RNA 3D Hub //

8Q4F Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_8Q4F_0011/A/12:22No text annotation
homologous
HL_4LFB_001
HL_89881.5
HL_8Q4F_0021/A/77:92No text annotation
HL_8Q4F_0031/A/158:163GNRA
homologous
HL_5J7L_003
HL_37824.7
HL_8Q4F_0041/A/186:191GNRA
homologous
HL_5J7L_004
HL_37824.7
HL_8Q4F_0061/A/259:267GNRA related
homologous
HL_5J7L_006
HL_84299.4
HL_8Q4F_0071/A/296:301GNRA
homologous
HL_5J7L_007
HL_37824.7
HL_8Q4F_1171/A/320:333No text annotation
homologous
HL_5J7L_008
HL_81205.3
HL_8Q4F_0091/A/342:347UNCG
homologous
HL_4LFB_009
HL_34617.5
HL_8Q4F_0101/A/379:384GNRA
homologous
HL_4LFB_010
HL_37824.7
HL_8Q4F_0111/A/419:425No text annotation
HL_8Q4F_1061/A/461:471No text annotation
HL_8Q4F_0141/A/617:623No text annotation
homologous
HL_5J7L_014
HL_10453.3
HL_8Q4F_1181/A/684:706No text annotation
HL_8Q4F_0151/A/688:699No text annotation
HL_8Q4F_0161/A/726:731GNRA
homologous
HL_4LFB_016
HL_37824.7
HL_8Q4F_0171/A/786:796No text annotation
homologous
HL_5J7L_017
HL_75293.5
HL_8Q4F_0191/A/862:867GNRA
homologous
HL_5J7L_019
HL_37824.7
HL_8Q4F_0201/A/897:902GNRA
homologous
HL_4LFB_020
HL_37824.7
HL_8Q4F_1081/A/1011:1018No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_8Q4F_0221/A/1012:1017No text annotation
HL_8Q4F_0231/A/1076:1081GNRA
homologous
HL_4LFB_024
HL_37824.7
HL_8Q4F_0241/A/1089:1096T-loop related
homologous
HL_4LFB_025
HL_77436.5
HL_8Q4F_0251/A/1134:1141No text annotation
geometric
HL_8C3A_054
NA
HL_8Q4F_0261/A/1165:1171GNRA
homologous
HL_4LFB_027
HL_37824.7
HL_8Q4F_0271/A/1265:1270GNRA
homologous
HL_5J7L_027
HL_37824.7
HL_8Q4F_1191/A/1309:1328No text annotation
HL_8Q4F_0281/A/1310:1327No text annotation
HL_8Q4F_0291/A/1356:1366No text annotation
homologous
HL_4LFB_030
HL_06226.4
HL_8Q4F_0301/A/1449:1454UNCG
homologous
HL_5J7L_030
HL_34617.5
HL_8Q4F_0311/A/1515:1520GNRA variation
geometric
HL_4V88_222
NA
HL_8Q4F_0321/Z/13:22tRNA D-loop
homologous
HL_4TUE_033
HL_93616.2
HL_8Q4F_0331/Z/31:39tRNA anticodon loop
homologous
HL_6CFJ_107
HL_06059.6
HL_8Q4F_0341/Z/53:61T-loop with 2 stacked bulged bases
homologous
HL_5AH5_008
HL_28252.8
HL_8Q4F_0351/a/59:68No text annotation
homologous
HL_5J7L_134
HL_35677.3
HL_8Q4F_0361/a/87:95No text annotation
homologous
HL_5J7L_135
HL_80241.1
HL_8Q4F_0371/a/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.5
HL_8Q4F_0381/a/137:142UNCG
geometric
HL_4AY2_001
HL_34617.5
HL_8Q4F_0391/a/158:168No text annotation
homologous
HL_5J7L_138
HL_68257.1
HL_8Q4F_0401/a/194:201No text annotation
homologous
HL_4WF9_006
HL_30068.2
HL_8Q4F_0411/a/225:230No text annotation
homologous
HL_5J7L_140
HL_62934.1
HL_8Q4F_0421/a/246:252No text annotation
homologous
HL_8VTW_007
NA
HL_8Q4F_0431/a/305:312T-loop with 1 bulged base
homologous
HL_7A0S_010
HL_01609.3
HL_8Q4F_0441/a/319:323No text annotation
homologous
HL_5J7L_143
HL_75660.5
HL_8Q4F_0451/a/327:335T-loop with unstacked turn
homologous
HL_5J7L_144
HL_27670.2
HL_8Q4F_0461/a/382:392No text annotation
homologous
HL_5J7L_145
HL_91503.7
HL_8Q4F_0471/a/410:417Pseudoknot geometry
homologous
HL_7A0S_014
HL_30680.3
HL_8Q4F_0481/a/462:467GNRA
homologous
HL_7A0S_015
HL_37824.7
HL_8Q4F_0491/a/487:493GNRA
homologous
HL_5J7L_148
HL_37824.7
HL_8Q4F_0501/a/544:549Externally structured
geometric
HL_8C3A_022
NA
HL_8Q4F_0511/a/566:575T-loop with 2 stacked bulged bases
homologous
HL_5J7L_150
HL_28252.8
HL_8Q4F_0521/a/611:617GNRA
geometric
HL_3DIL_003
HL_30068.2
HL_8Q4F_0531/a/629:634GNRA
homologous
HL_5J7L_152
HL_37824.7
HL_8Q4F_0541/a/641:647No text annotation
homologous
HL_5J7L_153
HL_13529.1
HL_8Q4F_0551/a/712:719GNRA wlth tandem sheared
homologous
HL_5J7L_154
HL_81538.2
HL_8Q4F_0571/a/779:785No text annotation
homologous
HL_5J7L_156
HL_87954.2
HL_8Q4F_0581/a/826:831No text annotation
homologous
HL_8VTW_024
NA
HL_8Q4F_0591/a/885:891No text annotation
geometric
HL_5J7L_151
HL_80922.2
HL_8Q4F_0611/a/978:985No text annotation
homologous
HL_5J7L_160
