RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8ZFI_0011/A/12:22No text annotation
geometric
HL_8CRE_191
HL_89881.5
HL_8ZFI_0021/A/75:95No text annotation
HL_8ZFI_0031/A/158:163GNRA
geometric
HL_7A0S_016
HL_37824.8
HL_8ZFI_0041/A/186:191GNRA
geometric
HL_1M5K_003
HL_37824.8
HL_8ZFI_0051/A/207:212No text annotation
geometric
HL_8CRE_195
HL_50006.3
HL_8ZFI_0061/A/259:267GNRA related
geometric
HL_5J7L_006
HL_84299.4
HL_8ZFI_0071/A/296:301GNRA
geometric
HL_4LFB_007
HL_37824.8
HL_8ZFI_0081/A/320:333No text annotation
geometric
HL_4LFB_008
HL_81205.3
HL_8ZFI_0091/A/342:347UNCG
geometric
HL_8P9A_154
HL_34617.5
HL_8ZFI_0101/A/379:384GNRA
geometric
HL_7MRL_002
HL_37824.8
HL_8ZFI_0111/A/419:424UNCG
geometric
HL_5J7L_171
HL_34617.5
HL_8ZFI_0121/A/462:469No text annotation
HL_8ZFI_0131/A/522:527GNRA variation
geometric
HL_5J7L_205
HL_37824.8
HL_8ZFI_0141/A/617:623GNRA-like with tWH
geometric
HL_5J7L_014
HL_10453.3
HL_8ZFI_0151/A/689:698No text annotation
geometric
HL_4LFB_015
HL_75293.5
HL_8ZFI_0161/A/726:731GNRA
geometric
HL_8CRE_211
HL_37824.8
HL_8ZFI_0171/A/786:796No text annotation
geometric
HL_4LFB_017
HL_75293.5
HL_8ZFI_0181/A/840:846No text annotation
HL_8ZFI_0191/A/862:867GNRA
geometric
HL_4LFB_019
HL_37824.8
HL_8ZFI_0201/A/897:902GNRA
geometric
HL_8CRE_215
HL_37824.8
HL_8ZFI_0211/A/963:972No text annotation
geometric
HL_4LFB_021
HL_50779.4
HL_8ZFI_0221/A/1012:1017GNRA
geometric
HL_8CRE_214
HL_37824.8
HL_8ZFI_0231/A/1028:1033No text annotation
HL_8ZFI_0241/A/1076:1081GNRA
geometric
HL_5J7L_027
HL_37824.8
HL_8ZFI_0251/A/1089:1096T-loop related
geometric
HL_8CRE_219
HL_77436.5
HL_8ZFI_0261/A/1134:1140No text annotation
geometric
HL_4LFB_026
HL_87954.2
HL_8ZFI_0271/A/1165:1171GNRA
geometric
HL_5J7L_026
HL_93535.1
HL_8ZFI_0281/A/1265:1270GNRA
geometric
HL_8P9A_122
HL_37824.8
HL_8ZFI_0291/A/1314:1323T-loop with 3 stacked bulged bases
geometric
HL_4LFB_029
HL_02887.3
HL_8ZFI_0301/A/1356:1366No text annotation
geometric
HL_4LFB_030
HL_06226.4
HL_8ZFI_0311/A/1449:1454UNCG
geometric
HL_5J7L_030
HL_34617.5
HL_8ZFI_0321/A/1515:1520GNRA
geometric
HL_5J7L_031
HL_37824.8
HL_8ZFI_0331/X/13:22No text annotation
HL_8ZFI_0341/X/31:39tRNA anticodon loop
geometric
HL_6UFH_007
HL_06059.7
HL_8ZFI_0351/X/53:61T-loop with 2 stacked bulged bases
geometric
HL_8K1E_002
HL_28252.9
HL_8ZFI_0361/Y/13:23No text annotation
HL_8ZFI_0371/Y/33:39Pseudoknot geometry
geometric
HL_5VPO_138
HL_31585.4
HL_8ZFI_0381/Y/54:62T-loop with 2 stacked bulged bases
geometric
HL_8V1H_002
HL_28252.9
HL_8ZFI_0391/Z/13:23tRNA D-loop
geometric
HL_6CFJ_106
HL_93616.2
HL_8ZFI_0401/Z/32:40tRNA anticodon loop
geometric
HL_6CAQ_034
HL_06059.7
HL_8ZFI_0411/Z/54:62T-loop with 2 stacked bulged bases
geometric
HL_6UGG_006
HL_28252.9
HL_8ZFI_0421/a/38:44No text annotation
geometric
HL_5J7L_203
HL_47787.2
HL_8ZFI_0431/a/86:90Mini UNCG
geometric
HL_6MSF_001
HL_48778.2
HL_8ZFI_0441/b/59:68No text annotation
HL_8ZFI_0451/b/87:95No text annotation
geometric
HL_5J7L_135
HL_80241.1
HL_8ZFI_0461/b/123:128No text annotation
geometric
HL_5J7L_136
HL_82710.2
HL_8ZFI_0471/b/137:142UNCG
geometric
HL_8P9A_200
HL_34617.5
HL_8ZFI_0481/b/158:168No text annotation
geometric
HL_5J7L_138
HL_68257.1
HL_8ZFI_0491/b/194:201No text annotation
geometric
HL_8CRE_001
HL_30068.2
HL_8ZFI_0501/b/225:230No text annotation
geometric
HL_5J7L_140
HL_62934.1
HL_8ZFI_0511/b/246:252No text annotation
geometric
HL_5J7L_141
HL_37369.2
HL_8ZFI_0521/b/305:312T-loop with 1 bulged base
geometric
HL_7A0S_010
HL_01609.3
HL_8ZFI_0531/b/319:323No text annotation
geometric
HL_7A0S_011
HL_75660.5
HL_8ZFI_0541/b/327:335T-loop with unstacked turn
geometric
HL_5J7L_144
HL_27670.2
HL_8ZFI_0551/b/382:392No text annotation
geometric
HL_5J7L_145
HL_91503.7
HL_8ZFI_0561/b/410:417Pseudoknot geometry
geometric
HL_7A0S_014
HL_30680.3
HL_8ZFI_0571/b/462:467GNRA
geometric
HL_4WFL_003
HL_37824.8
