RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6DNC_0011/A/12:22No text annotation
homologous
HL_5J7L_001
HL_89881.5
HL_6DNC_0021/A/78:91No text annotation
geometric
HL_4V88_198
NA
HL_6DNC_0031/A/158:163GNRA
homologous
HL_5J7L_003
HL_37824.7
HL_6DNC_0041/A/186:191GNRA
homologous
HL_5J7L_004
HL_37824.7
HL_6DNC_0051/A/206:213Mini UNCG
geometric
HL_4YAZ_004
HL_48778.2
HL_6DNC_0061/A/259:267GNRA related
homologous
HL_5J7L_006
HL_84299.4
HL_6DNC_0071/A/296:301GNRA
homologous
HL_4LFB_007
HL_37824.7
HL_6DNC_0081/A/320:333No text annotation
homologous
HL_5J7L_008
HL_81205.3
HL_6DNC_0091/A/342:347UNCG
homologous
HL_4LFB_009
HL_34617.5
HL_6DNC_0101/A/379:384GNRA
homologous
HL_5J7L_010
HL_37824.7
HL_6DNC_0111/A/419:424No text annotation
geometric
HL_3SIU_002
HL_66103.1
HL_6DNC_0121/A/462:470GNRA related
homologous
HL_5J7L_012
HL_81538.2
HL_6DNC_0131/A/522:527No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_6DNC_0141/A/617:623No text annotation
homologous
HL_6CZR_085
NA
HL_6DNC_0151/A/689:698No text annotation
homologous
HL_5J7L_015
HL_75293.5
HL_6DNC_0161/A/726:731GNRA
homologous
HL_5J7L_016
HL_37824.7
HL_6DNC_0171/A/786:796No text annotation
homologous
HL_4LFB_017
HL_75293.5
HL_6DNC_0181/A/840:846No text annotation
HL_6DNC_0191/A/862:867GNRA
homologous
HL_5J7L_019
HL_37824.7
HL_6DNC_0201/A/897:902GNRA
homologous
HL_6CZR_091
NA
HL_6DNC_0211/A/963:972No text annotation
homologous
HL_5J7L_021
HL_50779.4
HL_6DNC_0221/A/1012:1017GNRA
homologous
HL_4LFB_022
HL_37824.7
HL_6DNC_0231/A/1076:1081GNRA
homologous
HL_5J7L_023
HL_37824.7
HL_6DNC_0241/A/1089:1096T-loop related
homologous
HL_4LFB_025
HL_77436.5
HL_6DNC_0251/A/1134:1140No text annotation
homologous
HL_6CZR_097
NA
HL_6DNC_0261/A/1165:1171GNRA
homologous
HL_4LFB_027
HL_37824.7
HL_6DNC_0271/A/1265:1270GNRA
homologous
HL_5J7L_027
HL_37824.7
HL_6DNC_0281/A/1314:1323T-loop with 3 stacked bulged bases
homologous
HL_5J7L_028
HL_02887.3
HL_6DNC_0291/A/1356:1366No text annotation
homologous
HL_4LFB_030
HL_06226.4
HL_6DNC_0301/A/1449:1454UNCG
homologous
HL_5J7L_030
HL_34617.5
HL_6DNC_0311/A/1515:1520GNRA variation
geometric
HL_4V88_222
NA
HL_6DNC_0321/B/59:68No text annotation
homologous
HL_5J7L_134
HL_35677.3
HL_6DNC_0331/B/87:95No text annotation
homologous
HL_5J7L_135
HL_80241.1
HL_6DNC_0341/B/123:128No text annotation
homologous
HL_5J7L_136
HL_82710.2
HL_6DNC_0351/B/137:142No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_6DNC_0361/B/158:168No text annotation
homologous
HL_5J7L_138
HL_68257.1
HL_6DNC_0371/B/194:201No text annotation
geometric
HL_5J7L_139
HL_30068.2
HL_6DNC_0381/B/225:230No text annotation
homologous
HL_5J7L_140
HL_62934.1
HL_6DNC_0391/B/246:252No text annotation
homologous
HL_5J7L_141
HL_37369.2
HL_6DNC_0401/B/305:312T-loop with 1 bulged base
homologous
HL_7A0S_010
HL_01609.3
HL_6DNC_0411/B/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
HL_27670.2
HL_6DNC_0421/B/382:392No text annotation
homologous
HL_5J7L_145
HL_91503.7
HL_6DNC_0431/B/410:417Pseudoknot geometry
homologous
HL_5J7L_146
HL_30680.3
HL_6DNC_0441/B/462:467GNRA
homologous
HL_4WF9_015
HL_37824.7
HL_6DNC_0451/B/487:493GNRA
homologous
HL_5J7L_148
HL_37824.7
HL_6DNC_1091/B/545:548No text annotation
geometric
HL_4V88_198
NA
HL_6DNC_0471/B/566:575T-loop with 2 stacked bulged bases
homologous
HL_5J7L_150
HL_28252.6
HL_6DNC_0481/B/611:617No text annotation
homologous
HL_5J7L_151
HL_80922.2
HL_6DNC_0491/B/629:634GNRA
homologous
HL_5J7L_152
HL_37824.7
HL_6DNC_1101/B/641:647No text annotation
homologous
HL_5J7L_153
HL_13529.1
HL_6DNC_0511/B/712:719GNRA wlth tandem sheared
homologous
HL_5J7L_154
HL_81538.2
HL_6DNC_0521/B/744:753No text annotation
homologous
HL_4WF9_023
HL_88205.2
HL_6DNC_0531/B/779:785UNCG variation
geometric
HL_1P6V_001
HL_53890.2
HL_6DNC_0541/B/826:831No text annotation
homologous
HL_7RQB_025
NA
HL_6DNC_1111/B/884:892No text annotation
homologous
HL_5J7L_158
NA
HL_6DNC_0561/B/954:963tRNA anticodon loop
geometric
HL_3RG5_006
HL_04259.3
HL_6DNC_0571/B/978:985No text annotation
homologous