HL_42998.2
HL_8Q4F_0631/a/1222:1227GNRA
homologous
HL_4WF9_031
HL_37824.7
HL_8Q4F_0641/a/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_5J7L_165
HL_28252.8
HL_8Q4F_0651/a/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
HL_57176.2
HL_8Q4F_0661/a/1363:1368GNRA
homologous
HL_8VTW_034
NA
HL_8Q4F_0671/a/1389:1398No text annotation
homologous
HL_5J7L_168
HL_81545.2
HL_8Q4F_0681/a/1451:1459Mini UNCG with extended bulge
geometric
HL_5J7L_169
HL_22622.1
HL_8Q4F_0691/a/1492:1498Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
HL_57176.2
HL_8Q4F_0701/a/1533:1538UNCG
homologous
HL_5J7L_171
HL_34617.5
HL_8Q4F_0711/a/1565:1568Mini UNCG
homologous
HL_5J7L_172
HL_48778.2
HL_8Q4F_0731/a/1630:1636GNRA
homologous
HL_5J7L_174
HL_37824.7
HL_8Q4F_0741/a/1691:1696UNCG
geometric
HL_7A0S_042
HL_34617.5
HL_8Q4F_0751/a/1727:1733No text annotation
geometric
HL_5J7L_018
HL_37344.1
HL_8Q4F_0761/a/1752:1756No text annotation
homologous
HL_8VTW_043
NA
HL_8Q4F_0771/a/1777:1787No text annotation
homologous
HL_8VTW_044
NA
HL_8Q4F_0781/a/1806:1811GNRA related
homologous
HL_5J7L_179
HL_04783.2
HL_8Q4F_1111/a/1868:1873GNRA
homologous
HL_7A0S_047
HL_37824.7
HL_8Q4F_0801/a/1910:1920No text annotation
geometric
HL_5TBW_049
NA
HL_8Q4F_0811/a/1949:1957No text annotation
homologous
HL_5J7L_182
HL_20167.2
HL_8Q4F_0841/a/2209:2215No text annotation
homologous
HL_5J7L_185
HL_49922.4
HL_8Q4F_0861/a/2264:2276No text annotation
homologous
HL_5J7L_187
HL_91939.2
HL_8Q4F_1121/a/2304:2312No text annotation
homologous
HL_5J7L_219
HL_50860.2
HL_8Q4F_0881/a/2324:2331Pseudoknot geometry
homologous
HL_5J7L_189
HL_93324.4
HL_8Q4F_0891/a/2356:2361GNRA
homologous
HL_5J7L_190
HL_37824.7
HL_8Q4F_0901/a/2374:2379GNRA
homologous
HL_5J7L_191
HL_37824.7
HL_8Q4F_0911/a/2404:2413No text annotation
homologous
HL_5J7L_192
HL_53454.2
HL_8Q4F_1141/a/2466:2484No text annotation
HL_8Q4F_0921/a/2471:2479No text annotation
homologous
HL_5J7L_193
HL_32735.2
HL_8Q4F_0931/a/2528:2535No text annotation
homologous
HL_4WF9_057
HL_31585.4
HL_8Q4F_0951/a/2594:2599GNRA
homologous
HL_5J7L_196
HL_37824.7
HL_8Q4F_0961/a/2658:2663GNRA
geometric
HL_5D5L_001
HL_37824.7
HL_8Q4F_0971/a/2701:2706Ribsomal LSU H95
homologous
HL_7A0S_064
HL_65794.5
HL_8Q4F_1201/a/2745:2759No text annotation
homologous
HL_5J7L_199
HL_74055.2
HL_8Q4F_0991/a/2795:2801Other HL
homologous
HL_5J7L_200
HL_08100.1
HL_8Q4F_1001/a/2819:2827No text annotation
homologous
HL_5J7L_201
HL_64690.6
HL_8Q4F_1011/a/2856:2861GNRA
homologous
HL_5J7L_202
HL_37824.7
HL_8Q4F_1161/b/34:48No text annotation
homologous
HL_5J7L_215
HL_97756.2
HL_8Q4F_1021/b/38:44No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_8Q4F_1031/b/86:90Mini UNCG
homologous
HL_5J7L_204
HL_48778.2

Problematic loops

#loop idProblemSequence
HL_8Q4F_104No text annotation
HL_8Q4F_105No text annotation
HL_8Q4F_005Externally structured
HL_8Q4F_008No text annotation
HL_8Q4F_012No text annotation
HL_8Q4F_013No text annotation
HL_8Q4F_107No text annotation
HL_8Q4F_018No text annotation
HL_8Q4F_021No text annotation
HL_8Q4F_109No text annotation
HL_8Q4F_056No text annotation
HL_8Q4F_060No text annotation
HL_8Q4F_110No text annotation
HL_8Q4F_062No text annotation
HL_8Q4F_072No text annotation
HL_8Q4F_079tRNA anticodon loop
HL_8Q4F_082No text annotation
HL_8Q4F_083tRNA D-loop
HL_8Q4F_085No text annotation
HL_8Q4F_087No text annotation
HL_8Q4F_113tRNA anticodon loop
HL_8Q4F_094No text annotation
HL_8Q4F_115No text annotation
HL_8Q4F_098No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_8Q4F_0011/A/30:33,
1/A/551:553		Isolated non-canonical cWW pair
geometric
IL_4LFB_061
NA
IL_8Q4F_0021/A/44:45,
1/A/396:398		Single bulged A
homologous
IL_5J7L_002
IL_31462.6
IL_8Q4F_0031/A/47:52,
1/A/359:361		No text annotation
homologous
IL_5J7L_003
IL_14177.2
IL_8Q4F_0041/A/54:56,
1/A/356:357		Minor groove platform
homologous
IL_4LFB_004
IL_51454.3
IL_8Q4F_0051/A/63:66,
1/A/103:104		Multiple bulged bases