HL_8ZFI_0581/b/487:493GNRA
geometric
HL_5J7L_148
HL_37824.8
HL_8ZFI_0591/b/544:549GNRA
geometric
HL_1G1X_003
HL_37824.8
HL_8ZFI_0601/b/566:575T-loop with 2 stacked bulged bases
geometric
HL_5J7L_150
HL_28252.9
HL_8ZFI_0611/b/611:617No text annotation
HL_8ZFI_0621/b/629:634GNRA
geometric
HL_5J7L_152
HL_37824.8
HL_8ZFI_0631/b/641:647No text annotation
HL_8ZFI_0641/b/712:719GNRA wlth tandem sheared
geometric
HL_5J7L_154
HL_81538.2
HL_8ZFI_0651/b/744:753No text annotation
geometric
HL_4WF9_023
HL_88205.2
HL_8ZFI_0661/b/779:785UNCG variation
geometric
HL_7A0S_023
HL_53890.2
HL_8ZFI_0671/b/826:831No text annotation
geometric
HL_5J7L_157
HL_55195.3
HL_8ZFI_0681/b/879:898No text annotation
HL_8ZFI_0691/b/955:962GNRA
geometric
HL_7A0S_026
HL_37824.8
HL_8ZFI_0701/b/978:985No text annotation
geometric
HL_5J7L_160
HL_42998.2
HL_8ZFI_0711/b/1063:1076No text annotation
HL_8ZFI_0721/b/1092:1099No text annotation
HL_8ZFI_0731/b/1172:1177No text annotation
HL_8ZFI_0741/b/1222:1227GNRA
geometric
HL_5J7L_164
HL_37824.8
HL_8ZFI_0751/b/1281:1289T-loop with 2 stacked bulged bases
geometric
HL_5J7L_165
HL_28252.9
HL_8ZFI_0761/b/1324:1330Pseudoknot geometry with 3' bulge
geometric
HL_4V9F_035
HL_57176.2
HL_8ZFI_0771/b/1363:1368GNRA
geometric
HL_5J7L_167
HL_37824.8
HL_8ZFI_0781/b/1389:1398No text annotation
geometric
HL_5J7L_168
HL_81545.2
HL_8ZFI_0791/b/1451:1459Mini UNCG with extended bulge
geometric
HL_5J7L_169
HL_22622.1
HL_8ZFI_0801/b/1492:1498Pseudoknot geometry with 3' bulge
geometric
HL_5J7L_170
HL_57176.2
HL_8ZFI_0811/b/1533:1538UNCG variation
geometric
HL_8S95_003
HL_53890.2
HL_8ZFI_0821/b/1565:1568Mini UNCG
geometric
HL_5J7L_172
HL_48778.2
HL_8ZFI_0831/b/1612:1619No text annotation
geometric
HL_9DFE_038
HL_89567.2
HL_8ZFI_0841/b/1630:1636GNRA
geometric
HL_5J7L_174
HL_37824.8
HL_8ZFI_0851/b/1691:1696UNCG
geometric
HL_4LFB_009
HL_34617.5
HL_8ZFI_0861/b/1728:1731Mini UNCG
geometric
HL_7QQP_002
HL_48778.2
HL_8ZFI_0871/b/1752:1756No text annotation
geometric
HL_4V9F_046
HL_80709.3
HL_8ZFI_0881/b/1777:1787No text annotation
geometric
HL_4WF9_043
HL_01962.2
HL_8ZFI_0891/b/1806:1811GNRA related
geometric
HL_3OXE_002
HL_04783.2
HL_8ZFI_0901/b/1868:1873GNRA
geometric
HL_1G1X_005
HL_37824.8
HL_8ZFI_0911/b/1910:1920No text annotation
geometric
HL_8CRE_047
HL_25847.2
HL_8ZFI_0921/b/1949:1957No text annotation
geometric
HL_5J7L_182
HL_20167.2
HL_8ZFI_0931/b/2027:2036No text annotation
geometric
HL_5J7L_183
HL_61996.3
HL_8ZFI_0941/b/2141:2150No text annotation
HL_8ZFI_0951/b/2209:2215No text annotation
geometric
HL_5J7L_185
HL_49922.4
HL_8ZFI_0961/b/2248:2256No text annotation
geometric
HL_7A0S_052
HL_85367.2
HL_8ZFI_0971/b/2264:2276No text annotation
geometric
HL_5J7L_187
HL_91939.2
HL_8ZFI_0981/b/2303:2313No text annotation
HL_8ZFI_0991/b/2324:2331Pseudoknot geometry
geometric
HL_5J7L_189
HL_93324.4
HL_8ZFI_1001/b/2356:2361GNRA
geometric
HL_5J7L_190
HL_37824.8
HL_8ZFI_1011/b/2374:2379GNRA
geometric
HL_5J7L_191
HL_37824.8
HL_8ZFI_1021/b/2404:2413No text annotation
geometric
HL_5J7L_192
HL_53454.2
HL_8ZFI_1031/b/2471:2479No text annotation
geometric
HL_4V9F_062
HL_32735.2
HL_8ZFI_1041/b/2528:2535GNRA variation
geometric
HL_5J7L_194
HL_31585.4
HL_8ZFI_1051/b/2551:2557No text annotation
geometric
HL_7A0S_061
HL_30068.2
HL_8ZFI_1061/b/2594:2599GNRA
geometric
HL_8P9A_217
HL_37824.8
HL_8ZFI_1071/b/2658:2663GNRA
geometric
HL_7A0S_063
HL_37824.8
HL_8ZFI_1081/b/2701:2706Ribsomal LSU H95
geometric
HL_5J7L_198
HL_65794.5
HL_8ZFI_1091/b/2745:2759No text annotation
geometric
HL_5J7L_199
HL_74055.2
HL_8ZFI_1101/b/2796:2799No text annotation
geometric
HL_6LTU_001
HL_48778.2
HL_8ZFI_1111/b/2819:2827No text annotation
geometric
HL_5J7L_201
HL_64690.6
HL_8ZFI_1121/b/2856:2861GNRA
geometric
HL_5J7L_202
HL_37824.8

Problematic loops

No problematic loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8ZFI_0011/A/30:34,