HL_7A0S_027
HL_42998.2
HL_6DNC_0581/B/1064:1074No text annotation
HL_6DNC_0591/B/1092:1099No text annotation
homologous
HL_7RQB_030
NA
HL_6DNC_0601/B/1171:1178No text annotation
HL_6DNC_0611/B/1222:1227GNRA
homologous
HL_5J7L_164
HL_37824.7
HL_6DNC_0621/B/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_5J7L_165
HL_28252.6
HL_6DNC_0631/B/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
HL_57176.2
HL_6DNC_0641/B/1363:1368GNRA
homologous
HL_5J7L_167
HL_37824.7
HL_6DNC_0651/B/1389:1398No text annotation
homologous
HL_5J7L_168
HL_81545.2
HL_6DNC_0661/B/1451:1459Mini UNCG with extended bulge
homologous
HL_5J7L_169
HL_22622.1
HL_6DNC_0671/B/1492:1498Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
HL_57176.2
HL_6DNC_0681/B/1533:1538No text annotation
geometric
HL_8C3A_196
NA
HL_6DNC_0691/B/1565:1568No text annotation
homologous
HL_7RQB_039
NA
HL_6DNC_0701/B/1612:1619No text annotation
homologous
HL_4WF9_038
HL_89567.2
HL_6DNC_0711/B/1630:1636GNRA
homologous
HL_5J7L_174
HL_37824.7
HL_6DNC_0721/B/1691:1696UNCG
homologous
HL_7A0S_042
HL_34617.5
HL_6DNC_0731/B/1727:1733No text annotation
geometric
HL_2ZNI_001
HL_75660.5
HL_6DNC_0741/B/1752:1756No text annotation
homologous
HL_5J7L_177
HL_80709.3
HL_6DNC_0751/B/1777:1787No text annotation
homologous
HL_7RQB_045
NA
HL_6DNC_0761/B/1806:1811GNRA related
homologous
HL_5J7L_179
HL_04783.2
HL_6DNC_0771/B/1868:1873GNRA variation
homologous
HL_5J7L_180
HL_37824.7
HL_6DNC_0781/B/1910:1920No text annotation
geometric
HL_5TBW_049
NA
HL_6DNC_0791/B/1949:1957No text annotation
homologous
HL_4WF9_046
HL_20167.2
HL_6DNC_0801/B/2027:2036No text annotation
homologous
HL_4WF9_047
HL_61996.2
HL_6DNC_0811/B/2142:2149No text annotation
geometric
HL_2ZZM_002
HL_13963.3
HL_6DNC_0821/B/2209:2215No text annotation
homologous
HL_5J7L_185
HL_49922.4
HL_6DNC_0831/B/2248:2256No text annotation
homologous
HL_7A0S_052
HL_85367.2
HL_6DNC_0841/B/2264:2276No text annotation
homologous
HL_5J7L_187
HL_91939.2
HL_6DNC_1121/B/2304:2312No text annotation
homologous
HL_5J7L_219
HL_50860.2
HL_6DNC_0861/B/2324:2331Pseudoknot geometry
homologous
HL_5J7L_189
HL_93324.4
HL_6DNC_0871/B/2356:2361GNRA
homologous
HL_5J7L_190
HL_37824.7
HL_6DNC_0881/B/2374:2379GNRA
homologous
HL_4WF9_054
HL_37824.7
HL_6DNC_0891/B/2404:2413No text annotation
homologous
HL_5J7L_192
HL_53454.2
HL_6DNC_0901/B/2471:2479No text annotation
homologous
HL_4WF9_056
HL_32735.2
HL_6DNC_0911/B/2528:2535No text annotation
homologous
HL_5J7L_194
HL_31585.3
HL_6DNC_0921/B/2551:2557No text annotation
homologous
HL_4WF9_058
HL_30068.2
HL_6DNC_0931/B/2594:2599GNRA
homologous
HL_7RQB_063
NA
HL_6DNC_0941/B/2658:2663GNRA
geometric
HL_5B2P_001
HL_37824.7
HL_6DNC_0951/B/2701:2706Ribsomal LSU H95
homologous
HL_5J7L_198
HL_65794.5
HL_6DNC_0961/B/2745:2759No text annotation
homologous
HL_5J7L_199
HL_74055.2
HL_6DNC_1141/B/2796:2799No text annotation
HL_6DNC_0981/B/2819:2827No text annotation
homologous
HL_5J7L_201
HL_64690.6
HL_6DNC_0991/B/2856:2861GNRA
homologous
HL_7A0S_068
HL_37824.7
HL_6DNC_1001/C/34:48No text annotation
geometric
HL_5J7L_215
HL_97756.2
HL_6DNC_1011/C/86:90Mini UNCG
homologous
HL_5J7L_204
HL_48778.2
HL_6DNC_1021/D/13:22No text annotation
homologous
HL_6PMO_003
NA
HL_6DNC_1031/D/31:39tRNA anticodon loop
homologous
HL_6UFG_007
HL_06059.5
HL_6DNC_1041/D/53:61T-loop with 2 stacked bulged bases
homologous
HL_3AMU_003
HL_28252.6
HL_6DNC_1051/LA/13:22tRNA D-loop
homologous
HL_1QF6_001
HL_20811.4
HL_6DNC_1061/LA/31:39tRNA anticodon loop
homologous
HL_6CFJ_107
HL_06059.5
HL_6DNC_1071/LA/53:61T-loop with 2 stacked bulged bases
homologous
HL_5AH5_008
HL_28252.6

Problematic loops

#loop idProblemSequence
HL_6DNC_108No text annotation
HL_6DNC_046No text annotation
HL_6DNC_050GNRA related
HL_6DNC_055No text annotation
HL_6DNC_085No text annotation
HL_6DNC_097Other HL
HL_6DNC_113No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6DNC_0011/A/30:32,
1/A/552:553		Single bulged G
homologous
IL_6CZR_113
NA
IL_6DNC_0021/A/44:45,
1/A/396:398		Single bulged A
homologous
