Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4V4W_0011/AA/12:22No text annotation
homologous
HL_4LFB_001
HL_89881.5
HL_4V4W_0021/AA/80:89No text annotation
homologous
HL_4LFB_002
HL_31585.4
HL_4V4W_0031/AA/158:163GNRA
homologous
HL_4LFB_003
HL_37824.7
HL_4V4W_1201/AA/186:191No text annotation
HL_4V4W_0051/AA/200:217No text annotation
homologous
HL_6CZR_076
NA
HL_4V4W_0061/AA/259:267GNRA related
homologous
HL_4LFB_006
HL_84299.4
HL_4V4W_0071/AA/296:301GNRA
homologous
HL_5J7L_007
HL_37824.7
HL_4V4W_0081/AA/320:333No text annotation
homologous
HL_4LFB_008
HL_81205.3
HL_4V4W_0091/AA/342:347UNCG
homologous
HL_6CZR_080
NA
HL_4V4W_0101/AA/379:384GNRA
homologous
HL_6CZR_081
NA
HL_4V4W_0111/AA/419:424UNCG
homologous
HL_4LFB_011
HL_34617.5
HL_4V4W_0121/AA/458:474GNRA
homologous
HL_4LFB_012
HL_37824.7
HL_4V4W_0131/AA/522:527No text annotation
geometric
HL_4WF9_003
HL_75660.5
HL_4V4W_0141/AA/617:623No text annotation
homologous
HL_4LFB_014
HL_10453.3
HL_4V4W_0151/AA/689:698No text annotation
homologous
HL_4LFB_015
HL_75293.5
HL_4V4W_0161/AA/726:731GNRA
homologous
HL_5J7L_016
HL_37824.7
HL_4V4W_0171/AA/786:796No text annotation
homologous
HL_4LFB_017
HL_75293.5
HL_4V4W_1211/AA/838:848Mini UNCG
homologous
HL_6CZR_089
NA
HL_4V4W_0191/AA/862:867GNRA
homologous
HL_4LFB_019
HL_37824.7
HL_4V4W_0201/AA/897:902GNRA
homologous
HL_4LFB_020
HL_37824.7
HL_4V4W_0211/AA/963:972No text annotation
homologous
HL_4LFB_021
HL_50779.4
HL_4V4W_1091/AA/1012:1017GNRA
homologous
HL_4LFB_022
HL_37824.7
HL_4V4W_0231/AA/1028:1033No text annotation
geometric
HL_1WZ2_007
HL_75660.5
HL_4V4W_0241/AA/1076:1081GNRA
homologous
HL_5J7L_023
HL_37824.7
HL_4V4W_0251/AA/1089:1096T-loop related
homologous
HL_4LFB_025
HL_77436.5
HL_4V4W_0261/AA/1134:1140No text annotation
homologous
HL_4LFB_026
HL_87954.2
HL_4V4W_0271/AA/1165:1171GNRA
homologous
HL_4LFB_027
HL_37824.7
HL_4V4W_0281/AA/1265:1270No text annotation
homologous
HL_6CZR_099
NA
HL_4V4W_0291/AA/1314:1323T-loop with 3 stacked bulged bases
homologous
HL_5J7L_028
HL_02887.3
HL_4V4W_0301/AA/1356:1366No text annotation
homologous
HL_4LFB_030
HL_06226.4
HL_4V4W_0311/AA/1449:1454UNCG
homologous
HL_5J7L_030
HL_34617.5
HL_4V4W_0321/AA/1515:1520GNRA variation
geometric
HL_4V88_222
NA
HL_4V4W_0331/AU/13:22tRNA D-loop
homologous
HL_6JXM_001
HL_20811.4
HL_4V4W_0341/AU/30:40No text annotation
homologous
HL_5IB8_208
HL_36684.4
HL_4V4W_0351/AU/53:61T-loop with 2 stacked bulged bases
homologous
HL_4V90_034
HL_28252.8
HL_4V4W_0361/AV/13:22No text annotation
homologous
HL_3WFS_001
NA
HL_4V4W_0371/AV/30:40No text annotation
homologous
HL_5IB8_208
HL_36684.4
HL_4V4W_0381/AV/53:61T-loop with 2 stacked bulged bases
homologous
HL_4V90_034
HL_28252.8
HL_4V4W_0391/AW/13:22tRNA D-loop
homologous
HL_6JXM_001
HL_20811.4
HL_4V4W_0401/AW/30:40No text annotation
homologous
HL_5IB8_208
HL_36684.4
HL_4V4W_0411/AW/53:61No text annotation
homologous
HL_2AKE_003
NA
HL_4V4W_0421/B0/59:68No text annotation
homologous
HL_7RQB_001
NA
HL_4V4W_1121/B0/87:95No text annotation
homologous
HL_9DFE_002
HL_77600.2
HL_4V4W_0441/B0/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.5
HL_4V4W_0451/B0/154:172No text annotation
geometric
HL_4V9F_005
HL_87954.2
HL_4V4W_0461/B0/194:201No text annotation