1/A/550:553		Tandem non-canonical cWW pairs
geometric
IL_3WBM_003
IL_85033.2
IL_8ZFI_0021/A/44:45,
1/A/396:398		Single bulged A
geometric
IL_4LFB_002
IL_31462.7
IL_8ZFI_0031/A/47:52,
1/A/359:361		No text annotation
geometric
IL_5J7L_003
IL_14177.2
IL_8ZFI_0041/A/54:56,
1/A/356:357		Minor groove platform
geometric
IL_4LFB_054
IL_51454.3
IL_8ZFI_0051/A/63:69,
1/A/99:104		No text annotation
IL_8ZFI_0061/A/70:74,
1/A/96:98		No text annotation
IL_8ZFI_0071/A/128:131,
1/A/231:233		No text annotation
IL_8ZFI_0081/A/132:136,
1/A/227:230		No text annotation
geometric
IL_4LFB_008
IL_64231.5
IL_8ZFI_0091/A/144:146,
1/A/176:178		Isolated cWH basepair
geometric
IL_4WF9_045
IL_10167.6
IL_8ZFI_0101/A/147:153,
1/A/168:175		tWH-tWH-tHW-tHW
geometric
IL_5J7L_012
IL_80604.6
IL_8ZFI_0111/A/203:206,
1/A/213:214		Minor groove platform
geometric
IL_5J7L_007
IL_15052.4
IL_8ZFI_0121/A/242:247,
1/A/277:284		Kink-turn with non-sequential stacking
geometric
IL_5J7L_014
IL_46174.3
IL_8ZFI_0131/A/249:252,
1/A/274:275		No text annotation
geometric
IL_4LFB_012
IL_47074.2
IL_8ZFI_0141/A/292:293,
1/A/304:308		C-loop
geometric
IL_4LFB_013
IL_03109.3
IL_8ZFI_0151/A/367:369,
1/A/392:393		No text annotation
geometric
IL_8CRE_056
IL_89505.4
IL_8ZFI_0161/A/370:376,
1/A/387:391		No text annotation
IL_8ZFI_0171/A/409:416,
1/A/427:433		No text annotation
geometric
IL_4LFB_017
IL_28026.3
IL_8ZFI_0181/A/440:442,
1/A/492:497		No text annotation
IL_8ZFI_0191/A/446:450,
1/A/483:488		tSH-tHW-tWW
geometric
IL_5J7L_022
IL_88269.4
IL_8ZFI_0201/A/450:455,
1/A/477:483		No text annotation
IL_8ZFI_0211/A/457:459,
1/A/472:475		No text annotation
geometric
IL_4WSM_372
IL_09990.4
IL_8ZFI_0221/A/460:462,
1/A/469:471		No text annotation
geometric
IL_5E81_401
IL_42997.3
IL_8ZFI_0231/A/504:511,
1/A/540:541		SSU/LSU pseudoknot
geometric
IL_5J7L_024
IL_41203.4
IL_8ZFI_0241/A/515:521,
1/A/528:536		Kink-turn related
geometric
IL_5J7L_025
IL_54177.4
IL_8ZFI_0251/A/569:575,
1/A/880:881		No text annotation
geometric
IL_8P9A_405
IL_38186.6
IL_8ZFI_0261/A/580:584,
1/A/757:761		tSH-tHW-tHS
geometric
IL_5J7L_027
IL_17136.7
IL_8ZFI_0271/A/589:591,
1/A/648:650		Isolated cWH basepair
geometric
IL_4WF9_045
IL_10167.6
IL_8ZFI_0281/A/594:596,
1/A/644:645		Major groove platform
geometric
IL_5J7L_028
IL_48076.6
IL_8ZFI_0291/A/597:598,
1/A/640:643		Major groove minor groove platform; mini C-loop
geometric
IL_5J7L_029
IL_68140.4
IL_8ZFI_0301/A/605:612,
1/A/628:633		No text annotation
geometric
IL_5J7L_030
IL_78349.3
IL_8ZFI_0311/A/654:655,
1/A/751:754		Major groove platform; stack outside cWW
geometric
IL_4LFB_027
IL_50694.7
IL_8ZFI_0321/A/659:660,
1/A/745:747		Single stack bend
geometric
IL_8CRE_091
IL_26793.1
IL_8ZFI_0331/A/662:666,
1/A/740:743		Tandem non-canonical cWW pairs
geometric
IL_5J7L_033
IL_85033.2
IL_8ZFI_0341/A/673:677,
1/A/713:717		Triple non-canonical cWW pairs
geometric
IL_4LFB_065
IL_49751.4
IL_8ZFI_0351/A/684:688,
1/A/699:706		Kink-turn
geometric
IL_5J7L_035
IL_01488.3
IL_8ZFI_0361/A/774:778,
1/A/804:805		Left turn
geometric
IL_5J7L_036
IL_29346.2
IL_8ZFI_0371/A/779:783,
1/A/799:803		tSH-tHW-tHS
geometric
IL_8CRE_438
IL_17136.7
IL_8ZFI_0381/A/887:894,
1/A/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
geometric
IL_5J7L_038
IL_41756.4
IL_8ZFI_0391/A/922:923,
1/A/1393:1395		Single bulged A
geometric
IL_4LFB_035
IL_31462.7
IL_8ZFI_0401/A/925:927,
1/A/1390:1391		Single bulged G
geometric
IL_4LFB_036
IL_00225.14
IL_8ZFI_0411/A/933:935,
1/A/1380:1384		Minor groove platform
geometric
IL_5J7L_041
IL_47078.3
IL_8ZFI_0421/A/953:954,
1/A/1226:1228		Minor groove platform
geometric
IL_4LFB_038
IL_51454.3
IL_8ZFI_0431/A/993:997,
1/A/1044:1045		Minor groove platform
geometric
IL_5J7L_043
IL_47078.3
IL_8ZFI_0441/A/998:999,
1/A/1041:1043		No text annotation
IL_8ZFI_0451/A/1048:1050,
1/A/1208:1209		Single bulged U
geometric
IL_5J7L_046
IL_89505.4
IL_8ZFI_0461/A/1052:1057,