IL_5J7L_002
IL_31462.5
IL_6DNC_0031/A/47:52,
1/A/359:361		No text annotation
homologous
IL_5J7L_003
IL_14177.2
IL_6DNC_0041/A/54:56,
1/A/356:357		Minor groove platform
homologous
IL_4LFB_004
IL_51454.2
IL_6DNC_0051/A/63:66,
1/A/103:104		Multiple bulged bases
homologous
IL_4LFB_005
IL_82107.4
IL_6DNC_0061/A/67:69,
1/A/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
IL_90351.1
IL_6DNC_0071/A/70:73,
1/A/97:98		Minor groove platform
geometric
IL_7RQB_073
NA
IL_6DNC_0081/A/75:76,
1/A/93:95		Stack outside cWW
geometric
IL_6JQ6_004
IL_66635.5
IL_6DNC_0091/A/128:131,
1/A/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
IL_57744.1
IL_6DNC_0101/A/132:136,
1/A/227:230		Minor groove platform related
homologous
IL_5J7L_010
IL_64231.5
IL_6DNC_0111/A/144:146,
1/A/176:178		Isolated cWH basepair
homologous
IL_5J7L_011
IL_10167.5
IL_6DNC_0121/A/147:153,
1/A/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
IL_80604.6
IL_6DNC_0131/A/203:206,
1/A/213:214		Minor groove platform
geometric
IL_3MXH_005
IL_15052.4
IL_6DNC_0141/A/242:247,
1/A/277:284		Kink-turn with non-sequential stacking
homologous
IL_5J7L_014
IL_46174.3
IL_6DNC_0151/A/249:252,
1/A/274:275		No text annotation
homologous
IL_4LFB_012
IL_47074.2
IL_6DNC_0161/A/292:293,
1/A/304:308		C-loop
homologous
IL_4LFB_013
IL_03109.3
IL_6DNC_0171/A/371:375,
1/A/389:390		C-loop
geometric
IL_5J7L_018
IL_03109.3
IL_6DNC_0181/A/375:376,
1/A/387:389		Single bulged G
homologous
IL_5J7L_019
IL_00225.13
IL_6DNC_0191/A/409:417,
1/A/426:433		No text annotation
IL_6DNC_0201/A/440:442,
1/A/492:497		No text annotation
IL_6DNC_0211/A/446:450,
1/A/483:488		tSH-tHW-tWW
geometric
IL_5J7L_022
IL_88269.4
IL_6DNC_0221/A/450:455,
1/A/477:483		No text annotation
homologous
IL_5J7L_023
IL_70801.1
IL_6DNC_0231/A/504:511,
1/A/540:541		SSU/LSU pseudoknot
homologous
IL_6CZR_132
NA
IL_6DNC_0241/A/515:521,
1/A/528:536		Kink-turn related
geometric
IL_4V88_415
NA
IL_6DNC_0251/A/569:575,
1/A/880:881		No text annotation
homologous
IL_4LFB_022
IL_38186.6
IL_6DNC_0261/A/580:584,
1/A/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
IL_17136.7
IL_6DNC_0271/A/594:596,
1/A/644:645		Major groove platform
homologous
IL_5J7L_028
IL_48076.6
IL_6DNC_0281/A/597:598,
1/A/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_029
IL_68140.4
IL_6DNC_0291/A/605:612,
1/A/628:633		No text annotation
homologous
IL_5J7L_030
IL_78349.3
IL_6DNC_0301/A/654:655,
1/A/751:754		Major groove platform; stack outside cWW
homologous
IL_5J7L_031
IL_50694.7
IL_6DNC_0311/A/659:660,
1/A/745:747		Single stack bend
homologous
IL_5J7L_032
IL_26793.1
IL_6DNC_0321/A/662:666,
1/A/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
IL_85033.2
IL_6DNC_0331/A/673:678,
1/A/712:717		No text annotation
homologous
IL_5J7L_034
NA
IL_6DNC_0341/A/684:688,
1/A/699:706		Kink-turn
homologous
IL_5J7L_035
IL_01488.3
IL_6DNC_0351/A/774:778,
1/A/804:805		Left turn
homologous
IL_5J7L_036
IL_29346.2
IL_6DNC_0361/A/779:783,
1/A/799:803		tSH-tHW-tHS
homologous
IL_5J7L_037
IL_17136.7
IL_6DNC_0371/A/887:894,
1/A/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
IL_41756.4
IL_6DNC_1801/A/922:923,
1/A/1393:1395		Single bulged A
homologous
IL_5J7L_039
IL_31462.5
IL_6DNC_0391/A/925:927,
1/A/1390:1391		Single bulged G
homologous
IL_5J7L_040
IL_00225.13
IL_6DNC_0401/A/933:935,
1/A/1380:1384		Minor groove platform
homologous
IL_5J7L_041
IL_47078.3
IL_6DNC_0411/A/953:954,
1/A/1226:1228		No text annotation
homologous
IL_6CZR_150
NA
IL_6DNC_0421/A/993:997,
1/A/1044:1045		Minor groove platform
geometric
IL_5J7L_043
IL_47078.3
IL_6DNC_0431/A/998:999,
1/A/1041:1043		Single stack bend
homologous
IL_5J7L_044
IL_26793.1
IL_6DNC_1811/A/1003:1006,
1/A/1023:1037		No text annotation
IL_6DNC_0451/A/1048:1050,
1/A/1208:1209		Single bulged U
homologous
IL_5J7L_046
IL_89505.4
IL_6DNC_1821/A/1052:1056,
1/A/1204:1206		Isolated cWS basepair
homologous
IL_4LFB_044
IL_76319.5
IL_6DNC_0471/A/1057:1058,
1/A/1199:1203		Minor groove platform
homologous
IL_5J7L_048
IL_95583.2
IL_6DNC_0481/A/1060:1061,