geometric
HL_4V9F_006
HL_30068.2
HL_4V4W_0471/B0/225:230No text annotation
HL_4V4W_0481/B0/246:252No text annotation
homologous
HL_4WF9_008
HL_37369.2
HL_4V4W_0491/B0/305:312T-loop with 2 stacked bulged bases
homologous
HL_5J7L_142
HL_01609.3
HL_4V4W_0501/B0/327:335T-loop with unstacked turn
homologous
HL_4WF9_012
HL_27670.2
HL_4V4W_0511/B0/381:393No text annotation
geometric
HL_4V9F_013
HL_87463.1
HL_4V4W_0521/B0/410:417No text annotation
homologous
HL_7RQB_014
NA
HL_4V4W_0531/B0/462:467GNRA
homologous
HL_4WF9_015
HL_37824.7
HL_4V4W_0541/B0/543:551No text annotation
HL_4V4W_0551/B0/566:575T-loop with 2 stacked bulged bases
geometric
HL_4V9F_010
HL_01609.3
HL_4V4W_0561/B0/606:622No text annotation
HL_4V4W_0571/B0/628:635GNRA with extra cWW
geometric
HL_7A0S_056
HL_04259.3
HL_4V4W_0581/B0/641:647No text annotation
homologous
HL_7RQB_021
NA
HL_4V4W_0591/B0/712:719GNRA wlth tandem sheared
homologous
HL_5J7L_154
HL_81538.2
HL_4V4W_0601/B0/744:753No text annotation
geometric
HL_5J7L_143
HL_75660.5
HL_4V4W_0611/B0/779:785UNCG
geometric
HL_6JQ6_004
HL_34617.5
HL_4V4W_0621/B0/826:831No text annotation
homologous
HL_7A0S_024
HL_55195.3
HL_4V4W_0631/B0/883:893No text annotation
HL_4V4W_1221/B0/955:962No text annotation
geometric
HL_8CRE_038
HL_75660.5
HL_4V4W_0651/B0/978:985No text annotation
homologous
HL_7RQB_028
NA
HL_4V4W_0661/B0/1064:1074No text annotation
homologous
HL_6PRV_001
HL_19210.3
HL_4V4W_0671/B0/1092:1099GNRA wlth tandem sheared
homologous
HL_6PRV_002
HL_81538.2
HL_4V4W_1231/B0/1171:1178GNRA
geometric
HL_7WKP_001
HL_37824.7
HL_4V4W_0691/B0/1222:1227GNRA
homologous
HL_7RQB_032
NA
HL_4V4W_0701/B0/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_7A0S_032
HL_28252.8
HL_4V4W_1151/B0/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_7A0S_033
HL_57176.2
HL_4V4W_0721/B0/1363:1368Externally structured
geometric
HL_5TBW_022
NA
HL_4V4W_0731/B0/1389:1398No text annotation
homologous
HL_5J7L_168
HL_81545.2
HL_4V4W_0741/B0/1451:1461No text annotation
HL_4V4W_0751/B0/1486:1502No text annotation
HL_4V4W_0761/B0/1612:1619No text annotation
homologous
HL_4WF9_038
HL_89567.2
HL_4V4W_1161/B0/1630:1636No text annotation
HL_4V4W_0781/B0/1691:1696UNCG
homologous
HL_5J7L_175
HL_34617.5
HL_4V4W_0791/B0/1718:1741No text annotation
homologous
HL_7RQB_043
NA
HL_4V4W_0801/B0/1752:1756No text annotation
homologous
HL_7RQB_044
NA
HL_4V4W_0811/B0/1777:1787No text annotation
homologous
HL_7RQB_045
NA
HL_4V4W_0821/B0/1806:1811GNRA
homologous
HL_7RQB_046
NA
HL_4V4W_0831/B0/1864:1878No text annotation
geometric
HL_5J7L_151
HL_80922.2
HL_4V4W_1171/B0/1911:1919tRNA anticodon loop
geometric
HL_4MGN_003
HL_06059.6
HL_4V4W_0851/B0/1949:1957No text annotation
homologous
HL_7RQB_049
NA
HL_4V4W_0861/B0/2027:2036No text annotation
homologous
HL_4WF9_047
HL_61996.2
HL_4V4W_0871/B0/2108:2182No text annotation
HL_4V4W_0881/B0/2209:2215GNRA
geometric
HL_6N2V_003
HL_37824.7
HL_4V4W_0891/B0/2248:2256No text annotation
homologous
HL_7RQB_053
NA
HL_4V4W_0901/B0/2264:2276No text annotation
homologous
HL_4WF9_050
HL_91939.2
HL_4V4W_0911/B0/2303:2313No text annotation
HL_4V4W_0921/B0/2324:2331Pseudoknot geometry
homologous
HL_4WF9_052
HL_93324.4
HL_4V4W_1241/B0/2355:2362No text annotation