1/A/1203:1206		No text annotation
IL_8ZFI_0471/A/1052:1058,
1/A/1199:1206		No text annotation
geometric
IL_8P9A_439
IL_86012.1
IL_8ZFI_0481/A/1057:1058,
1/A/1199:1203		Minor groove platform
geometric
IL_5J7L_048
IL_95583.2
IL_8ZFI_0491/A/1060:1061,
1/A/1195:1197		Single bulged A
geometric
IL_3OXE_001
IL_31462.7
IL_8ZFI_0501/A/1061:1063,
1/A/1193:1195		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
IL_28037.2
IL_8ZFI_0511/A/1124:1128,
1/A/1144:1149		No text annotation
geometric
IL_5J7L_051
IL_06691.1
IL_8ZFI_0521/A/1129:1132,
1/A/1142:1143		Minor groove platform
geometric
IL_3MXH_005
IL_15052.4
IL_8ZFI_0531/A/1247:1253,
1/A/1284:1290		No text annotation
geometric
IL_4LFB_051
IL_09129.2
IL_8ZFI_0541/A/1255:1258,
1/A/1277:1282		No text annotation
IL_8ZFI_0551/A/1259:1263,
1/A/1272:1276		Double sheared with non-canonical cWW
geometric
IL_5J7L_056
IL_17948.2
IL_8ZFI_0561/A/1303:1308,
1/A/1329:1334		No text annotation
geometric
IL_8CRE_465
IL_85536.2
IL_8ZFI_0571/A/1399:1401,
1/A/1501:1504		No text annotation
geometric
IL_8CRE_466
IL_61438.4
IL_8ZFI_0581/A/1401:1404,
1/A/1497:1501		No text annotation
geometric
IL_8CRE_467
IL_65718.4
IL_8ZFI_0591/A/1405:1407,
1/A/1494:1496		Isolated non-canonical cWW pair
geometric
IL_8CRE_468
IL_87907.2
IL_8ZFI_0601/A/1407:1409,
1/A/1491:1494		No text annotation
geometric
IL_4LFB_070
IL_31531.3
IL_8ZFI_0611/A/1412:1414,
1/A/1486:1488		Isolated non-canonical cWW pair
geometric
IL_5J7L_061
IL_87907.2
IL_8ZFI_0621/A/1416:1419,
1/A/1481:1484		Double sheared
geometric
IL_5J7L_062
IL_09705.15
IL_8ZFI_0631/A/1430:1435,
1/A/1466:1470		Triple sheared related
geometric
IL_5J7L_063
IL_80231.1
IL_8ZFI_0641/A/1440:1442,
1/A/1460:1461		Minor groove platform
geometric
IL_6DLR_003
IL_51454.3
IL_8ZFI_0651/A/1445:1448,
1/A/1455:1457		No text annotation
geometric
IL_5J7L_065
IL_31531.3
IL_8ZFI_0661/a/17:18,
1/a/65:67		Major groove intercalation
geometric
IL_5J7L_355
IL_31462.7
IL_8ZFI_0671/a/23:28,
1/a/56:60		No text annotation
IL_8ZFI_0681/a/30:31,
1/a/51:54		Major groove minor groove platform; mini C-loop
geometric
IL_5J7L_357
IL_68140.4
IL_8ZFI_0691/a/34:38,
1/a/44:48		No text annotation
geometric
IL_7A0S_113
IL_58103.11
IL_8ZFI_0701/a/71:79,
1/a/97:105		Bacterial 5S Loop E
geometric
IL_5J7L_359
IL_56455.6
IL_8ZFI_0711/b/24:30,
1/b/510:516		Triple sheared with non-canonical cWW
geometric
IL_5J7L_245
IL_04021.2
IL_8ZFI_0721/b/36:37,
1/b/442:444		Single bulged A
geometric
IL_7A0S_002
IL_31462.7
IL_8ZFI_0731/b/39:41,
1/b/438:440		Isolated cWH basepair
geometric
IL_4KTG_002
IL_10167.6
IL_8ZFI_0741/b/43:44,
1/b/434:436		Minor groove platform
geometric
IL_5J7L_247
IL_51454.3
IL_8ZFI_0751/b/81:85,
1/b/97:105		No text annotation
geometric
IL_5J7L_248
IL_37015.1
IL_8ZFI_0761/b/183:184,
1/b/212:214		Single stack bend
geometric
IL_7A0S_005
IL_90729.1
IL_8ZFI_0771/b/188:194,
1/b/201:208		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_250
IL_04346.10
IL_8ZFI_0781/b/239:245,
1/b/253:258		7x6 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_251
IL_26307.2
IL_8ZFI_0791/b/269:271,
1/b/366:370		No text annotation
geometric
IL_5J7L_252
IL_47972.1
IL_8ZFI_0801/b/273:275,
1/b/363:364		Single stack bend
geometric
IL_8P9A_238
IL_90729.1
IL_8ZFI_0811/b/275:281,
1/b/359:363		No text annotation
IL_8ZFI_0821/b/283:286,
1/b/354:357		Tandem non-canonical cWW pairs
geometric
IL_6JDV_002
IL_85033.2
IL_8ZFI_0831/b/293:295,
1/b/343:347		No text annotation
geometric
IL_4WF9_014
IL_69440.3
IL_8ZFI_0841/b/481:484,
1/b/496:509		No text annotation
geometric
IL_5J7L_255
IL_81516.2
IL_8ZFI_0851/b/536:539,
1/b/554:557		Double sheared
geometric
IL_5J7L_256
IL_09705.15
IL_8ZFI_0861/b/564:566,
1/b/575:577		Isolated non-canonical cWW pair
geometric
IL_4WF9_017
IL_07785.1
IL_8ZFI_0881/b/606:610,
1/b/618:622		AAA cross-strand stack
geometric
IL_5J7L_258
IL_66798.2
IL_8ZFI_0891/b/672:674,