1/A/1195:1197		Single bulged U
homologous
IL_4LFB_046
IL_89505.4
IL_6DNC_0491/A/1061:1063,
1/A/1193:1195		Isolated non-canonical cWW pair
geometric
IL_4LFB_047
IL_28037.2
IL_6DNC_0501/A/1124:1128,
1/A/1144:1149		No text annotation
homologous
IL_5J7L_051
IL_06691.1
IL_6DNC_0511/A/1129:1132,
1/A/1142:1143		Minor groove platform
homologous
IL_5J7L_052
IL_15052.4
IL_6DNC_0521/A/1158:1161,
1/A/1175:1181		No text annotation
geometric
IL_4LFB_050
IL_42032.1
IL_6DNC_1831/A/1247:1253,
1/A/1284:1290		No text annotation
homologous
IL_5J7L_054
IL_09129.2
IL_6DNC_0541/A/1255:1258,
1/A/1277:1282		180 degree turn
homologous
IL_5J7L_055
IL_11344.2
IL_6DNC_0551/A/1259:1263,
1/A/1272:1276		Triple sheared
homologous
IL_5J7L_056
IL_17948.2
IL_6DNC_0561/A/1303:1308,
1/A/1329:1334		No text annotation
geometric
IL_4LFB_055
IL_85536.2
IL_6DNC_0571/A/1399:1401,
1/A/1501:1504		No text annotation
homologous
IL_5J7L_058
IL_61438.4
IL_6DNC_0581/A/1401:1404,
1/A/1497:1501		No text annotation
geometric
IL_4V88_464
NA
IL_6DNC_0591/A/1405:1407,
1/A/1494:1496		Isolated non-canonical cWW pair
geometric
IL_4V9F_017
IL_87907.2
IL_6DNC_0601/A/1407:1409,
1/A/1491:1494		Decoding loop related
geometric
IL_2O3X_003
IL_31737.3
IL_6DNC_1841/A/1412:1414,
1/A/1486:1488		Isolated non-canonical cWW pair
homologous
IL_4LFB_059
IL_87907.2
IL_6DNC_0621/A/1416:1419,
1/A/1481:1484		Double sheared
homologous
IL_5J7L_062
IL_09705.15
IL_6DNC_0631/A/1430:1435,
1/A/1466:1470		Triple sheared related
homologous
IL_5J7L_063
IL_80231.1
IL_6DNC_0641/A/1440:1442,
1/A/1460:1461		Single bulged A
geometric
IL_4V9F_098
IL_31462.5
IL_6DNC_0651/A/1445:1448,
1/A/1455:1457		No text annotation
homologous
IL_5J7L_065
IL_31531.3
IL_6DNC_0661/B/24:30,
1/B/510:516		Triple sheared with non-canonical cWW
geometric
IL_7A0S_001
IL_04021.2
IL_6DNC_0671/B/36:37,
1/B/442:444		Single bulged A
homologous
IL_7A0S_002
IL_31462.5
IL_6DNC_0681/B/43:44,
1/B/434:436		Minor groove platform
homologous
IL_5J7L_247
IL_51454.2
IL_6DNC_0691/B/81:85,
1/B/97:105		No text annotation
homologous
IL_5J7L_248
IL_37015.1
IL_6DNC_0701/B/183:184,
1/B/212:214		Single stack bend
homologous
IL_4WF9_007
IL_90729.1
IL_6DNC_0711/B/188:194,
1/B/201:208		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_250
IL_04346.10
IL_6DNC_0721/B/239:245,
1/B/253:258		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_251
IL_26307.2
IL_6DNC_0731/B/269:271,
1/B/366:370		No text annotation
homologous
IL_5J7L_252
IL_47972.1
IL_6DNC_0741/B/274:282,
1/B/358:363		No text annotation
IL_6DNC_0751/B/293:295,
1/B/343:347		No text annotation
homologous
IL_7RQB_013
NA
IL_6DNC_0761/B/481:484,
1/B/496:509		No text annotation
geometric
IL_5J7L_255
IL_81516.2
IL_6DNC_0771/B/536:539,
1/B/554:557		Double sheared
homologous
IL_5J7L_256
IL_09705.15
IL_6DNC_0781/B/564:566,
1/B/575:577		Isolated non-canonical cWW pair
geometric
IL_5MWI_001
IL_28037.2
IL_6DNC_0791/B/606:610,
1/B/618:622		AAA cross-strand stack
homologous
IL_5J7L_258
IL_66798.2
IL_6DNC_0801/B/672:674,
1/B/806:808		Isolated non-canonical cWW pair
homologous
IL_5J7L_259
IL_87907.2
IL_6DNC_0811/B/674:678,
1/B/799:806		tHW-tHW cross-strand stack
geometric
IL_5J7L_260
IL_54041.2
IL_6DNC_0821/B/697:698,
1/B/763:765		Single bulged A
geometric
IL_5J7L_261
IL_31462.5
IL_6DNC_0831/B/702:703,
1/B/728:730		Single bulged G
geometric
IL_4V9F_026
IL_00225.13
IL_6DNC_0841/B/703:707,
1/B/724:728		Triple sheared
homologous
IL_4WF9_024
IL_50730.2
IL_6DNC_0851/B/738:740,
1/B/757:758		Major groove platform
homologous
IL_5J7L_264
IL_48076.6
IL_6DNC_0861/B/775:777,
1/B/787:791		Multiple bulged bases
geometric
IL_4V9F_030
IL_57881.1
IL_6DNC_0871/B/837:838,
1/B/940:942		Single stack bend
homologous
IL_5J7L_266
IL_90729.1
IL_6DNC_0881/B/844:847,
1/B/933:934		Other IL
homologous
IL_5J7L_267
IL_90729.1
IL_6DNC_1851/B/844:848,
1/B/930:934		No text annotation
homologous
IL_5J7L_399
IL_96236.1
IL_6DNC_0891/B/847:848,
1/B/930:933		Stack outside cWW
geometric
IL_5J7L_268
IL_56987.1
IL_6DNC_0901/B/850:851,
1/B/926:928		Single stack bend
homologous
IL_5J7L_269