homologous
IL_5J7L_005
IL_82107.4
IL_8Q4F_0061/A/67:69,
1/A/99:102		Minor groove platform with extra cWW
homologous
IL_5J7L_006
IL_90351.1
IL_8Q4F_0071/A/70:73,
1/A/97:98		Minor groove platform
geometric
IL_3RW6_001
IL_15052.4
IL_8Q4F_0081/A/75:76,
1/A/93:95		Multiple bulged bases
geometric
IL_4V88_392
NA
IL_8Q4F_0091/A/128:131,
1/A/231:233		Isolated non-canonical cWW pair
homologous
IL_5J7L_009
IL_57744.1
IL_8Q4F_0101/A/132:136,
1/A/227:230		Minor groove platform related
geometric
IL_5J7L_010
IL_64231.5
IL_8Q4F_0131/A/144:146,
1/A/176:178		Isolated cWH basepair
homologous
IL_5J7L_011
IL_10167.6
IL_8Q4F_0141/A/147:153,
1/A/168:175		tWH-tWH-tHW-tHW
homologous
IL_5J7L_012
IL_80604.6
IL_8Q4F_0161/A/242:247,
1/A/277:284		Kink-turn with non-sequential stacking
homologous
IL_4LFB_011
IL_46174.3
IL_8Q4F_2231/A/249:252,
1/A/274:275		No text annotation
homologous
IL_6CZR_405
NA
IL_8Q4F_0181/A/292:293,
1/A/304:308		C-loop
homologous
IL_4LFB_013
IL_03109.3
IL_8Q4F_0191/A/367:369,
1/A/392:393		Single bulged U
homologous
IL_5J7L_017
IL_89505.4
IL_8Q4F_0201/A/371:375,
1/A/389:390		C-loop
homologous
IL_5J7L_018
IL_03109.3
IL_8Q4F_1991/A/371:376,
1/A/387:390		C-loop with extra cWW pair
geometric
IL_4V88_408
NA
IL_8Q4F_0211/A/375:376,
1/A/387:389		Single bulged G
geometric
IL_5J7L_019
IL_00225.13
IL_8Q4F_2001/A/407:419,
1/A/425:435		No text annotation
IL_8Q4F_2241/A/440:442,
1/A/492:497		No text annotation
homologous
IL_5J7L_021
IL_33323.1
IL_8Q4F_2011/A/443:450,
1/A/483:491		No text annotation
IL_8Q4F_0241/A/446:450,
1/A/483:488		tSH-tHW-tWW
homologous
IL_5J7L_022
IL_88269.4
IL_8Q4F_0251/A/450:455,
1/A/477:483		No text annotation
geometric
IL_5J7L_023
IL_70801.1
IL_8Q4F_0261/A/504:511,
1/A/540:541		SSU/LSU pseudoknot
homologous
IL_4LFB_020
IL_41203.4
IL_8Q4F_0281/A/569:575,
1/A/880:881		No text annotation
homologous
IL_4LFB_022
IL_38186.6
IL_8Q4F_0291/A/580:584,
1/A/757:761		tSH-tHW-tHS
homologous
IL_5J7L_027
IL_17136.7
IL_8Q4F_0311/A/594:596,
1/A/644:645		Major groove platform
homologous
IL_5J7L_028
IL_48076.6
IL_8Q4F_0321/A/597:598,
1/A/640:643		Major groove minor groove platform; mini C-loop
homologous
IL_4LFB_025
IL_68140.4
IL_8Q4F_0351/A/605:612,
1/A/628:633		No text annotation
homologous
IL_5J7L_030
IL_78349.3
IL_8Q4F_0361/A/654:655,
1/A/751:754		Major groove platform; stack outside cWW
homologous
IL_4LFB_027
IL_50694.7
IL_8Q4F_2251/A/658:659,
1/A/746:748		Single stack bend
homologous
IL_5J7L_032
IL_26793.1
IL_8Q4F_0381/A/662:666,
1/A/740:743		Tandem non-canonical cWW pairs
homologous
IL_5J7L_033
IL_85033.2
IL_8Q4F_2261/A/673:677,
1/A/713:717		Triple non-canonical cWW pairs
homologous
IL_4LFB_065
IL_49751.4
IL_8Q4F_0401/A/682:688,
1/A/699:708		No text annotation
IL_8Q4F_0411/A/774:778,
1/A/804:805		Left turn
homologous
IL_4LFB_032
IL_29346.2
IL_8Q4F_0421/A/779:783,
1/A/799:803		tSH-tHW-tHS
homologous
IL_5J7L_037
IL_17136.7
IL_8Q4F_0441/A/887:894,
1/A/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_5J7L_038
IL_41756.4
IL_8Q4F_0451/A/922:923,
1/A/1393:1395		Single bulged A
homologous
IL_4LFB_035
IL_31462.6
IL_8Q4F_0461/A/925:927,
1/A/1390:1391		Single bulged G
homologous
IL_5J7L_040
IL_00225.13
IL_8Q4F_0471/A/933:935,
1/A/1380:1384		Minor groove platform
homologous
IL_5J7L_041
IL_47078.3
IL_8Q4F_0481/A/953:954,
1/A/1226:1228		Minor groove platform
homologous
IL_4LFB_038
IL_51454.3
IL_8Q4F_0501/A/993:997,
1/A/1044:1045		Minor groove platform
homologous
IL_5J7L_043
IL_47078.3
IL_8Q4F_0511/A/998:999,
1/A/1041:1043		Single stack bend
geometric
IL_6FZ0_001
IL_90729.1
IL_8Q4F_2051/A/1003:1009,
1/A/1020:1037		No text annotation
IL_8Q4F_0551/A/1052:1056,
1/A/1204:1206		Isolated cWS basepair
homologous
IL_4LFB_044
IL_76319.5
IL_8Q4F_0561/A/1057:1058,
1/A/1199:1203		Minor groove platform
homologous
IL_5J7L_048
IL_95583.2
IL_8Q4F_0571/A/1060:1061,
1/A/1195:1197		Single bulged A
geometric
IL_5J7L_049
IL_31462.6
IL_8Q4F_0581/A/1061:1063,