1/b/806:808		Isolated non-canonical cWW pair
geometric
IL_4WF9_020
IL_87907.2
IL_8ZFI_0901/b/674:678,
1/b/799:806		tHW-tHW cross-strand stack
geometric
IL_5J7L_260
IL_54041.2
IL_8ZFI_0911/b/697:698,
1/b/763:765		Single bulged A
geometric
IL_4V9F_025
IL_31462.7
IL_8ZFI_0921/b/702:703,
1/b/728:730		Single bulged G
geometric
IL_7A0S_017
IL_00225.14
IL_8ZFI_0931/b/703:707,
1/b/724:728		Triple sheared
geometric
IL_5J7L_263
IL_50730.2
IL_8ZFI_0941/b/738:741,
1/b/756:758		Major groove platform with extra cWW
geometric
IL_4V9F_028
IL_51387.3
IL_8ZFI_0951/b/775:777,
1/b/787:791		Multiple bulged bases
geometric
IL_5J7L_265
IL_06549.2
IL_8ZFI_0961/b/844:848,
1/b/930:934		No text annotation
IL_8ZFI_0971/b/849:851,
1/b/926:929		No text annotation
geometric
IL_4N0T_004
IL_99358.1
IL_8ZFI_0981/b/856:862,
1/b/915:921		7x7 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_5J7L_270
IL_29198.2
IL_8ZFI_0991/b/862:863,
1/b/913:915		Single bulged G
geometric
IL_5J7L_271
IL_00225.14
IL_8ZFI_1001/b/864:868,
1/b/909:912		C-loop with bulged stacked A's
geometric
IL_5J7L_272
IL_26222.2
IL_8ZFI_1011/b/870:872,
1/b/905:907		Isolated non-canonical cWW pair
geometric
IL_5J7L_273
IL_28037.2
IL_8ZFI_1021/b/875:879,
1/b/898:902		No text annotation
IL_8ZFI_1031/b/994:996,
1/b/1159:1160		Single bulged C
geometric
IL_5J7L_276
IL_61258.15
IL_8ZFI_1041/b/998:1002,
1/b/1153:1157		UAA/GAN
geometric
IL_7A0S_033
IL_38507.2
IL_8ZFI_1051/b/1004:1011,
1/b/1150:1151		SSU/LSU pseudoknot
geometric
IL_4WF9_037
IL_41203.4
IL_8ZFI_1061/b/1011:1013,
1/b/1149:1150		Single bulged U
geometric
IL_5J7L_279
IL_89505.4
IL_8ZFI_1071/b/1018:1024,
1/b/1140:1144		Kink-turn related
geometric
IL_4WF9_039
IL_57188.5
IL_8ZFI_1081/b/1024:1030,
1/b/1124:1140		No text annotation
geometric
IL_5J7L_281
IL_50715.3
IL_8ZFI_1091/b/1031:1034,
1/b/1121:1123		Isolated non-canonical cWW pair
geometric
IL_7A0S_038
IL_57744.1
IL_8ZFI_1101/b/1038:1041,
1/b/1114:1117		Tandem non-canonical cWW pairs
geometric
IL_8P9A_327
IL_85033.2
IL_8ZFI_1111/b/1043:1053,
1/b/1106:1112		No text annotation
IL_8ZFI_1121/b/1196:1198,
1/b/1247:1250		Isolated cWS basepair
geometric
IL_4WF9_044
IL_42997.3
IL_8ZFI_1131/b/1202:1206,
1/b/1240:1243		No text annotation
geometric
IL_5J7L_287
IL_91920.1
IL_8ZFI_1141/b/1208:1215,
1/b/1234:1238		Kink-turn
geometric
IL_5G4T_002
IL_70923.9
IL_8ZFI_1151/b/1262:1269,
1/b/2011:2017		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_289
IL_04346.10
IL_8ZFI_1161/b/1303:1305,
1/b/1623:1625		Isolated cWH basepair
geometric
IL_3R1D_002
IL_10167.6
IL_8ZFI_1171/b/1310:1313,
1/b/1603:1604		Major groove platform; stack outside cWW
geometric
IL_4V9F_008
IL_50694.7
IL_8ZFI_1181/b/1319:1323,
1/b/1331:1333		Major groove minor groove platform with tHH
geometric
IL_4WF9_050
IL_83150.2
IL_8ZFI_1191/b/1351:1355,
1/b/1376:1380		UAA/GAN
geometric
IL_5J7L_292
IL_89021.2
IL_8ZFI_1201/b/1357:1361,
1/b/1370:1374		tSH-tHW-tHS
geometric
IL_5J7L_293
IL_17136.7
IL_8ZFI_1211/b/1415:1416,
1/b/1582:1587		No text annotation
geometric
IL_5J7L_294
IL_87211.1
IL_8ZFI_1221/b/1417:1421,
1/b/1577:1581		UAA/GAN
geometric
IL_5J7L_295
IL_38507.2
IL_8ZFI_1231/b/1432:1435,
1/b/1557:1561		No text annotation
IL_8ZFI_1241/b/1437:1440,
1/b/1551:1555		tSH-tHW
geometric
IL_5J7L_297
IL_99646.2
IL_8ZFI_1251/b/1450:1451,
1/b/1459:1461		Single bulged U
geometric
IL_5J7L_298
IL_89505.4
IL_8ZFI_1261/b/1468:1471,
1/b/1520:1524		No text annotation
geometric
IL_5J7L_299
IL_68574.4
IL_8ZFI_1271/b/1474:1478,
1/b/1513:1517		tSH-tHW-tHS
geometric
IL_5J7L_300
IL_38862.4
IL_8ZFI_1281/b/1481:1482,
1/b/1507:1510		No text annotation
IL_8ZFI_1301/b/1489:1491,
1/b/1499:1500		Single bulged A
geometric
IL_5J7L_302
IL_31462.7
IL_8ZFI_1311/b/1526:1529,
1/b/1542:1546		UAA/GAN variation
geometric
IL_5J7L_303
IL_23774.1
IL_8ZFI_1321/b/1651:1656,
1/b/2004:2006		No text annotation
geometric
IL_5J7L_304
IL_12566.4
