589,
1/4/668:671,
1/4/809:812,
1/4/1323:1324,
1/4/1378:1384		No text annotation
homologous
J5_5J7L_015
NA
J5_6WNW_0071/4/1802:1810,
1/4/1834:1835,
1/4/1879:1880,
1/4/1884:1892,
1/4/2116:2118		No text annotation
homologous
J5_5J7L_016
NA
J5_6WNW_0081/4/2185:2192,
1/4/2574:2581,
1/4/2628:2635,
1/4/2710:2716,
1/4/2734:2739		No text annotation
J5_6WNW_0091/4/2202:2205,
1/4/2371:2374,
1/4/2386:2387,
1/4/2409:2410,
1/4/2555:2563		No text annotation
homologous
J5_4WF9_007
J5_39529.2
J6_6WNW_0011/4/45:46,
1/4/179:183,
1/4/214:224,
1/4/231:235,
1/4/262:266,
1/4/426:433		No text annotation
J6_6WNW_0021/4/2202:2205,
1/4/2371:2374,
1/4/2386:2387,
1/4/2409:2412,
1/4/2512:2523,
1/4/2549:2563		No text annotation
J7_6WNW_0011/4/8:15,
1/4/525:531,
1/4/2146:2151,
1/4/2168:2171,
1/4/2753:2758,
1/4/2916:2917,
1/4/3022:3023		No text annotation
J7_6WNW_0021/4/817:822,
1/4/835:837,
1/4/942:946,
1/4/971:976,
1/4/987:991,
1/4/1291:1292,
1/4/1313:1318		No text annotation

Problematic loops

#loop idProblemSequence
J3_6WNW_009No text annotation
J3_6WNW_011No text annotation
J3_6WNW_019No text annotation

Coloring options:
Copyright 2025 BGSU RNA group. Page generated in 0.1059 s