IL_26793.1
IL_6DNC_0911/B/856:862,
1/B/915:921		7x7 Sarcin-Ricin with intercalated A; G-bulge
geometric
IL_5J7L_270
IL_29198.2
IL_6DNC_0921/B/862:863,
1/B/913:915		Single bulged G
homologous
IL_5J7L_271
IL_00225.13
IL_6DNC_0931/B/864:868,
1/B/909:912		C-loop
homologous
IL_5J7L_272
IL_26222.2
IL_6DNC_0941/B/870:872,
1/B/905:907		Isolated non-canonical cWW pair
homologous
IL_5J7L_273
IL_28037.2
IL_6DNC_0951/B/875:879,
1/B/898:902		Triple sheared
homologous
IL_5J7L_274
IL_17948.2
IL_6DNC_0961/B/880:881,
1/B/895:897		No text annotation
homologous
IL_5J7L_275
NA
IL_6DNC_0971/B/994:996,
1/B/1159:1160		Single bulged C
homologous
IL_7RQB_035
NA
IL_6DNC_0981/B/998:1002,
1/B/1153:1157		UAA/GAN
homologous
IL_7A0S_033
IL_38507.2
IL_6DNC_0991/B/1004:1011,
1/B/1150:1151		SSU/LSU pseudoknot
homologous
IL_5J7L_278
IL_41203.4
IL_6DNC_1001/B/1011:1013,
1/B/1149:1150		Single bulged U
geometric
IL_5J7L_279
IL_89505.4
IL_6DNC_1011/B/1018:1024,
1/B/1140:1144		No text annotation
homologous
IL_7RQB_039
NA
IL_6DNC_1021/B/1024:1030,
1/B/1124:1140		No text annotation
geometric
IL_5J7L_281
IL_50715.3
IL_6DNC_1031/B/1031:1034,
1/B/1121:1123		Isolated non-canonical cWW pair
homologous
IL_4WF9_041
IL_57744.1
IL_6DNC_1041/B/1038:1041,
1/B/1114:1117		Tandem non-canonical cWW pairs
homologous
IL_5J7L_283
IL_85033.2
IL_6DNC_1051/B/1043:1051,
1/B/1108:1112		Kink-turn
homologous
IL_5J7L_284
IL_99692.2
IL_6DNC_1061/B/1059:1062,
1/B/1076:1079		No text annotation
homologous
IL_5J7L_285
IL_92446.2
IL_6DNC_1911/B/1087:1090,
1/B/1101:1102		No text annotation
homologous
IL_6PRV_002
NA
IL_6DNC_1081/B/1196:1198,
1/B/1247:1250		Isolated cWS basepair
homologous
IL_4WF9_044
IL_42997.3
IL_6DNC_1091/B/1202:1206,
1/B/1240:1243		No text annotation
homologous
IL_5J7L_287
IL_91920.1
IL_6DNC_1101/B/1208:1215,
1/B/1234:1238		Kink-turn
homologous
IL_5J7L_288
IL_70923.9
IL_6DNC_1111/B/1262:1269,
1/B/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
IL_04346.10
IL_6DNC_1121/B/1310:1313,
1/B/1603:1604		Major groove platform; stack outside cWW
homologous
IL_4WF9_049
IL_50694.7
IL_6DNC_1131/B/1319:1323,
1/B/1331:1333		C-loop
homologous
IL_5J7L_291
IL_63596.11
IL_6DNC_1141/B/1351:1355,
1/B/1376:1380		UAA/GAN
homologous
IL_5J7L_292
IL_89021.2
IL_6DNC_1151/B/1357:1361,
1/B/1370:1374		tSH-tHW-tHS
homologous
IL_5J7L_293
IL_17136.7
IL_6DNC_1161/B/1415:1416,
1/B/1582:1587		No text annotation
homologous
IL_5J7L_294
IL_87211.1
IL_6DNC_1171/B/1417:1421,
1/B/1577:1581		UAA/GAN
homologous
IL_5J7L_295
IL_38507.2
IL_6DNC_1181/B/1432:1435,
1/B/1557:1561		Tandem non-canonical cWW pairs
homologous
IL_5J7L_296
IL_58112.2
IL_6DNC_1191/B/1437:1440,
1/B/1551:1555		tSH-tHW
homologous
IL_7A0S_053
IL_99646.2
IL_6DNC_1201/B/1450:1451,
1/B/1459:1461		Single bulged U
geometric
IL_5J7L_298
IL_89505.4
IL_6DNC_1211/B/1468:1471,
1/B/1520:1524		No text annotation
homologous
IL_5J7L_299
IL_68574.4
IL_6DNC_1221/B/1474:1478,
1/B/1513:1517		tSH-tHW-tHS
homologous
IL_5J7L_300
IL_38862.4
IL_6DNC_1231/B/1481:1482,
1/B/1507:1510		180 degree turn
homologous
IL_5J7L_301
IL_00881.1
IL_6DNC_1241/B/1489:1491,
1/B/1499:1500		Single bulged A
homologous
IL_5J7L_302
IL_31462.5
IL_6DNC_1251/B/1526:1529,
1/B/1542:1546		UAA/GAN variation
homologous
IL_5J7L_303
IL_23774.1
IL_6DNC_1261/B/1651:1656,
1/B/2004:2006		No text annotation
homologous
IL_7RQB_064
NA
IL_6DNC_1271/B/1663:1665,
1/B/1995:1997		Isolated tWW turn
homologous
IL_5J7L_305
IL_67095.2
IL_6DNC_1281/B/1666:1669,
1/B/1993:1994		Major groove platform; stack outside cWW
homologous
IL_7RQB_066
NA
IL_6DNC_1861/B/1666:1674,
1/B/1990:1994		No text annotation
homologous
IL_7A0S_109
IL_22854.4
IL_6DNC_1291/B/1669:1674,
1/B/1990:1993		Intercalated tWH
geometric
IL_7A0S_062
IL_76758.2
IL_6DNC_1301/B/1686:1691,
1/B/1696:1702		tSH-tSH-tHH-tHS
geometric
IL_7RQB_068
NA
IL_6DNC_1311/B/1712:1718,
1/B/1742:1746		6x5 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_309
IL_88269.4
IL_6DNC_1321/B/1720:1724,
1/B/1736:1740		Triple sheared
homologous
IL_5J7L_310
IL_50730.2
IL_6DNC_1331/B/1770:1771,