HL_4V4W_0941/B0/2374:2379GNRA
homologous
HL_4WF9_054
HL_37824.7
HL_4V4W_0951/B0/2404:2413No text annotation
geometric
HL_4V83_139
NA
HL_4V4W_1181/B0/2466:2484No text annotation
HL_4V4W_0961/B0/2470:2480No text annotation
geometric
HL_4V9F_019
HL_80922.2
HL_4V4W_0971/B0/2528:2535No text annotation
homologous
HL_7RQB_061
NA
HL_4V4W_0981/B0/2549:2559No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_4V4W_0991/B0/2594:2599GNRA
homologous
HL_7A0S_062
HL_37824.7
HL_4V4W_1001/B0/2658:2663GNRA
homologous
HL_7A0S_063
HL_37824.7
HL_4V4W_1011/B0/2700:2707Ribsomal LSU H95
homologous
HL_7A0S_064
HL_65794.5
HL_4V4W_1021/B0/2745:2759No text annotation
homologous
HL_4WF9_062
HL_74055.2
HL_4V4W_1031/B0/2819:2827No text annotation
homologous
HL_5J7L_201
HL_64690.6
HL_4V4W_1041/B0/2854:2863No text annotation
HL_4V4W_1251/B9/34:48No text annotation
homologous
HL_4V9F_074
HL_97756.2
HL_4V4W_1061/B9/86:90No text annotation
geometric
HL_4V9F_003
HL_75660.5

Problematic loops

#loop idProblemSequence
HL_4V4W_107GNRA with near cWW
HL_4V4W_004No text annotation
HL_4V4W_108No text annotation
HL_4V4W_018No text annotation
HL_4V4W_022No text annotation
HL_4V4W_110No text annotation
HL_4V4W_111No text annotation
HL_4V4W_043No text annotation
HL_4V4W_113No text annotation
HL_4V4W_114No text annotation
HL_4V4W_064No text annotation
HL_4V4W_068Anticodon loop related
HL_4V4W_071No text annotation
HL_4V4W_077GNRA with extra cWW
HL_4V4W_084No text annotation
HL_4V4W_093No text annotation
HL_4V4W_119No text annotation
HL_4V4W_105No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4V4W_1121/AA/44:45,
1/AA/396:398
Single bulged A
homologous
IL_4LFB_002
IL_31462.6
IL_4V4W_0021/AA/54:56,
1/AA/356:357
Minor groove platform
homologous
IL_4LFB_004
IL_51454.3
IL_4V4W_0031/AA/63:66,
1/AA/103:104
Multiple bulged bases
homologous
IL_4LFB_005
IL_82107.4
IL_4V4W_1131/AA/67:69,
1/AA/99:102
Isolated non-canonical cWW pair
homologous
IL_4LFB_006
IL_87907.2
IL_4V4W_0051/AA/128:131,
1/AA/231:233
Isolated non-canonical cWW pair
homologous
IL_5J7L_009
IL_57744.1
IL_4V4W_0061/AA/132:136,
1/AA/227:230
No text annotation
homologous
IL_4LFB_008
IL_64231.5
IL_4V4W_0071/AA/144:146,
1/AA/176:178
Isolated non-canonical cWW pair
geometric
IL_4WF9_042
IL_87907.2
IL_4V4W_0081/AA/147:153,
1/AA/168:175
tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
IL_80604.6
IL_4V4W_0091/AA/242:247,
1/AA/277:284
Kink-turn with non-sequential stacking
homologous
IL_4LFB_011
IL_46174.3
IL_4V4W_1141/AA/249:252,
1/AA/274:275
No text annotation
homologous
IL_4LFB_012
IL_47074.2
IL_4V4W_0111/AA/292:293,
1/AA/304:308
C-loop
homologous
IL_4LFB_013
IL_03109.3
IL_4V4W_0121/AA/371:375,
1/AA/389:390
C-loop
geometric
IL_4LFB_015
IL_03109.3
IL_4V4W_1161/AA/371:376,
1/AA/387:390
No text annotation
IL_4V4W_0131/AA/375:377,
1/AA/386:389
Single bulged G, near cWW
homologous
IL_6CZR_128
NA
IL_4V4W_1541/AA/409:416,
1/AA/427:433
No text annotation
IL_4V4W_1551/AA/446:455,
1/AA/477:488
No text annotation
IL_4V4W_0151/AA/504:511,
1/AA/540:541
SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_41203.4
IL_4V4W_1191/AA/504:512,
1/AA/539:541
Isolated non-canonical cWW pair
geometric
IL_4V83_235
IL_07785.1
IL_4V4W_0161/AA/515:521,
1/AA/528:536
Kink-turn related
geometric