1/A/1193:1195		Isolated non-canonical cWW pair
homologous
IL_5J7L_050
IL_28037.2
IL_8Q4F_0601/A/1124:1134,
1/A/1141:1149		No text annotation
IL_8Q4F_2061/A/1243:1258,
1/A/1277:1294		No text annotation
IL_8Q4F_0611/A/1259:1263,
1/A/1272:1276		Triple sheared
homologous
IL_5J7L_056
IL_17948.2
IL_8Q4F_0621/A/1303:1308,
1/A/1329:1334		No text annotation
geometric
IL_4LFB_055
IL_85536.2
IL_8Q4F_0641/A/1399:1401,
1/A/1501:1504		No text annotation
homologous
IL_6CZR_165
NA
IL_8Q4F_0651/A/1401:1404,
1/A/1497:1501		No text annotation
geometric
IL_4V88_464
NA
IL_8Q4F_0661/A/1405:1407,
1/A/1494:1496		Isolated non-canonical cWW pair
geometric
IL_1ZZ5_002
IL_87907.2
IL_8Q4F_0671/A/1407:1409,
1/A/1491:1494		Decoding loop related
geometric
IL_3C3Z_002
IL_31737.3
IL_8Q4F_0681/A/1412:1414,
1/A/1486:1488		Isolated non-canonical cWW pair
homologous
IL_5J7L_061
IL_87907.2
IL_8Q4F_0691/A/1416:1419,
1/A/1481:1484		Double sheared
homologous
IL_6CZR_169
NA
IL_8Q4F_0711/A/1430:1435,
1/A/1466:1470		Triple sheared related
homologous
IL_5J7L_063
IL_80231.1
IL_8Q4F_2271/A/1440:1442,
1/A/1460:1461		Single bulged A
homologous
IL_5J7L_064
IL_31462.6
IL_8Q4F_2071/A/1445:1448,
1/A/1455:1457		No text annotation
homologous
IL_5J7L_065
IL_31531.3
IL_8Q4F_0751/a/24:30,
1/a/510:516		Triple sheared with non-canonical cWW
homologous
IL_4WF9_001
IL_04021.2
IL_8Q4F_0761/a/36:37,
1/a/442:444		Single bulged A
homologous
IL_7A0S_002
IL_31462.6
IL_8Q4F_0771/a/43:44,
1/a/434:436		Minor groove platform
homologous
IL_5J7L_247
IL_51454.3
IL_8Q4F_0781/a/81:85,
1/a/97:105		No text annotation
homologous
IL_5J7L_248
IL_37015.1
IL_8Q4F_0791/a/183:184,
1/a/212:214		Single stack bend
homologous
IL_7A0S_005
IL_90729.1
IL_8Q4F_0801/a/188:194,
1/a/201:208		8x7 Sarcin-Ricin; G-bulge
geometric
IL_5J7L_250
IL_04346.10
IL_8Q4F_0811/a/239:245,
1/a/253:258		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_251
IL_26307.2
IL_8Q4F_0821/a/269:271,
1/a/366:370		No text annotation
homologous
IL_5J7L_252
IL_47972.1
IL_8Q4F_0831/a/273:281,
1/a/359:364		No text annotation
IL_8Q4F_0871/a/293:295,
1/a/343:347		No text annotation
homologous
IL_5J7L_254
IL_69440.3
IL_8Q4F_0891/a/481:484,
1/a/496:509		No text annotation
homologous
IL_5J7L_255
IL_81516.2
IL_8Q4F_0911/a/536:539,
1/a/554:557		Double sheared
homologous
IL_5J7L_256
IL_09705.15
IL_8Q4F_0921/a/564:566,
1/a/575:577		Isolated non-canonical cWW pair
geometric
IL_7A0S_011
IL_07785.1
IL_8Q4F_0931/a/606:610,
1/a/618:622		AAA cross-strand stack
homologous
IL_5J7L_258
IL_66798.2
IL_8Q4F_0941/a/672:674,
1/a/806:808		No text annotation
geometric
IL_7RQB_017
NA
IL_8Q4F_0951/a/674:678,
1/a/799:806		tHW-tHW cross-strand stack
homologous
IL_5J7L_260
IL_54041.2
IL_8Q4F_0961/a/697:698,
1/a/763:765		Single bulged A
geometric
IL_5J7L_261
IL_31462.6
IL_8Q4F_0971/a/702:703,
1/a/728:730		Single bulged G
geometric
IL_7RQB_020
NA
IL_8Q4F_0981/a/703:707,
1/a/724:728		Triple sheared
homologous
IL_4WF9_024
IL_50730.2
IL_8Q4F_0991/a/738:740,
1/a/757:758		Major groove platform
homologous
IL_4WF9_026
IL_48076.6
IL_8Q4F_1001/a/775:777,
1/a/787:791		Multiple bulged bases
geometric
IL_5J7L_265
IL_06549.2
IL_8Q4F_1011/a/837:838,
1/a/940:942		Single stack bend
homologous
IL_7A0S_022
IL_90729.1
IL_8Q4F_1021/a/844:847,
1/a/933:934		Other IL
geometric
IL_5J7L_267
IL_90729.1
IL_8Q4F_2081/a/844:851,
1/a/926:934		No text annotation
IL_8Q4F_1031/a/847:848,
1/a/930:933		Stack outside cWW
homologous
IL_5J7L_268
IL_56987.1
IL_8Q4F_2091/a/847:851,
1/a/926:933		No text annotation
IL_8Q4F_1041/a/849:851,
1/a/926:929		No text annotation
geometric
IL_4P3T_002
NA
IL_8Q4F_1051/a/856:862,
1/a/915:921		7x7 Sarcin-Ricin with intercalated A; G-bulge
homologous
IL_5J7L_270
IL_29198.2
IL_8Q4F_1061/a/862:863,
1/a/913:915		Single bulged G
geometric
IL_5J7L_271
IL_00225.13
IL_8Q4F_1071/a/864:868,
1/a/909:912		C-loop
homologous
IL_5J7L_272
IL_26222.2
IL_8Q4F_1081/a/870:872,
1/a/905:907		Isolated cWS basepair