1/B/1980:1982		Single bulged A
homologous
IL_5J7L_312
IL_31462.5
IL_6DNC_1341/B/1798:1804,
1/B/1813:1821		Kink-turn related
homologous
IL_5J7L_313
IL_17069.5
IL_6DNC_1351/B/1837:1840,
1/B/1902:1903		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
IL_95583.2
IL_6DNC_1871/B/1841:1842,
1/B/1898:1901		Major groove intercalation
homologous
IL_5J7L_315
IL_82107.4
IL_6DNC_1371/B/1846:1849,
1/B/1893:1894		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_316
IL_68140.4
IL_6DNC_1881/B/1851:1860,
1/B/1882:1891		No text annotation
homologous
IL_5J7L_387
IL_61249.1
IL_6DNC_1381/B/1864:1867,
1/B/1874:1878		UAA/GAN variation
homologous
IL_5J7L_317
IL_77691.5
IL_6DNC_1391/B/1933:1934,
1/B/1964:1967		Bulged stacked bases
homologous
IL_4WF9_076
IL_22551.3
IL_6DNC_1401/B/1934:1945,
1/B/1961:1964		No text annotation
geometric
IL_4WF9_077
IL_42218.2
IL_6DNC_1411/B/2050:2052,
1/B/2617:2618		Major groove platform
homologous
IL_7RQB_078
NA
IL_6DNC_1421/B/2054:2056,
1/B/2612:2615		No text annotation
homologous
IL_5J7L_321
IL_83389.2
IL_6DNC_1431/B/2067:2069,
1/B/2442:2443		Single bulged U
homologous
IL_7RQB_080
NA
IL_6DNC_1891/B/2067:2071,
1/B/2438:2443		No text annotation
IL_6DNC_1441/B/2070:2071,
1/B/2438:2441		Minor groove platform
homologous
IL_7RQB_081
NA
IL_6DNC_1451/B/2081:2083,
1/B/2236:2239		Isolated tHS basepair with bulges
homologous
IL_7A0S_077
IL_85599.2
IL_6DNC_1461/B/2085:2087,
1/B/2232:2234		Isolated non-canonical cWW pair
homologous
IL_5J7L_326
IL_28037.2
IL_6DNC_1471/B/2103:2105,
1/B/2184:2186		No text annotation
geometric
IL_3LA5_001
NA
IL_6DNC_1481/B/2108:2121,
1/B/2177:2181		No text annotation
IL_6DNC_1491/B/2124:2128,
1/B/2161:2174		No text annotation
IL_6DNC_1501/B/2128:2137,
1/B/2154:2161		No text annotation
IL_6DNC_1511/B/2202:2204,
1/B/2220:2221		Single bulged U
homologous
IL_5J7L_331
IL_89505.4
IL_6DNC_1521/B/2350:2353,
1/B/2364:2367		Double sheared
homologous
IL_4WF9_087
IL_09705.15
IL_6DNC_1531/B/2401:2403,
1/B/2414:2415		No text annotation
IL_6DNC_1541/B/2453:2454,
1/B/2498:2500		Single stack bend
homologous
IL_4WF9_089
IL_26793.1
IL_6DNC_1551/B/2454:2455,
1/B/2496:2498		Major groove platform
geometric
IL_4WF9_090
IL_48076.6
IL_6DNC_1561/B/2456:2459,
1/B/2493:2495		Major groove platform with extra pair
homologous
IL_7RQB_093
NA
IL_6DNC_1571/B/2459:2461,
1/B/2489:2493		Major groove minor groove platform with extra cWW
geometric
IL_5J7L_337
IL_51387.2
IL_6DNC_1581/B/2466:2470,
1/B/2480:2484		Triple sheared
homologous
IL_5J7L_338
IL_17948.2
IL_6DNC_1591/B/2507:2509,
1/B/2579:2582		Decoding loop related
geometric
IL_3C3Z_002
IL_31737.3
IL_6DNC_1601/B/2510:2512,
1/B/2574:2578		Isolated non-canonical cWW with bulges
geometric
IL_7RQB_097
NA
IL_6DNC_1611/B/2512:2513,
1/B/2571:2574		No text annotation
homologous
IL_5J7L_341
IL_42626.2
IL_6DNC_1621/B/2522:2523,
1/B/2540:2543		Major groove platform with intercalation
homologous
IL_7A0S_091
IL_02555.1
IL_6DNC_1631/B/2589:2591,
1/B/2603:2605		Isolated cWH basepair
geometric
IL_4J50_001
IL_10167.5
IL_6DNC_1641/B/2591:2592,
1/B/2601:2603		Single bulged A
geometric
IL_1U9S_001
IL_31462.5
IL_6DNC_1651/B/2636:2640,
1/B/2774:2782		tSH-tHS-tHW
homologous
IL_5J7L_345
IL_04638.3
IL_6DNC_1661/B/2652:2658,
1/B/2663:2668		Sarcin-Ricin target in LSU H95; G-bulge
homologous
IL_7A0S_094
IL_16458.4
IL_6DNC_1671/B/2680:2684,
1/B/2725:2727		C-loop
homologous
IL_7A0S_095
IL_63596.11
IL_6DNC_1681/B/2687:2691,
1/B/2718:2722		No text annotation
homologous
IL_4WF9_102
IL_23774.1
IL_6DNC_1691/B/2695:2696,
1/B/2711:2714		Multiple bulged bases
homologous
IL_4WF9_103
IL_42626.2
IL_6DNC_1701/B/2737:2742,
1/B/2762:2767		UAA/GAN with extra cWW
homologous
IL_5J7L_350
IL_49767.8
IL_6DNC_1921/B/2795:2796,
1/B/2799:2801		Single bulged A
geometric
IL_9DFE_017
IL_31462.5
IL_6DNC_1711/B/2806:2811,
1/B/2889:2892		No text annotation
homologous
IL_5J7L_351
IL_29471.1
IL_6DNC_1721/B/2838:2839,
1/B/2878:2880		Major groove intercalation
homologous
IL_4WF9_106
IL_66635.5
IL_6DNC_1731/B/2843:2846,
1/B/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