IL_4V88_415
NA
IL_4V4W_1561/AA/580:584,
1/AA/757:761
tSH-tHW-tHS
homologous
IL_4LFB_023
IL_17136.7
IL_4V4W_0181/AA/594:596,
1/AA/644:645
Major groove platform
homologous
IL_4LFB_024
IL_48076.6
IL_4V4W_0191/AA/597:598,
1/AA/640:643
Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_68140.4
IL_4V4W_1571/AA/605:612,
1/AA/628:633
No text annotation
homologous
IL_4LFB_026
IL_78349.3
IL_4V4W_1211/AA/657:659,
1/AA/746:749
No text annotation
geometric
IL_6DME_003
IL_55516.2
IL_4V4W_0221/AA/662:666,
1/AA/740:743
Tandem non-canonical cWW pairs
homologous
IL_4LFB_029
IL_85033.2
IL_4V4W_1221/AA/683:688,
1/AA/699:707
Kink-turn
homologous
IL_4LFB_031
IL_95727.1
IL_4V4W_0241/AA/774:778,
1/AA/804:805
Left turn
homologous
IL_4LFB_032
IL_29346.2
IL_4V4W_0251/AA/779:783,
1/AA/799:803
tSH-tHW-tHS
homologous
IL_4LFB_033
IL_17136.7
IL_4V4W_0261/AA/887:894,
1/AA/905:910
8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4LFB_034
IL_41756.4
IL_4V4W_0271/AA/922:923,
1/AA/1393:1395
Single bulged A
homologous
IL_5J7L_039
IL_31462.6
IL_4V4W_0281/AA/925:927,
1/AA/1390:1391
Single bulged G
homologous
IL_4LFB_036
IL_00225.13
IL_4V4W_0291/AA/933:936,
1/AA/1379:1384
No text annotation
homologous
IL_6CZR_149
NA
IL_4V4W_1581/AA/951:954,
1/AA/1226:1230
No text annotation
IL_4V4W_0301/AA/953:954,
1/AA/1226:1228
Minor groove platform
homologous
IL_4LFB_038
IL_51454.3
IL_4V4W_0311/AA/1025:1028,
1/AA/1033:1036
Tandem non-canonical cWW pairs
geometric
IL_6JDV_002
IL_85033.2
IL_4V4W_1251/AA/1048:1050,
1/AA/1208:1209
Single bulged U
homologous
IL_4LFB_042
IL_89505.4
IL_4V4W_0331/AA/1052:1056,
1/AA/1204:1206
Isolated cWS basepair
homologous
IL_4LFB_044
IL_76319.5
IL_4V4W_0341/AA/1057:1058,
1/AA/1199:1203
Minor groove platform
homologous
IL_5J7L_048
IL_95583.2
IL_4V4W_0351/AA/1060:1061,
1/AA/1195:1197
Single bulged A
geometric
IL_5J7L_049
IL_31462.6
IL_4V4W_1261/AA/1060:1063,
1/AA/1193:1197
Tandem non-canonical cWW pairs
geometric
IL_1D4R_001
IL_85033.2
IL_4V4W_0361/AA/1061:1063,
1/AA/1193:1195
Isolated non-canonical cWW pair
homologous
IL_4LFB_047
IL_28037.2
IL_4V4W_0371/AA/1121:1128,
1/AA/1143:1152
No text annotation
IL_4V4W_1271/AA/1123:1132,
1/AA/1142:1150
No text annotation
IL_4V4W_0381/AA/1128:1132,
1/AA/1142:1143
Minor groove platform
homologous
IL_4LFB_049
IL_15052.4
IL_4V4W_0391/AA/1255:1258,
1/AA/1277:1282
180 degree turn
homologous
IL_4LFB_052
IL_11344.2
IL_4V4W_0401/AA/1259:1263,
1/AA/1272:1276
Triple sheared
homologous
IL_5J7L_056
IL_17948.2
IL_4V4W_0411/AA/1303:1309,
1/AA/1328:1334
No text annotation
IL_4V4W_1281/AA/1404:1407,
1/AA/1494:1497
Tandem non-canonical cWW pairs
geometric
IL_4K27_001
IL_85033.2
IL_4V4W_0421/AA/1405:1407,
1/AA/1494:1496
Isolated non-canonical cWW pair
geometric
IL_4V88_465
NA
IL_4V4W_0431/AA/1407:1409,
1/AA/1491:1494
Decoding loop related
geometric
IL_3C3Z_002
IL_31737.3
IL_4V4W_0441/AA/1412:1414,
1/AA/1486:1488
Isolated non-canonical cWW pair
homologous
IL_4LFB_059
IL_87907.2
IL_4V4W_0451/AA/1416:1419,
1/AA/1481:1484
Double sheared
geometric
IL_3D0U_002
IL_09705.15
IL_4V4W_0461/AA/1430:1435,
1/AA/1466:1470
Triple sheared related
homologous
IL_5J7L_063
IL_80231.1
IL_4V4W_0471/AA/1440:1448,
1/AA/1455:1461
No text annotation
IL_4V4W_0481/B0/24:30,
1/B0/510:516