IL_8ZFI_1331/b/1663:1665,
1/b/1995:1997		Isolated tWW turn
geometric
IL_7A0S_060
IL_67095.2
IL_8ZFI_1341/b/1666:1669,
1/b/1993:1994		No text annotation
geometric
IL_8CRE_081
IL_50694.7
IL_8ZFI_1351/b/1686:1691,
1/b/1696:1702		tSH-tSH-tHH-tHS
geometric
IL_5J7L_308
IL_47346.2
IL_8ZFI_1361/b/1712:1718,
1/b/1742:1746		6x5 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_309
IL_88269.4
IL_8ZFI_1371/b/1720:1724,
1/b/1736:1740		Triple sheared
geometric
IL_5J7L_310
IL_50730.2
IL_8ZFI_1381/b/1727:1728,
1/b/1731:1733		Single bulged C
geometric
IL_5J7L_311
IL_61258.15
IL_8ZFI_1391/b/1770:1771,
1/b/1980:1982		Single bulged A
geometric
IL_5J7L_312
IL_31462.7
IL_8ZFI_1401/b/1798:1804,
1/b/1813:1821		Kink-turn related
geometric
IL_5J7L_313
IL_17069.5
IL_8ZFI_1411/b/1837:1840,
1/b/1902:1903		Minor groove platform, major groove intercalation
geometric
IL_5J7L_314
IL_95583.2
IL_8ZFI_1421/b/1841:1842,
1/b/1898:1901		Major groove intercalation
geometric
IL_4V9F_067
IL_82107.5
IL_8ZFI_1431/b/1846:1849,
1/b/1893:1894		Major groove minor groove platform; mini C-loop
geometric
IL_5J7L_316
IL_68140.4
IL_8ZFI_1441/b/1851:1860,
1/b/1882:1891		No text annotation
geometric
IL_5J7L_387
IL_61249.1
IL_8ZFI_1451/b/1864:1867,
1/b/1874:1878		UAA/GAN related
geometric
IL_5J7L_317
IL_77691.5
IL_8ZFI_1461/b/1933:1934,
1/b/1964:1967		Bulged stacked bases
geometric
IL_5J7L_318
IL_22551.4
IL_8ZFI_1471/b/1934:1945,
1/b/1961:1964		No text annotation
geometric
IL_4WF9_077
IL_42218.2
IL_8ZFI_1481/b/2050:2052,
1/b/2617:2618		Major groove platform
geometric
IL_7A0S_073
IL_48076.6
IL_8ZFI_1491/b/2054:2056,
1/b/2612:2615		No text annotation
geometric
IL_5J7L_321
IL_83389.2
IL_8ZFI_1501/b/2067:2069,
1/b/2442:2443		Single bulged U
geometric
IL_4V9F_074
IL_89505.4
IL_8ZFI_1511/b/2070:2071,
1/b/2438:2441		Minor groove platform
geometric
IL_4V9F_075
IL_51454.3
IL_8ZFI_1521/b/2081:2083,
1/b/2236:2239		Isolated tHS basepair with bulges
geometric
IL_5J7L_325
IL_85599.2
IL_8ZFI_1531/b/2085:2087,
1/b/2232:2234		Isolated non-canonical cWW pair
geometric
IL_5J7L_326
IL_28037.2
IL_8ZFI_1541/b/2098:2107,
1/b/2182:2191		No text annotation
IL_8ZFI_1551/b/2107:2110,
1/b/2179:2182		No text annotation
IL_8ZFI_1561/b/2110:2120,
1/b/2178:2179		No text annotation
IL_8ZFI_1571/b/2124:2128,
1/b/2160:2174		No text annotation
IL_8ZFI_1581/b/2129:2141,
1/b/2150:2159		No text annotation
IL_8ZFI_1591/b/2202:2204,
1/b/2220:2221		Single bulged U
geometric
IL_5J7L_331
IL_89505.4
IL_8ZFI_1601/b/2297:2299,
1/b/2317:2321		No text annotation
geometric
IL_5J7L_332
IL_61476.2
IL_8ZFI_1611/b/2350:2353,
1/b/2364:2367		Double sheared
geometric
IL_5J7L_333
IL_09705.15
IL_8ZFI_1621/b/2401:2403,
1/b/2414:2415		Major groove intercalation
geometric
IL_1ET4_002
IL_89505.4
IL_8ZFI_1631/b/2453:2455,
1/b/2496:2500		No text annotation
IL_8ZFI_1641/b/2457:2459,
1/b/2493:2494		Major groove platform
geometric
IL_9DFE_093
IL_48076.6
IL_8ZFI_1651/b/2459:2461,
1/b/2489:2493		Major groove minor groove platform with extra cWW
geometric
IL_5J7L_337
IL_51387.3
IL_8ZFI_1661/b/2466:2470,
1/b/2480:2484		Double sheared with non-canonical cWW
geometric
IL_4WF9_093
IL_17948.2
IL_8ZFI_1671/b/2507:2508,
1/b/2580:2582		Major groove platform
geometric
IL_7A0S_088
IL_07039.3
IL_8ZFI_1681/b/2510:2512,
1/b/2574:2578		Isolated non-canonical cWW with bulges
geometric
IL_5J7L_340
IL_07785.1
IL_8ZFI_1691/b/2512:2513,
1/b/2571:2574		No text annotation
geometric
IL_5J7L_341
IL_42626.2
IL_8ZFI_1701/b/2522:2523,
1/b/2540:2543		Major groove platform with intercalation
geometric
IL_7A0S_091
IL_02555.1
IL_8ZFI_1711/b/2589:2591,
1/b/2603:2605		Isolated cWH basepair
geometric
IL_4J50_001
IL_10167.6
IL_8ZFI_1721/b/2591:2592,
1/b/2601:2603		Single bulged A
geometric
IL_8P9A_399
IL_31462.7
IL_8ZFI_1731/b/2592:2594,
1/b/2599:2601		Isolated cWH basepair
geometric
IL_8CRE_411
IL_10167.6
IL_8ZFI_1751/b/2636:2640,