IL_64231.5
IL_6DNC_1741/B/2847:2852,
1/B/2865:2869		tHS double platform
homologous
IL_7RQB_110
NA
IL_6DNC_1751/C/17:18,
1/C/65:67		Major groove intercalation
homologous
IL_5J7L_355
IL_31462.5
IL_6DNC_1761/C/23:28,
1/C/56:60		No text annotation
homologous
IL_5J7L_356
IL_18472.4
IL_6DNC_1771/C/30:31,
1/C/51:54		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_357
IL_68140.4
IL_6DNC_1781/C/71:79,
1/C/97:105		Bacterial 5S Loop E
homologous
IL_5J7L_359
IL_56455.6

Problematic loops

#loop idProblemSequence
IL_6DNC_179No text annotation
IL_6DNC_038Isolated non-canonical cWW with bulges
IL_6DNC_044No text annotation
IL_6DNC_046Tandem non-canonical cWW pairs
IL_6DNC_053No text annotation
IL_6DNC_061Tandem non-canonical cWW pairs
IL_6DNC_107Major groove platform with extra cWW
IL_6DNC_136Isolated non-canonical cWW pair
IL_6DNC_190Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6DNC_0011/A/46:47,
1/A/361:369,
1/A/392:395		No text annotation
homologous
J3_5J7L_001
J3_67856.4
J3_6DNC_0271/A/46:52,
1/A/359:369,
1/A/392:395		No text annotation
homologous
J3_4LFB_014
J3_46317.4
J3_6DNC_0021/A/586:588,
1/A/651:654,
1/A/754:755		No text annotation
geometric
J3_4LFB_011
J3_56052.5
J3_6DNC_0281/A/586:588,
1/A/651:655,
1/A/751:755		No text annotation
homologous
J3_4LFB_015
J3_17385.4
J3_6DNC_0031/A/672:673,
1/A/717:725,
1/A/732:734		No text annotation
homologous
J3_5J7L_003
J3_11934.4
J3_6DNC_0041/A/826:829,
1/A/857:861,
1/A/868:874		No text annotation
homologous
J3_5J7L_004
J3_85054.4
J3_6DNC_0051/A/936:939,
1/A/1344:1350,
1/A/1372:1379		No text annotation
homologous
J3_4LFB_002
J3_25303.4
J3_6DNC_0061/A/943:946,
1/A/1235:1237,
1/A/1337:1340		No text annotation
homologous
J3_4LFB_003
J3_52655.4
J3_6DNC_0071/A/955:962,
1/A/973:984,
1/A/1221:1225		No text annotation
homologous
J3_5J7L_006
J3_83516.4
J3_6DNC_0081/A/990:993,
1/A/1045:1047,
1/A/1210:1215		No text annotation
homologous
J3_4LFB_005
J3_82572.1
J3_6DNC_0291/A/990:997,
1/A/1044:1047,
1/A/1210:1215		No text annotation
homologous
J3_4LFB_016
J3_76475.2
J3_6DNC_0091/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193		No text annotation
homologous
J3_5J7L_008
J3_08394.3
J3_6DNC_0381/A/1073:1074,
1/A/1083:1086,
1/A/1099:1102		No text annotation
homologous
J3_4LFB_017
J3_79369.1
J3_6DNC_0111/A/1116:1118,
1/A/1155:1158,
1/A/1181:1184		No text annotation
homologous
J3_5J7L_010
J3_82365.4
J3_6DNC_0301/A/1116:1118,
1/A/1155:1161,
1/A/1175:1184		No text annotation
homologous
J3_5J7L_054
J3_17791.2
J3_6DNC_0121/A/1237:1241,
1/A/1296:1303,
1/A/1334:1337		No text annotation
homologous
J3_4LFB_009
J3_37047.6
J3_6DNC_0131/B/30:31,
1/B/474:481,
1/B/509:510		No text annotation
homologous
J3_7RQB_001
NA
J3_6DNC_0311/B/30:31,
1/B/474:484,
1/B/496:510		No text annotation
homologous
J3_5J7L_066
J3_92134.2
J3_6DNC_0321/B/32:35,
1/B/445:461,
1/B/468:473		No text annotation
homologous
J3_5J7L_067
J3_30040.2
J3_6DNC_0141/B/56:57,
1/B/70:76,
1/B/110:114		No text annotation
homologous
J3_5J7L_037
J3_35667.2
J3_6DNC_0341/B/297:301,
1/B/316:325,
1/B/337:341		No text annotation
homologous
J3_5J7L_068
J3_46299.2
J3_6DNC_0151/B/683:689,
1/B/773:775,
1/B/791:794		No text annotation
homologous
J3_7RQB_004
NA
J3_6DNC_0161/B/698:700,
1/B/732:736,
1/B/760:763		No text annotation
homologous
J3_7RQB_005
NA
J3_6DNC_0171/B/1055:1057,
1/B/1081:1087,
1/B/1102:1104		No text annotation
homologous
J3_5J7L_040
J3_28621.5
J3_6DNC_0181/B/1298:1303,
1/B/1625:1627,
1/B/1639:1642		No text annotation
homologous
J3_5J7L_041
J3_32852.6
J3_6DNC_0191/B/1306:1309,
1/B/1605:1611,
1/B/1620:1622		No text annotation
homologous
J3_7A0S_007
J3_71677.1
J3_6DNC_0201/B/1344:1349,
1/B/1382:1385,
1/B/1402:1403		No text annotation
homologous
J3_5J7L_043
J3_92705.1
J3_6DNC_0361/B/1424:1429,
1/B/1564:1565,
1/B/1568:1574		No text annotation
homologous
J3_5J7L_069
J3_34864.2
J3_6DNC_0211/B/2091:2093,
1/B/2196:2200,
1/B/2223:2228		Kink-turn in J3
homologous
J3_5J7L_044
J3_89368.5
J3_6DNC_0371/B/2282:2284,
1/B/2384:2395,