Triple sheared with non-canonical cWW
homologous
IL_4WF9_001
IL_04021.2
IL_4V4W_0491/B0/30:31,
1/B0/474:510
No text annotation
IL_4V4W_0501/B0/36:37,
1/B0/442:444
Single bulged A
homologous
IL_4WF9_002
IL_31462.6
IL_4V4W_0511/B0/42:45,
1/B0/433:437
Major groove platform with extra cWW
geometric
IL_4V9F_003
IL_51387.2
IL_4V4W_0521/B0/81:85,
1/B0/97:105
Kink-turn
homologous
IL_7A0S_004
IL_94910.1
IL_4V4W_0531/B0/183:184,
1/B0/212:214
Single stack bend
homologous
IL_4WF9_007
IL_90729.1
IL_4V4W_0541/B0/188:194,
1/B0/201:208
8x7 Sarcin-Ricin; G-bulge
homologous
IL_7A0S_006
IL_04346.10
IL_4V4W_1311/B0/239:245,
1/B0/253:258
No text annotation
homologous
IL_9DFE_007
IL_26307.2
IL_4V4W_0561/B0/273:281,
1/B0/359:364
No text annotation
IL_4V4W_1591/B0/285:292,
1/B0/347:355
No text annotation
IL_4V4W_0571/B0/564:566,
1/B0/575:577
No text annotation
homologous
IL_7RQB_015
NA
IL_4V4W_0581/B0/672:674,
1/B0/806:808
Isolated non-canonical cWW pair
geometric
IL_4V9F_105
IL_87907.2
IL_4V4W_0591/B0/674:679,
1/B0/798:806
No text annotation
IL_4V4W_0601/B0/702:707,
1/B0/724:730
No text annotation
geometric
IL_4V88_462
NA
IL_4V4W_0611/B0/738:741,
1/B0/756:758
No text annotation
geometric
IL_6CZR_136
NA
IL_4V4W_1601/B0/856:872,
1/B0/905:921
No text annotation
IL_4V4W_0621/B0/875:879,
1/B0/898:902
No text annotation
geometric
IL_5TBW_121
NA
IL_4V4W_1341/B0/998:1002,
1/B0/1153:1157
UAA/GAN
homologous
IL_7A0S_033
IL_38507.2
IL_4V4W_1351/B0/1004:1013,
1/B0/1149:1151
No text annotation
IL_4V4W_1611/B0/1018:1024,
1/B0/1140:1144
Kink-turn related
homologous
IL_7A0S_036
IL_57188.5
IL_4V4W_1371/B0/1024:1031,
1/B0/1123:1140
No text annotation
IL_4V4W_0661/B0/1031:1034,
1/B0/1121:1123
Isolated non-canonical cWW pair
homologous
IL_7RQB_041
NA
IL_4V4W_1381/B0/1031:1037,
1/B0/1118:1123
No text annotation
geometric
IL_6CZR_369
NA
IL_4V4W_0671/B0/1038:1041,
1/B0/1114:1117
Tandem non-canonical cWW pairs
geometric
IL_1MFQ_004
IL_85033.2
IL_4V4W_1391/B0/1038:1051,
1/B0/1108:1117
No text annotation
IL_4V4W_0681/B0/1041:1052,
1/B0/1107:1114
No text annotation
IL_4V4W_0691/B0/1059:1062,
1/B0/1076:1079
No text annotation
homologous
IL_5J7L_285
IL_92446.2
IL_4V4W_1411/B0/1087:1090,
1/B0/1101:1102
Major groove platform
homologous
IL_5J7L_385
IL_48076.6
IL_4V4W_0711/B0/1202:1207,
1/B0/1239:1243
No text annotation
geometric
IL_5TBW_121
NA
IL_4V4W_0721/B0/1208:1215,
1/B0/1234:1238
Kink-turn
homologous
IL_7A0S_043
IL_70923.9
IL_4V4W_0731/B0/1310:1313,
1/B0/1603:1604
Major groove platform; stack outside cWW
homologous
IL_5J7L_290
IL_50694.7
IL_4V4W_0741/B0/1319:1323,
1/B0/1331:1333
C-loop
homologous
IL_5J7L_291
IL_63596.11
IL_4V4W_0751/B0/1350:1355,
1/B0/1376:1381
UAA/GAN with extra cWW
geometric
IL_4WF9_104
IL_49767.8
IL_4V4W_0761/B0/1357:1359,
1/B0/1372:1374
Isolated non-canonical cWW pair
geometric
IL_4V9F_017
IL_87907.2
IL_4V4W_1621/B0/1357:1361,
1/B0/1370:1374
No text annotation
IL_4V4W_0771/B0/1359:1362,
1/B0/1369:1372
Tandem non-canonical cWW pairs
geometric
IL_5EW4_002
IL_85033.2
IL_4V4W_1441/B0/1413:1424,
1/B0/1574:1589
No text annotation
IL_4V4W_0781/B0/1424:1429,
1/B0/1564:1574
No text annotation
IL_4V4W_0791/B0/1432:1435,
1/B0/1557:1561
Tandem non-canonical cWW pairs
geometric
IL_402D_001
IL_77658.1