homologous
IL_4WF9_034
NA
IL_8Q4F_1091/a/875:879,
1/a/898:902		Triple sheared
homologous
IL_5J7L_274
IL_17948.2
IL_8Q4F_1101/a/880:881,
1/a/895:897		No text annotation
IL_8Q4F_1121/a/994:996,
1/a/1159:1160		Single bulged C
homologous
IL_5J7L_276
IL_61258.15
IL_8Q4F_1131/a/998:1002,
1/a/1153:1157		UAA/GAN
homologous
IL_4WF9_036
IL_38507.2
IL_8Q4F_1141/a/1004:1011,
1/a/1150:1151		SSU/LSU pseudoknot
homologous
IL_4WF9_037
IL_41203.4
IL_8Q4F_1151/a/1011:1013,
1/a/1149:1150		Single bulged U
geometric
IL_5J7L_279
IL_89505.4
IL_8Q4F_1161/a/1018:1024,
1/a/1140:1144		Kink-turn related
homologous
IL_5J7L_280
IL_57188.5
IL_8Q4F_1171/a/1024:1030,
1/a/1124:1140		No text annotation
geometric
IL_4WF9_040
IL_50715.3
IL_8Q4F_1181/a/1031:1034,
1/a/1121:1123		Isolated non-canonical cWW pair
homologous
IL_5J7L_282
IL_57744.1
IL_8Q4F_1191/a/1038:1041,
1/a/1114:1117		Tandem non-canonical cWW pairs
homologous
IL_5J7L_283
IL_85033.2
IL_8Q4F_2281/a/1043:1051,
1/a/1108:1112		Kink-turn
homologous
IL_5J7L_284
IL_99692.2
IL_8Q4F_1221/a/1196:1198,
1/a/1247:1250		Isolated cWS basepair
homologous
IL_4WF9_044
IL_42997.3
IL_8Q4F_1231/a/1202:1206,
1/a/1240:1243		No text annotation
homologous
IL_5J7L_287
IL_91920.1
IL_8Q4F_1241/a/1208:1215,
1/a/1234:1238		Kink-turn
homologous
IL_5J7L_288
IL_70923.9
IL_8Q4F_1251/a/1262:1269,
1/a/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
IL_04346.10
IL_8Q4F_1261/a/1319:1323,
1/a/1331:1333		C-loop
homologous
IL_5J7L_291
IL_63596.11
IL_8Q4F_1271/a/1351:1355,
1/a/1376:1380		UAA/GAN
homologous
IL_7A0S_048
IL_89021.2
IL_8Q4F_1281/a/1357:1361,
1/a/1370:1374		tSH-tHW-tHS
homologous
IL_5J7L_293
IL_17136.7
IL_8Q4F_1311/a/1415:1416,
1/a/1582:1587		No text annotation
homologous
IL_5J7L_294
IL_87211.1
IL_8Q4F_1321/a/1417:1421,
1/a/1577:1581		UAA/GAN
homologous
IL_5J7L_295
IL_38507.2
IL_8Q4F_1331/a/1432:1435,
1/a/1557:1561		Tandem non-canonical cWW pairs
homologous
IL_5J7L_296
IL_58112.2
IL_8Q4F_1341/a/1437:1440,
1/a/1551:1555		tSH-tHW
homologous
IL_5J7L_297
IL_99646.2
IL_8Q4F_1351/a/1450:1451,
1/a/1459:1461		Single bulged U
homologous
IL_5J7L_298
IL_89505.4
IL_8Q4F_1361/a/1468:1471,
1/a/1520:1524		No text annotation
homologous
IL_5J7L_299
IL_68574.4
IL_8Q4F_1371/a/1474:1479,
1/a/1512:1517		No text annotation
IL_8Q4F_2291/a/1481:1482,
1/a/1507:1510		180 degree turn
homologous
IL_5J7L_301
IL_00881.1
IL_8Q4F_1391/a/1489:1491,
1/a/1499:1500		Single bulged A
homologous
IL_5J7L_302
IL_31462.6
IL_8Q4F_1401/a/1526:1529,
1/a/1542:1546		UAA/GAN variation
homologous
IL_5J7L_303
IL_23774.1
IL_8Q4F_1411/a/1651:1656,
1/a/2004:2006		No text annotation
homologous
IL_8VTW_063
NA
IL_8Q4F_1421/a/1663:1665,
1/a/1995:1997		Isolated tWW turn
homologous
IL_5J7L_305
IL_67095.2
IL_8Q4F_1431/a/1666:1669,
1/a/1993:1994		Major groove platform; stack outside cWW
geometric
IL_5TBW_076
NA
IL_8Q4F_2151/a/1666:1674,
1/a/1990:1994		No text annotation
homologous
IL_4WF9_117
IL_22854.4
IL_8Q4F_1441/a/1669:1674,
1/a/1990:1993		Intercalated tWH
homologous
IL_4WF9_065
IL_76758.2
IL_8Q4F_1451/a/1686:1691,
1/a/1696:1702		No text annotation
homologous
IL_8VTW_067
NA
IL_8Q4F_1461/a/1712:1718,
1/a/1742:1746		6x5 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_309
IL_88269.4
IL_8Q4F_1471/a/1720:1724,
1/a/1736:1740		Triple sheared
homologous
IL_5J7L_310
IL_50730.2
IL_8Q4F_1481/a/1770:1771,
1/a/1980:1982		Single bulged A
homologous
IL_4WF9_068
IL_31462.6
IL_8Q4F_1491/a/1798:1804,
1/a/1813:1821		Kink-turn related
homologous
IL_5J7L_313
IL_17069.5
IL_8Q4F_1501/a/1837:1840,
1/a/1902:1903		Minor groove platform, major groove intercalation
homologous
IL_7A0S_066
IL_95583.2
IL_8Q4F_1511/a/1841:1842,
1/a/1898:1901		Major groove intercalation
homologous
IL_5J7L_315
IL_82107.4
IL_8Q4F_1521/a/1846:1849,
1/a/1893:1894		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_316
IL_68140.4
IL_8Q4F_2301/a/1851:1860,
1/a/1882:1891		No text annotation
homologous
IL_5J7L_387