1/B/2421:2427		No text annotation
homologous
J3_5J7L_070
J3_20992.1
J3_6DNC_0221/B/2295:2299,
1/B/2317:2323,
1/B/2332:2337		No text annotation
J3_6DNC_0231/B/2517:2520,
1/B/2545:2547,
1/B/2561:2567		No text annotation
homologous
J3_5J7L_046
J3_32601.5
J3_6DNC_0241/B/2789:2791,
1/B/2805:2806,
1/B/2892:2894		No text annotation
homologous
J3_5J7L_047
J3_30104.1
J3_6DNC_0251/B/2812:2815,
1/B/2831:2836,
1/B/2882:2888		No text annotation
homologous
J3_5J7L_048
J3_64069.1
J3_6DNC_0261/C/10:16,
1/C/68:70,
1/C/106:110		No text annotation
homologous
J3_5J7L_049
J3_89095.1
J4_6DNC_0011/A/115:122,
1/A/239:240,
1/A/286:289,
1/A/311:312		No text annotation
homologous
J4_5J7L_001
J4_35578.3
J4_6DNC_0021/A/142:144,
1/A/178:184,
1/A/193:198,
1/A/219:221		No text annotation
homologous
J4_5J7L_002
J4_01665.1
J4_6DNC_0031/A/575:577,
1/A/764:769,
1/A/810:821,
1/A/879:880		No text annotation
homologous
J4_5J7L_003
J4_61885.6
J4_6DNC_0041/B/268:269,
1/B/370:375,
1/B/399:406,
1/B/421:424		No text annotation
homologous
J4_5J7L_018
J4_45801.6
J4_6DNC_0051/B/601:604,
1/B/624:628,
1/B/635:638,
1/B/650:656		No text annotation
homologous
J4_5J7L_020
J4_60168.1
J4_6DNC_0061/B/1270:1276,
1/B/1294:1295,
1/B/1645:1648,
1/B/2009:2010		No text annotation
homologous
J4_5J7L_021
J4_64571.5
J4_6DNC_0071/B/1310:1314,
1/B/1338:1343,
1/B/1404:1405,
1/B/1597:1604		No text annotation
homologous
J4_5J7L_022
J4_69051.6
J4_6DNC_0081/B/1313:1314,
1/B/1338:1343,
1/B/1404:1405,
1/B/1597:1603		No text annotation
homologous
J4_5J7L_023
J4_10313.5
J4_6DNC_0091/B/1444:1445,
1/B/1466:1467,
1/B/1525:1526,
1/B/1546:1547		No text annotation
homologous
J4_5J7L_024
J4_24280.2
J4_6DNC_0101/B/1772:1776,
1/B/1788:1792,
1/B/1827:1830,
1/B/1975:1979		No text annotation
homologous
J4_4WF9_007
J4_61477.5
J4_6DNC_0111/B/1833:1835,
1/B/1905:1906,
1/B/1924:1933,
1/B/1967:1972		No text annotation
homologous
J4_9DFE_008
J4_93343.1
J4_6DNC_0121/B/2285:2289,
1/B/2343:2347,
1/B/2370:2372,
1/B/2381:2383		No text annotation
homologous
J4_9DFE_009
J4_04930.6
J4_6DNC_0131/B/2643:2646,
1/B/2674:2676,
1/B/2731:2735,
1/B/2769:2771		No text annotation
homologous
J4_5J7L_028
J4_77044.4
J4_6DNC_0141/D/7:10,
1/D/25:27,
1/D/43:49,
1/D/65:66		No text annotation
homologous
J4_6UFG_001
J4_70449.27
J4_6DNC_0151/LA/7:10,
1/LA/25:27,
1/LA/43:49,
1/LA/65:66		tRNA junction
homologous
J4_5E81_027
J4_70449.27
J5_6DNC_0011/A/36:39,
1/A/403:406,
1/A/436:440,
1/A/497:500,
1/A/545:548		No text annotation
J5_6DNC_0101/A/36:39,
1/A/403:406,
1/A/436:442,
1/A/492:500,
1/A/545:548		No text annotation
homologous
J5_5J7L_002
J5_67416.1
J5_6DNC_0031/A/58:61,
1/A/106:113,
1/A/314:316,
1/A/337:339,
1/A/350:354		No text annotation
homologous
J5_4LFB_002
J5_59910.6
J5_6DNC_0041/B/47:54,
1/B/116:121,
1/B/130:131,
1/B/148:150,
1/B/176:178		No text annotation
homologous
J5_5J7L_013
J5_01737.2
J5_6DNC_0051/B/531:533,
1/B/560:564,
1/B/577:579,
1/B/1261:1262,
1/B/2017:2018		No text annotation
homologous
J5_5J7L_014
J5_43153.5
J5_6DNC_0061/B/584:589,
1/B/668:671,
1/B/809:812,
1/B/1195:1196,
1/B/1250:1256		No text annotation
homologous
J5_5J7L_015
J5_74302.5
J5_6DNC_0071/B/1674:1682,
1/B/1706:1707,
1/B/1751:1752,
1/B/1756:1764,
1/B/1988:1990		No text annotation
homologous
J5_5J7L_016
J5_62523.6
J5_6DNC_0081/B/2057:2064,
1/B/2446:2453,
1/B/2500:2507,
1/B/2582:2588,
1/B/2606:2611		No text annotation
J5_6DNC_0091/B/2074:2077,
1/B/2243:2246,
1/B/2258:2259,
1/B/2281:2282,
1/B/2427:2435		No text annotation
homologous
J5_4WF9_007
J5_39529.1
J6_6DNC_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_6DNC_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_6DNC_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_6DNC_0021/B/817:822,
1/B/835:837,
1/B/942:946,
1/B/971:976,
1/B/987:991,
1/B/1163:1164,
1/B/1185:1190		No text annotation

Problematic loops

#loop idProblemSequence
J3_6DNC_010No text annotation
J3_6DNC_033No text annotation
J3_6DNC_035No text annotation
J5_6DNC_002No text annotation

Coloring options:
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