IL_4V4W_0801/B0/1436:1440,
1/B0/1551:1556
tSH-tHW-tHS
geometric
IL_4V9F_055
IL_17136.7
IL_4V4W_0811/B0/1449:1451,
1/B0/1461:1462
Single stack bend
geometric
IL_7RQB_058
NA
IL_4V4W_0821/B0/1472:1474,
1/B0/1518:1519
No text annotation
IL_4V4W_1471/B0/1474:1482,
1/B0/1506:1518
No text annotation
IL_4V4W_0831/B0/1651:1659,
1/B0/2001:2006
No text annotation
IL_4V4W_1631/B0/1651:1665,
1/B0/1995:2006
No text annotation
IL_4V4W_0841/B0/1659:1666,
1/B0/1994:2001
No text annotation
IL_4V4W_0851/B0/1666:1669,
1/B0/1993:1994
Major groove platform; stack outside cWW
geometric
IL_7RQB_066
NA
IL_4V4W_0861/B0/1669:1674,
1/B0/1990:1993
Intercalated tWH
homologous
IL_5J7L_307
IL_76758.2
IL_4V4W_0871/B0/1686:1691,
1/B0/1696:1702
tSH-tSH-tHH-tHS
geometric
IL_4V9F_063
IL_47346.2
IL_4V4W_0881/B0/1770:1771,
1/B0/1980:1982
Single bulged A
homologous
IL_5J7L_312
IL_31462.6
IL_4V4W_0891/B0/1798:1804,
1/B0/1813:1821
Kink-turn related
homologous
IL_4WF9_069
IL_17069.5
IL_4V4W_1501/B0/1846:1861,
1/B0/1881:1894
No text annotation
IL_4V4W_1511/B0/2049:2052,
1/B0/2617:2619
No text annotation
geometric
IL_4V9F_072
IL_55516.2
IL_4V4W_0901/B0/2050:2053,
1/B0/2616:2618
No text annotation
geometric
IL_6CZR_136
NA
IL_4V4W_0911/B0/2054:2056,
1/B0/2612:2615
No text annotation
homologous
IL_4WF9_079
IL_83389.2
IL_4V4W_0921/B0/2072:2075,
1/B0/2435:2437
No text annotation
IL_4V4W_0931/B0/2103:2105,
1/B0/2184:2186
Isolated non-canonical cWW pair
geometric
IL_5TBW_115
NA
IL_4V4W_0941/B0/2105:2108,
1/B0/2182:2184
No text annotation
geometric
IL_4P3T_002
NA
IL_4V4W_0951/B0/2297:2299,
1/B0/2317:2321
Isolated tHS basepair with bulges
geometric
IL_4V9F_080
IL_61476.2
IL_4V4W_0961/B0/2350:2353,
1/B0/2364:2367
Tandem non-canonical cWW pairs
geometric
IL_1JID_002
IL_85033.2
IL_4V4W_0971/B0/2457:2461,
1/B0/2489:2494
No text annotation
IL_4V4W_0981/B0/2466:2470,
1/B0/2480:2484
Triple sheared
homologous
IL_4WF9_093
IL_17948.2
IL_4V4W_0991/B0/2515:2516,
1/B0/2568:2570
Single stack bend
geometric
IL_6FZ0_001
IL_90729.1
IL_4V4W_1001/B0/2521:2523,
1/B0/2540:2544
No text annotation
IL_4V4W_1011/B0/2591:2592,
1/B0/2601:2603
Single bulged A
homologous
IL_5J7L_344
IL_31462.6
IL_4V4W_1521/B0/2650:2658,
1/B0/2663:2670
No text annotation
IL_4V4W_1021/B0/2652:2658,
1/B0/2663:2668
No text annotation
IL_4V4W_1031/B0/2680:2684,
1/B0/2725:2727
C-loop
homologous
IL_4WF9_101
IL_63596.11
IL_4V4W_1041/B0/2687:2691,
1/B0/2718:2722
UAA/GAN
geometric
IL_4V9F_094
IL_23774.1
IL_4V4W_1051/B0/2695:2696,
1/B0/2711:2714
Multiple bulged bases
homologous
IL_5J7L_349
IL_42626.2
IL_4V4W_1531/B0/2695:2697,
1/B0/2710:2714
Isolated non-canonical cWW pair
geometric
IL_4M4O_001
IL_87907.2
IL_4V4W_1061/B0/2737:2742,
1/B0/2762:2767
UAA/GAN with extra cWW
homologous
IL_4WF9_104
IL_49767.8
IL_4V4W_1641/B0/2838:2839,
1/B0/2878:2880
Major groove intercalation
homologous
IL_9DFE_107
IL_61258.15
IL_4V4W_1081/B0/2843:2846,
1/B0/2870:2874
No text annotation
geometric
IL_1GID_008
NA
IL_4V4W_1091/B0/2847:2852,
1/B0/2865:2869
tHS double platform
homologous
IL_4WF9_108
IL_70411.2
IL_4V4W_1101/B9/23:30,
1/B9/54:60
No text annotation
IL_4V4W_1651/B9/30:31,
1/B9/51:54
No text annotation
homologous
IL_9DFE_112
IL_68140.4

Problematic loops

#loop idProblemSequence