IL_61249.1
IL_8Q4F_1531/a/1864:1867,
1/a/1874:1878		UAA/GAN variation
homologous
IL_5J7L_317
IL_77691.5
IL_8Q4F_1541/a/1933:1934,
1/a/1964:1967		No text annotation
homologous
IL_8VTW_075
NA
IL_8Q4F_1561/a/2050:2052,
1/a/2617:2618		Major groove platform
homologous
IL_5J7L_320
IL_48076.6
IL_8Q4F_1571/a/2054:2056,
1/a/2612:2615		No text annotation
homologous
IL_5J7L_321
IL_83389.2
IL_8Q4F_1601/a/2070:2071,
1/a/2438:2441		Minor groove platform
homologous
IL_5J7L_324
IL_51454.3
IL_8Q4F_1611/a/2081:2083,
1/a/2236:2239		No text annotation
homologous
IL_8VTW_081
NA
IL_8Q4F_1621/a/2085:2087,
1/a/2232:2234		Isolated non-canonical cWW pair
homologous
IL_5J7L_326
IL_28037.2
IL_8Q4F_2191/a/2202:2204,
1/a/2220:2221		Single bulged U
homologous
IL_5J7L_331
IL_89505.4
IL_8Q4F_1651/a/2297:2299,
1/a/2317:2321		No text annotation
geometric
IL_5J7L_332
IL_61476.2
IL_8Q4F_1661/a/2350:2353,
1/a/2364:2367		Double sheared
homologous
IL_5J7L_333
IL_09705.15
IL_8Q4F_1671/a/2401:2403,
1/a/2414:2415		Single bulged U
geometric
IL_5LYS_008
IL_89505.4
IL_8Q4F_1691/a/2459:2461,
1/a/2489:2493		Major groove minor groove platform with extra cWW
homologous
IL_8VTW_093
NA
IL_8Q4F_1701/a/2466:2470,
1/a/2480:2484		Triple sheared
homologous
IL_7A0S_087
IL_17948.2
IL_8Q4F_1721/a/2510:2512,
1/a/2574:2578		Isolated non-canonical cWW with bulges
homologous
IL_4WF9_095
IL_07785.1
IL_8Q4F_2201/a/2510:2513,
1/a/2571:2578		No text annotation
IL_8Q4F_1731/a/2512:2513,
1/a/2571:2574		No text annotation
geometric
IL_4WF9_096
IL_42626.2
IL_8Q4F_2211/a/2521:2523,
1/a/2540:2544		No text annotation
IL_8Q4F_1741/a/2522:2523,
1/a/2540:2543		Major groove platform with intercalation
homologous
IL_7A0S_091
IL_02555.1
IL_8Q4F_1761/a/2591:2592,
1/a/2601:2603		Single bulged A
homologous
IL_5J7L_344
IL_31462.6
IL_8Q4F_1771/a/2636:2640,
1/a/2774:2782		tSH-tHS-tHW
homologous
IL_5J7L_345
IL_04638.3
IL_8Q4F_1781/a/2652:2658,
1/a/2663:2668		No text annotation
homologous
IL_8VTW_102
NA
IL_8Q4F_1791/a/2680:2684,
1/a/2725:2727		C-loop
homologous
IL_5J7L_347
IL_63596.11
IL_8Q4F_1801/a/2687:2691,
1/a/2718:2722		No text annotation
homologous
IL_5J7L_348
IL_23774.1
IL_8Q4F_1811/a/2695:2696,
1/a/2711:2714		Multiple bulged bases
homologous
IL_4WF9_103
IL_42626.2
IL_8Q4F_1821/a/2737:2742,
1/a/2762:2767		UAA/GAN with extra cWW
geometric
IL_5J7L_350
IL_49767.8
IL_8Q4F_1851/a/2806:2811,
1/a/2889:2892		No text annotation
homologous
IL_5J7L_351
IL_29471.1
IL_8Q4F_1861/a/2838:2839,
1/a/2878:2880		Major groove intercalation
homologous
IL_5J7L_352
IL_66635.5
IL_8Q4F_1871/a/2843:2846,
1/a/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
IL_64231.5
IL_8Q4F_1881/a/2847:2852,
1/a/2865:2869		tHS double platform
homologous
IL_5J7L_354
IL_70411.2
IL_8Q4F_1891/b/17:18,
1/b/65:67		Major groove intercalation
homologous
IL_4WF9_112
IL_31462.6
IL_8Q4F_1911/b/23:28,
1/b/56:60		No text annotation
geometric
IL_5J7L_356
IL_18472.4
IL_8Q4F_1921/b/30:31,
1/b/51:54		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_357
IL_68140.4
IL_8Q4F_1931/b/34:38,
1/b/44:48		Symmetric double minor groove platform
homologous
IL_5J7L_358
IL_58103.11
IL_8Q4F_1941/b/71:79,
1/b/97:105		No text annotation
homologous
IL_8VTW_114
NA

Problematic loops

#loop idProblemSequence
IL_8Q4F_195Isolated non-canonical cWW pair
IL_8Q4F_196No text annotation
IL_8Q4F_197No text annotation
IL_8Q4F_011Isolated cWH basepair
IL_8Q4F_012Isolated non-canonical cWW pair
IL_8Q4F_015Isolated non-canonical cWW pair
IL_8Q4F_017No text annotation
IL_8Q4F_198No text annotation
IL_8Q4F_022No text annotation
IL_8Q4F_023No text annotation
IL_8Q4F_027No text annotation
IL_8Q4F_030Tandem non-canonical cWW pairs
IL_8Q4F_033Isolated non-canonical cWW pair
IL_8Q4F_034Isolated non-canonical cWW pair
IL_8Q4F_202No text annotation
IL_8Q4F_037No text annotation
IL_8Q4F_039No text annotation
IL_8Q4F_043Isolated non-canonical cWW pair
IL_8Q4F_203Isolated non-canonical cWW with bulges