1/b/2774:2782		tSH-tHS-tHW
geometric
IL_5J7L_345
IL_04638.3
IL_8ZFI_1761/b/2652:2658,
1/b/2663:2668		Sarcin-Ricin target in LSU H95; G-bulge
geometric
IL_7A0S_094
IL_16458.4
IL_8ZFI_1771/b/2680:2684,
1/b/2725:2727		C-loop
geometric
IL_4WF9_101
IL_63596.11
IL_8ZFI_1781/b/2687:2691,
1/b/2718:2722		UAA/GAN related, with intercalation
geometric
IL_4WF9_102
IL_23774.1
IL_8ZFI_1791/b/2695:2696,
1/b/2711:2714		Multiple bulged bases
geometric
IL_4WF9_103
IL_42626.2
IL_8ZFI_1801/b/2737:2742,
1/b/2762:2767		UAA/GAN with extra cWW
geometric
IL_5J7L_350
IL_49767.8
IL_8ZFI_1811/b/2795:2796,
1/b/2799:2801		Single bulged A
geometric
IL_4WF9_022
IL_31462.7
IL_8ZFI_1821/b/2806:2811,
1/b/2889:2892		No text annotation
geometric
IL_5J7L_351
IL_29471.1
IL_8ZFI_1831/b/2838:2839,
1/b/2878:2880		Major groove intercalation
geometric
IL_5J7L_352
IL_66635.5
IL_8ZFI_1841/b/2843:2846,
1/b/2870:2874		Multiple bulged bases with non-canonical cWW
geometric
IL_5J7L_353
IL_64231.5
IL_8ZFI_1851/b/2847:2852,
1/b/2865:2869		tHS double platform
geometric
IL_5J7L_354
IL_70411.2

Problematic loops

#loop idProblemSequence
IL_8ZFI_087Isolated cWH basepair
IL_8ZFI_129Isolated cWH basepair
IL_8ZFI_174Isolated cWH basepair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8ZFI_0011/A/46:47,
1/A/361:367,
1/A/393:395		No text annotation
geometric
J3_5J7L_001
J3_67856.4
J3_8ZFI_0021/A/46:52,
1/A/359:367,
1/A/393:395		No text annotation
geometric
J3_5J7L_050
J3_46317.4
J3_8ZFI_0031/A/586:588,
1/A/651:654,
1/A/754:755		No text annotation
geometric
J3_4LFB_011
J3_56052.5
J3_8ZFI_0041/A/586:588,
1/A/651:655,
1/A/751:755		No text annotation
geometric
J3_4LFB_015
J3_17385.4
J3_8ZFI_0051/A/672:673,
1/A/717:725,
1/A/732:734		No text annotation
geometric
J3_4LFB_012
J3_11934.4
J3_8ZFI_0061/A/826:829,
1/A/857:861,
1/A/868:874		No text annotation
geometric
J3_5J7L_004
J3_85054.4
J3_8ZFI_0071/A/936:939,
1/A/1344:1350,
1/A/1372:1379		No text annotation
geometric
J3_5J7L_052
J3_25303.4
J3_8ZFI_0081/A/943:946,
1/A/1235:1237,
1/A/1337:1340		No text annotation
geometric
J3_4LFB_003
J3_52655.4
J3_8ZFI_0091/A/955:962,
1/A/973:984,
1/A/1221:1225		No text annotation
geometric
J3_4LFB_004
J3_83516.4
J3_8ZFI_0101/A/990:993,
1/A/1045:1047,
1/A/1210:1215		No text annotation
geometric
J3_5J7L_007
J3_82572.1
J3_8ZFI_0111/A/990:997,
1/A/1044:1047,
1/A/1210:1215		No text annotation
geometric
J3_4LFB_016
J3_76475.2
J3_8ZFI_0121/A/1002:1007,
1/A/1022:1027,
1/A/1034:1038		No text annotation
J3_8ZFI_0131/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193		No text annotation
geometric
J3_5J7L_008
J3_08394.3
J3_8ZFI_0141/A/1073:1074,
1/A/1083:1086,
1/A/1099:1102		No text annotation
geometric
J3_4LFB_017
J3_79369.1
J3_8ZFI_0151/A/1116:1118,
1/A/1155:1161,
1/A/1175:1184		No text annotation
geometric
J3_5J7L_054
J3_17791.2
J3_8ZFI_0161/A/1237:1241,
1/A/1296:1303,
1/A/1334:1337		No text annotation
geometric
J3_5J7L_011
J3_37047.6
J3_8ZFI_0171/a/10:16,
1/a/68:70,
1/a/106:110		No text annotation
geometric
J3_5J7L_049
J3_89095.1
J3_8ZFI_0181/b/30:31,
1/b/474:481,
1/b/509:510		No text annotation
geometric
J3_8P9A_046
J3_60031.2
J3_8ZFI_0191/b/30:31,
1/b/474:484,
1/b/496:510		No text annotation
geometric
J3_4WF9_011
J3_92134.2
J3_8ZFI_0201/b/32:35,
1/b/445:461,
1/b/468:473		No text annotation
geometric
J3_5J7L_067
J3_30040.2
J3_8ZFI_0211/b/56:57,
1/b/70:76,
1/b/110:114		No text annotation
geometric
J3_5J7L_037
J3_35667.2
J3_8ZFI_0221/b/297:301,
1/b/316:325,
1/b/337:341		No text annotation
geometric
J3_5J7L_068
J3_46299.2
J3_8ZFI_0231/b/683:689,
1/b/773:775,
1/b/791:794		No text annotation
geometric
J3_5J7L_038
J3_64189.2
J3_8ZFI_0241/b/698:700,
1/b/732:736,
1/b/760:763		No text annotation
geometric
J3_4WF9_003
J3_44724.7
J3_8ZFI_0251/b/1053:1063,
1/b/1076:1091,
1/b/1100:1106		No text annotation
J3_8ZFI_0261/b/1298:1303,
1/b/1625:1627,
1/b/1639:1642		No text annotation
geometric