IL_4V4W_001Isolated non-canonical cWW pair
IL_4V4W_004Tandem non-canonical cWW pairs
IL_4V4W_010No text annotation
IL_4V4W_115No text annotation
IL_4V4W_117No text annotation
IL_4V4W_014No text annotation
IL_4V4W_118No text annotation
IL_4V4W_017tSH-tHW-tHS-cWW
IL_4V4W_120No text annotation
IL_4V4W_020No text annotation
IL_4V4W_021No text annotation
IL_4V4W_023No text annotation
IL_4V4W_123Isolated non-canonical cWW pair
IL_4V4W_124No text annotation
IL_4V4W_032Isolated non-canonical cWW pair
IL_4V4W_129Tandem non-canonical cWW pairs
IL_4V4W_130Triple sheared
IL_4V4W_0558x7 Sarcin-Ricin; G-bulge
IL_4V4W_132No text annotation
IL_4V4W_133Isolated non-canonical cWW pair
IL_4V4W_063UAA/GAN with extra cWW
IL_4V4W_064No text annotation
IL_4V4W_136No text annotation
IL_4V4W_065No text annotation
IL_4V4W_140No text annotation
IL_4V4W_070Major groove platform with extra cWW
IL_4V4W_142No text annotation
IL_4V4W_143No text annotation
IL_4V4W_145No text annotation
IL_4V4W_146Partly complementary
IL_4V4W_148No text annotation
IL_4V4W_149Isolated non-canonical cWW pair
IL_4V4W_107Isolated non-canonical cWW with bulges
IL_4V4W_1118-nt loop receptor

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4V4W_0011/AA/46:52,
1/AA/359:369,
1/AA/392:395
No text annotation
J3_4V4W_0021/AA/586:588,
1/AA/651:655,
1/AA/751:755
No text annotation
homologous
J3_5J7L_051
J3_17385.4
J3_4V4W_0301/AA/672:677,
1/AA/713:725,
1/AA/732:734
No text annotation
J3_4V4W_0031/AA/826:829,
1/AA/857:861,
1/AA/868:874
No text annotation
homologous
J3_4LFB_001
J3_85054.4
J3_4V4W_0181/AA/933:940,
1/AA/1343:1350,
1/AA/1372:1384
No text annotation
J3_4V4W_0311/AA/955:962,
1/AA/973:985,
1/AA/1220:1225
No text annotation
homologous
J3_6CZR_062
NA
J3_4V4W_0051/AA/1063:1069,
1/AA/1106:1113,
1/AA/1187:1193
No text annotation
homologous
J3_5J7L_008
J3_08394.3
J3_4V4W_0061/AA/1073:1074,
1/AA/1083:1087,
1/AA/1098:1102
No text annotation
homologous
J3_5J7L_009
J3_76043.3
J3_4V4W_0321/AA/1116:1118,
1/AA/1155:1161,
1/AA/1175:1184
No text annotation
homologous
J3_4LFB_018
J3_17791.2
J3_4V4W_0211/B0/32:35,
1/B0/445:461,
1/B0/468:473
No text annotation
homologous
J3_9DFE_003
J3_30040.2
J3_4V4W_0331/B0/292:302,
1/B0/315:325,
1/B0/337:347
No text annotation
J3_4V4W_0231/B0/601:604,
1/B0/624:638,
1/B0/650:656
No text annotation
J3_4V4W_0071/B0/683:689,
1/B0/773:778,
1/B0/786:794
No text annotation
J3_4V4W_0081/B0/697:700,
1/B0/732:737,
1/B0/759:765
No text annotation
J3_4V4W_0341/B0/1055:1057,
1/B0/1081:1087,
1/B0/1102:1104
No text annotation
homologous
J3_5J7L_040
J3_28621.5
J3_4V4W_0101/B0/1298:1303,
1/B0/1625:1628,
1/B0/1638:1642
No text annotation
geometric
J3_4V9F_005
J3_32852.6
J3_4V4W_0111/B0/1306:1309,
1/B0/1605:1611,
1/B0/1620:1622
No text annotation
geometric
J3_4V9F_006
J3_19545.2
J3_4V4W_0251/B0/1344:1350,
1/B0/1381:1386,
1/B0/1401:1403
No text annotation
J3_4V4W_0351/B0/1444:1446,
1/B0/1465:1468,
1/B0/1523:1547
No text annotation
J3_4V4W_0131/B0/2089:2093,
1/B0/2196:2200,
1/B0/2223:2230
No text annotation
J3_4V4W_0271/B0/2285:2289,
1/B0/2343:2347,
1/B0/2370:2383
No text annotation
J3_4V4W_0141/B0/2295:2297,
1/B0/2321:2323,
1/B0/2332:2337
No text annotation
homologous
J3_4WF9_008
J3_61124.2
J3_4V4W_0151/B0/2516:2521,