IL_8Q4F_049No text annotation
IL_8Q4F_204No text annotation
IL_8Q4F_052Isolated non-canonical cWW pair
IL_8Q4F_053No text annotation
IL_8Q4F_054No text annotation
IL_8Q4F_059Isolated non-canonical cWW pair
IL_8Q4F_063Isolated non-canonical cWW pair
IL_8Q4F_070Tandem non-canonical cWW pairs
IL_8Q4F_072Major groove platform with extra cWW
IL_8Q4F_073No text annotation
IL_8Q4F_074No text annotation
IL_8Q4F_084Isolated non-canonical cWW pair
IL_8Q4F_085Tandem non-canonical cWW pairs
IL_8Q4F_086Isolated non-canonical cWW pair
IL_8Q4F_088Isolated cWH basepair
IL_8Q4F_090Isolated non-canonical cWW pair
IL_8Q4F_210No text annotation
IL_8Q4F_211No text annotation
IL_8Q4F_111Tandem non-canonical cWW pairs
IL_8Q4F_212No text annotation
IL_8Q4F_213Tandem non-canonical cWW pairs
IL_8Q4F_214Partly complementary
IL_8Q4F_120Isolated non-canonical cWW pair
IL_8Q4F_121No text annotation
IL_8Q4F_129No text annotation
IL_8Q4F_130Isolated non-canonical cWW pair
IL_8Q4F_138No text annotation
IL_8Q4F_216Isolated non-canonical cWW pair
IL_8Q4F_217No text annotation
IL_8Q4F_155No text annotation
IL_8Q4F_158No text annotation
IL_8Q4F_159Decoding loop related
IL_8Q4F_218No text annotation
IL_8Q4F_163Isolated non-canonical cWW pair
IL_8Q4F_164Multiple bulged bases, near cWW
IL_8Q4F_168No text annotation
IL_8Q4F_171No text annotation
IL_8Q4F_175No text annotation
IL_8Q4F_183Isolated cWS basepair
IL_8Q4F_184No text annotation
IL_8Q4F_222No text annotation
IL_8Q4F_190Isolated non-canonical cWW pair

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_8Q4F_0171/A/46:47,
1/A/361:367,
1/A/393:395		No text annotation
geometric
J3_5J7L_001
J3_67856.4
J3_8Q4F_0181/A/46:52,
1/A/359:367,
1/A/393:395		No text annotation
homologous
J3_5J7L_050
J3_46317.4
J3_8Q4F_0191/A/586:588,
1/A/651:654,
1/A/754:755		No text annotation
geometric
J3_5J7L_002
J3_56052.5
J3_8Q4F_0201/A/586:588,
1/A/651:655,
1/A/751:755		No text annotation
homologous
J3_5J7L_051
J3_17385.4
J3_8Q4F_0211/A/672:673,
1/A/717:725,
1/A/732:734		No text annotation
homologous
J3_5J7L_003
J3_11934.4
J3_8Q4F_0011/A/826:829,
1/A/857:861,
1/A/868:874		No text annotation
homologous
J3_5J7L_004
J3_85054.4
J3_8Q4F_0221/A/936:939,
1/A/1344:1350,
1/A/1372:1379		No text annotation
homologous
J3_5J7L_052
J3_25303.4
J3_8Q4F_0021/A/943:946,
1/A/1235:1237,
1/A/1337:1340		No text annotation
homologous
J3_4LFB_003
J3_52655.4
J3_8Q4F_0041/A/987:993,
1/A/1045:1048,
1/A/1209:1218		No text annotation
J3_8Q4F_0231/A/987:997,
1/A/1044:1048,
1/A/1209:1218		No text annotation
J3_8Q4F_0051/A/1063:1068,
1/A/1107:1113,
1/A/1187:1193		No text annotation
homologous
J3_5J7L_008
J3_08394.3
J3_8Q4F_0241/A/1073:1074,
1/A/1083:1086,
1/A/1099:1102		No text annotation
homologous
J3_4LFB_017
J3_79369.1
J3_8Q4F_0061/A/1116:1118,
1/A/1155:1161,
1/A/1175:1184		No text annotation
homologous
J3_4LFB_018
J3_17791.2
J3_8Q4F_0071/A/1237:1241,
1/A/1296:1303,
1/A/1334:1337		No text annotation
homologous
J3_4LFB_009
J3_37047.6
J3_8Q4F_0251/a/24:31,
1/a/474:484,
1/a/496:516		No text annotation
J3_8Q4F_0261/a/32:35,
1/a/445:461,
1/a/468:473		No text annotation
homologous
J3_5J7L_067
J3_30040.2
J3_8Q4F_0271/a/56:57,
1/a/70:76,
1/a/110:114		No text annotation
homologous
J3_5J7L_037
J3_35667.2
J3_8Q4F_0081/a/683:689,
1/a/773:775,
1/a/791:794		No text annotation
homologous
J3_5J7L_038
J3_64189.2
J3_8Q4F_0091/a/698:700,
1/a/732:736,
1/a/760:763		No text annotation
homologous
J3_8VTW_002
NA
J3_8Q4F_0101/a/1298:1303,
1/a/1625:1627,
1/a/1639:1642		No text annotation
homologous
J3_5J7L_041
J3_32852.6
J3_8Q4F_0111/a/1306:1309,
1/a/1605:1611,
1/a/1620:1622		No text annotation
homologous
J3_7A0S_007
J3_71677.1
J3_8Q4F_0281/a/1344:1349,
1/a/1382:1385,
1/a/1402:1403		No text annotation
homologous
J3_5J7L_043
J3_92705.1
J3_8Q4F_0291/a/1424:1429,
1/a/1564:1565,
1/a/1568:1574		No text annotation
homologous
J3_5J7L_069
J3_34864.2
J3_8Q4F_0121/a/2091:2093,
1/a/2196:2200,