J3_5J7L_041
J3_32852.6
J3_8ZFI_0271/b/1306:1309,
1/b/1605:1611,
1/b/1620:1622		No text annotation
geometric
J3_5J7L_042
J3_19545.2
J3_8ZFI_0281/b/1344:1350,
1/b/1381:1385,
1/b/1402:1403		No text annotation
J3_8ZFI_0291/b/1424:1429,
1/b/1564:1565,
1/b/1568:1574		No text annotation
geometric
J3_7A0S_019
J3_34864.2
J3_8ZFI_0301/b/2091:2093,
1/b/2196:2200,
1/b/2223:2228		Kink-turn 3-way junction
geometric
J3_5J7L_044
J3_89368.5
J3_8ZFI_0311/b/2295:2297,
1/b/2321:2323,
1/b/2332:2337		No text annotation
geometric
J3_5J7L_045
J3_61124.2
J3_8ZFI_0321/b/2295:2299,
1/b/2317:2323,
1/b/2332:2337		No text annotation
geometric
J3_5J7L_071
J3_44961.1
J3_8ZFI_0331/b/2517:2520,
1/b/2545:2547,
1/b/2561:2567		No text annotation
geometric
J3_5J7L_046
J3_32601.5
J3_8ZFI_0341/b/2789:2791,
1/b/2805:2806,
1/b/2892:2894		No text annotation
J3_8ZFI_0351/b/2812:2815,
1/b/2831:2836,
1/b/2882:2888		No text annotation
geometric
J3_5J7L_048
J3_64069.1
J4_8ZFI_0011/A/115:122,
1/A/239:240,
1/A/286:289,
1/A/311:312		No text annotation
J4_8ZFI_0021/A/142:144,
1/A/178:184,
1/A/193:202,
1/A/215:221		No text annotation
J4_8ZFI_0031/A/575:577,
1/A/764:769,
1/A/810:821,
1/A/879:880		No text annotation
J4_8ZFI_0041/X/3:10,
1/X/25:27,
1/X/43:49,
1/X/65:70		No text annotation
J4_8ZFI_0051/Y/5:10,
1/Y/26:28,
1/Y/44:50,
1/Y/66:69		No text annotation
J4_8ZFI_0061/Z/7:10,
1/Z/26:28,
1/Z/44:50,
1/Z/66:67		No text annotation
J4_8ZFI_0071/b/268:269,
1/b/370:375,
1/b/399:406,
1/b/421:424		No text annotation
J4_8ZFI_0081/b/297:301,
1/b/316:319,
1/b/323:325,
1/b/337:341		No text annotation
J4_8ZFI_0091/b/601:604,
1/b/624:628,
1/b/635:638,
1/b/650:656		No text annotation
J4_8ZFI_0101/b/1270:1276,
1/b/1294:1295,
1/b/1645:1648,
1/b/2009:2010		No text annotation
J4_8ZFI_0111/b/1310:1314,
1/b/1338:1343,
1/b/1404:1405,
1/b/1597:1604		No text annotation
J4_8ZFI_0121/b/1313:1314,
1/b/1338:1343,
1/b/1404:1405,
1/b/1597:1603		No text annotation
J4_8ZFI_0131/b/1444:1445,
1/b/1466:1467,
1/b/1525:1526,
1/b/1546:1547		No text annotation
J4_8ZFI_0141/b/1772:1776,
1/b/1788:1792,
1/b/1827:1830,
1/b/1975:1979		No text annotation
J4_8ZFI_0151/b/1833:1835,
1/b/1905:1906,
1/b/1924:1933,
1/b/1967:1972		No text annotation
J4_8ZFI_0161/b/2285:2289,
1/b/2343:2347,
1/b/2370:2372,
1/b/2381:2383		No text annotation
J4_8ZFI_0171/b/2643:2646,
1/b/2674:2676,
1/b/2731:2735,
1/b/2769:2771		No text annotation
J5_8ZFI_0011/A/36:39,
1/A/403:406,
1/A/436:440,
1/A/497:500,
1/A/545:548		No text annotation
J5_8ZFI_0021/A/36:39,
1/A/403:406,
1/A/436:442,
1/A/492:500,
1/A/545:548		No text annotation
J5_8ZFI_0031/A/58:61,
1/A/106:113,
1/A/314:316,
1/A/337:339,
1/A/350:354		No text annotation
J5_8ZFI_0041/b/46:54,
1/b/116:121,
1/b/130:131,
1/b/148:150,
1/b/176:179		No text annotation
J5_8ZFI_0051/b/531:533,
1/b/560:564,
1/b/577:579,
1/b/1261:1262,
1/b/2017:2018		No text annotation
J5_8ZFI_0061/b/584:589,
1/b/668:671,
1/b/809:812,
1/b/1195:1196,
1/b/1250:1256		No text annotation
J5_8ZFI_0071/b/1666:1682,
1/b/1706:1707,
1/b/1751:1752,
1/b/1756:1764,
1/b/1988:1994		No text annotation
J5_8ZFI_0081/b/1669:1682,
1/b/1706:1707,
1/b/1751:1752,
1/b/1756:1764,
1/b/1988:1993		No text annotation
J5_8ZFI_0091/b/2057:2064,
1/b/2446:2453,
1/b/2500:2507,
1/b/2582:2588,
1/b/2606:2611		No text annotation
J6_8ZFI_0011/b/45:46,
1/b/179:183,
1/b/214:224,
1/b/231:235,
1/b/262:266,
1/b/426:433		No text annotation
J6_8ZFI_0021/b/2074:2077,
1/b/2243:2246,
1/b/2258:2259,
1/b/2281:2284,
1/b/2384:2395,
1/b/2421:2435		No text annotation
J7_8ZFI_0011/b/8:15,
1/b/525:531,
1/b/2018:2023,
1/b/2040:2043,
1/b/2625:2630,
1/b/2788:2789,
1/b/2894:2895		No text annotation
J7_8ZFI_0021/b/817:822,
1/b/835:838,
1/b/940:946,
1/b/971:976,
1/b/987:991,
1/b/1163:1164,
1/b/1185:1190		No text annotation

Problematic loops

No problematic loops


Coloring options:
Copyright 2025 BGSU RNA group. Page generated in 0.1017 s