1/B0/2544:2549,
1/B0/2559:2568
No text annotation
J3_4V4W_0161/B0/2812:2815,
1/B0/2831:2836,
1/B0/2882:2888
No text annotation
J3_4V4W_0361/B9/10:28,
1/B9/56:79,
1/B9/97:110
No text annotation
J4_4V4W_0011/AA/115:122,
1/AA/239:240,
1/AA/286:289,
1/AA/311:312
No text annotation
homologous
J4_4LFB_001
J4_35578.3
J4_4V4W_0021/AA/142:144,
1/AA/178:184,
1/AA/193:198,
1/AA/219:221
No text annotation
homologous
J4_5J7L_002
J4_01665.1
J4_4V4W_0141/AA/569:577,
1/AA/764:769,
1/AA/810:821,
1/AA/879:881
No text annotation
J4_4V4W_0041/AA/943:946,
1/AA/1235:1253,
1/AA/1284:1308,
1/AA/1329:1340
No text annotation
J4_4V4W_0051/AA/990:1007,
1/AA/1022:1028,
1/AA/1033:1047,
1/AA/1210:1215
No text annotation
J4_4V4W_0061/AU/7:10,
1/AU/25:27,
1/AU/43:49,
1/AU/65:66
No text annotation
homologous
J4_7EQJ_002
J4_70449.28
J4_4V4W_0071/AV/7:10,
1/AV/25:27,
1/AV/43:49,
1/AV/65:66
No text annotation
homologous
J4_6UFG_001
J4_70449.28
J4_4V4W_0081/AW/7:10,
1/AW/25:27,
1/AW/43:49,
1/AW/65:66
No text annotation
homologous
J4_7EQJ_002
J4_70449.28
J4_4V4W_0091/B0/268:271,
1/B0/366:375,
1/B0/399:406,
1/B0/421:424
No text annotation
J4_4V4W_0101/B0/1310:1314,
1/B0/1338:1343,
1/B0/1404:1405,
1/B0/1597:1604
No text annotation
homologous
J4_5J7L_022
J4_69051.6
J4_4V4W_0111/B0/1772:1776,
1/B0/1788:1792,
1/B0/1827:1831,
1/B0/1974:1979
No text annotation
J4_4V4W_0151/B0/1833:1845,
1/B0/1895:1908,
1/B0/1922:1945,
1/B0/1961:1972
No text annotation
J4_4V4W_0161/B0/2643:2646,
1/B0/2674:2679,
1/B0/2728:2736,
1/B0/2768:2771
No text annotation
J5_4V4W_0011/AA/58:61,
1/AA/106:113,
1/AA/314:316,
1/AA/337:339,
1/AA/350:354
No text annotation
homologous
J5_5J7L_003
J5_59910.6
J5_4V4W_0071/B0/584:590,
1/B0/667:672,
1/B0/808:812,
1/B0/1195:1202,
1/B0/1243:1256
No text annotation
J5_4V4W_0031/B0/1666:1683,
1/B0/1705:1707,
1/B0/1751:1752,
1/B0/1756:1764,
1/B0/1988:1994
No text annotation
J5_4V4W_0041/B0/1669:1683,
1/B0/1705:1707,
1/B0/1751:1752,
1/B0/1756:1764,
1/B0/1988:1993
No text annotation
J5_4V4W_0081/B0/2057:2071,
1/B0/2438:2461,
1/B0/2489:2523,
1/B0/2540:2588,
1/B0/2606:2611
No text annotation
J7_4V4W_0031/B0/817:822,
1/B0/835:855,
1/B0/922:946,
1/B0/971:976,
1/B0/987:991,
1/B0/1163:1166,
1/B0/1183:1190
No text annotation
J7_4V4W_0041/B0/2072:2093,
1/B0/2196:2200,
1/B0/2223:2246,
1/B0/2258:2259,
1/B0/2281:2284,
1/B0/2384:2398,
1/B0/2418:2437
No text annotation
J9_4V4W_0021/B0/45:57,
1/B0/70:76,
1/B0/110:122,
1/B0/129:150,
1/B0/176:183,
1/B0/214:224,
1/B0/231:235,
1/B0/262:266,
1/B0/426:433
No text annotation

Problematic loops

#loop idProblemSequence
J3_4V4W_017No text annotation
J3_4V4W_004No text annotation
J3_4V4W_019No text annotation
J3_4V4W_020No text annotation
J3_4V4W_022No text annotation
J3_4V4W_024No text annotation
J3_4V4W_009No text annotation
J3_4V4W_012No text annotation
J3_4V4W_026No text annotation
J3_4V4W_028No text annotation
J3_4V4W_029No text annotation
J4_4V4W_003No text annotation
J4_4V4W_012No text annotation
J4_4V4W_013No text annotation
J5_4V4W_002No text annotation
J5_4V4W_005No text annotation
J5_4V4W_006No text annotation
J7_4V4W_001No text annotation
J7_4V4W_002No text annotation
J9_4V4W_001No text annotation

Coloring options:
Copyright 2025 BGSU RNA group. Page generated in 0.1481 s