1/a/2223:2228		Kink-turn in J3
homologous
J3_5J7L_044
J3_89368.5
J3_8Q4F_0301/a/2282:2284,
1/a/2384:2395,
1/a/2421:2427		No text annotation
homologous
J3_5J7L_070
J3_20992.1
J3_8Q4F_0131/a/2295:2297,
1/a/2321:2323,
1/a/2332:2337		No text annotation
homologous
J3_5J7L_045
J3_61124.2
J3_8Q4F_0311/a/2295:2299,
1/a/2317:2323,
1/a/2332:2337		No text annotation
homologous
J3_5J7L_071
J3_44961.1
J3_8Q4F_0141/a/2517:2520,
1/a/2545:2547,
1/a/2561:2567		No text annotation
homologous
J3_4WF9_009
J3_32601.5
J3_8Q4F_0331/a/2789:2791,
1/a/2805:2806,
1/a/2892:2894		No text annotation
homologous
J3_5J7L_047
J3_30104.1
J3_8Q4F_0151/a/2812:2815,
1/a/2831:2836,
1/a/2882:2888		No text annotation
homologous
J3_5J7L_048
J3_64069.1
J3_8Q4F_0161/b/10:16,
1/b/68:70,
1/b/106:110		No text annotation
homologous
J3_5J7L_049
J3_89095.1
J4_8Q4F_0141/A/115:123,
1/A/238:240,
1/A/286:289,
1/A/311:312		No text annotation
J4_8Q4F_0151/A/142:144,
1/A/178:184,
1/A/193:199,
1/A/218:221		No text annotation
J4_8Q4F_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_8Q4F_0041/Z/7:10,
1/Z/25:27,
1/Z/43:49,
1/Z/65:66		No text annotation
homologous
J4_9DFC_015
J4_70449.28
J4_8Q4F_0051/a/268:269,
1/a/370:375,
1/a/399:406,
1/a/421:424		No text annotation
homologous
J4_5J7L_018
J4_45801.6
J4_8Q4F_0161/a/297:301,
1/a/316:319,
1/a/323:325,
1/a/337:341		No text annotation
homologous
J4_5J7L_019
J4_71729.5
J4_8Q4F_0071/a/601:604,
1/a/624:628,
1/a/635:638,
1/a/650:656		No text annotation
homologous
J4_5J7L_020
J4_60168.1
J4_8Q4F_0081/a/1270:1276,
1/a/1294:1295,
1/a/1645:1648,
1/a/2009:2010		No text annotation
homologous
J4_5J7L_021
J4_64571.5
J4_8Q4F_0091/a/1310:1314,
1/a/1338:1343,
1/a/1404:1405,
1/a/1597:1604		No text annotation
homologous
J4_5J7L_022
J4_69051.6
J4_8Q4F_0101/a/1444:1445,
1/a/1466:1467,
1/a/1525:1526,
1/a/1546:1547		No text annotation
homologous
J4_5J7L_024
J4_24280.2
J4_8Q4F_0111/a/1772:1776,
1/a/1788:1792,
1/a/1827:1830,
1/a/1975:1979		No text annotation
homologous
J4_5J7L_025
J4_61477.5
J4_8Q4F_0121/a/2285:2289,
1/a/2343:2347,
1/a/2370:2372,
1/a/2381:2383		No text annotation
homologous
J4_5J7L_027
J4_04930.6
J4_8Q4F_0131/a/2643:2646,
1/a/2674:2676,
1/a/2731:2735,
1/a/2769:2771		No text annotation
homologous
J4_5J7L_028
J4_77044.4
J5_8Q4F_0011/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_8Q4F_0061/a/47:54,
1/a/116:121,
1/a/130:131,
1/a/148:150,
1/a/176:178		No text annotation
homologous
J5_5J7L_013
J5_01737.2
J5_8Q4F_0031/a/584:589,
1/a/668:671,
1/a/809:812,
1/a/1195:1196,
1/a/1250:1256		No text annotation
homologous
J5_5J7L_015
J5_74302.5
J5_8Q4F_0071/a/1674:1682,
1/a/1706:1707,
1/a/1751:1752,
1/a/1756:1764,
1/a/1988:1990		No text annotation
homologous
J5_5J7L_016
J5_62523.6
J5_8Q4F_0081/a/2074:2077,
1/a/2243:2246,
1/a/2258:2259,
1/a/2281:2282,
1/a/2427:2435		No text annotation
homologous
J5_4WF9_007
J5_39529.1
J6_8Q4F_0031/a/45:46,
1/a/179:184,
1/a/212:224,
1/a/231:235,
1/a/262:266,
1/a/426:433		No text annotation
J6_8Q4F_0041/a/2074:2077,
1/a/2243:2246,
1/a/2258:2259,
1/a/2281:2284,
1/a/2384:2395,
1/a/2421:2435		No text annotation
J6_8Q4F_0021/a/2074:2077,
1/a/2243:2247,
1/a/2257:2259,
1/a/2281:2284,
1/a/2384:2395,
1/a/2421:2435		No text annotation
J7_8Q4F_0011/a/817:822,
1/a/835:838,
1/a/940:946,
1/a/971:976,
1/a/987:991,
1/a/1163:1164,
1/a/1185:1190		No text annotation
J10_8Q4F_0011/a/8:15,
1/a/525:533,
1/a/560:564,
1/a/577:579,
1/a/1261:1262,
1/a/2017:2023,
1/a/2040:2043,
1/a/2625:2630,
1/a/2788:2789,
1/a/2894:2895		No text annotation

Problematic loops

#loop idProblemSequence
J3_8Q4F_003No text annotation
J3_8Q4F_032No text annotation
J3_8Q4F_034No text annotation
J4_8Q4F_001No text annotation
J4_8Q4F_002No text annotation
J4_8Q4F_006No text annotation
J5_8Q4F_002No text annotation
J5_8Q4F_004No text annotation
J5_8Q4F_005No text annotation
J6_8Q4F_001No text annotation

Coloring options:
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