RNA 3D Hub //

4V85 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4V85_0011/AA/12:22No text annotation
geometric
HL_5J7L_001
HL_89881.5
HL_4V85_0021/AA/82:87No text annotation
geometric
HL_4V88_198
NA
HL_4V85_0031/AA/158:163GNRA
geometric
HL_5J7L_003
HL_37824.8
HL_4V85_0041/AA/186:191GNRA
geometric
HL_5FJC_003
HL_37824.8
HL_4V85_0051/AA/207:212No text annotation
HL_4V85_0061/AA/259:267GNRA related
geometric
HL_5J7L_006
HL_84299.4
HL_4V85_0071/AA/296:301GNRA
geometric
HL_4LFB_007
HL_37824.8
HL_4V85_0081/AA/320:333No text annotation
geometric
HL_4LFB_008
HL_81205.3
HL_4V85_0091/AA/342:347UNCG
geometric
HL_5J7L_009
HL_34617.5
HL_4V85_0101/AA/379:384GNRA
geometric
HL_5J7L_010
HL_37824.8
HL_4V85_0111/AA/419:424UNCG
geometric
HL_5J7L_030
HL_34617.5
HL_4V85_0121/AA/462:470GNRA wlth extra near cWW
geometric
HL_5J7L_012
HL_81538.2
HL_4V85_0131/AA/522:527No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_4V85_0141/AA/617:623GNRA-like with tWH
geometric
HL_5J7L_014
HL_10453.3
HL_4V85_0151/AA/689:698No text annotation
geometric
HL_5J7L_015
HL_75293.5
HL_4V85_0161/AA/726:731GNRA
geometric
HL_5J7L_016
HL_37824.8
HL_4V85_0171/AA/786:796No text annotation
geometric
HL_4LFB_017
HL_75293.5
HL_4V85_0181/AA/840:846No text annotation
HL_4V85_0191/AA/862:867GNRA
geometric
HL_4LFB_019
HL_37824.8
HL_4V85_0201/AA/897:902GNRA
geometric
HL_4V9F_048
HL_37824.8
HL_4V85_0211/AA/962:973tRNA D-loop
geometric
HL_4TUE_033
HL_93616.2
HL_4V85_0241/AA/1076:1081GNRA
geometric
HL_5J7L_027
HL_37824.8
HL_4V85_0251/AA/1089:1096T-loop related
geometric
HL_4LFB_025
HL_77436.5
HL_4V85_0261/AA/1134:1140No text annotation
geometric
HL_5U3G_001
HL_75660.5
HL_4V85_0271/AA/1165:1171GNRA
geometric
HL_5J7L_026
HL_93535.1
HL_4V85_0281/AA/1265:1270GNRA
geometric
HL_3NPQ_001
HL_37824.8
HL_4V85_0291/AA/1314:1323T-loop with 3 stacked bulged bases
geometric
HL_5J7L_028
HL_02887.3
HL_4V85_1071/AA/1356:1366No text annotation
geometric
HL_4LFB_030
HL_06226.4
HL_4V85_0311/AA/1449:1454tRNA D-loop
geometric
HL_5UD5_001
HL_48417.6
HL_4V85_0321/AA/1515:1520GNRA variation
geometric
HL_4V88_222
NA
HL_4V85_0331/BA/59:68No text annotation
homologous
HL_5J7L_134
HL_35677.3
HL_4V85_0341/BA/87:95No text annotation
homologous
HL_5J7L_135
HL_80241.1
HL_4V85_0351/BA/123:128No text annotation
homologous
HL_4WF9_003
HL_75660.5
HL_4V85_0361/BA/136:143No text annotation
HL_4V85_0371/BA/158:168No text annotation
homologous
HL_5J7L_138
HL_68257.1
HL_4V85_0381/BA/194:201No text annotation
geometric
HL_4WF9_006
HL_30068.2
HL_4V85_0391/BA/225:230No text annotation
homologous
HL_5J7L_140
HL_62934.1
HL_4V85_0401/BA/246:252No text annotation
homologous
HL_5J7L_141
HL_37369.2
HL_4V85_0411/BA/305:312T-loop with 2 stacked bulged bases
homologous
HL_5J7L_142
HL_01609.3
HL_4V85_0421/BA/319:323No text annotation
homologous
HL_5J7L_143
HL_75660.5
HL_4V85_0431/BA/327:335T-loop with unstacked turn
homologous
HL_4WF9_012
HL_27670.2
HL_4V85_0441/BA/382:392No text annotation
homologous
HL_5J7L_145
HL_91503.7
HL_4V85_0451/BA/410:417Pseudoknot geometry
homologous
HL_5J7L_146
HL_30680.3
HL_4V85_0461/BA/462:467GNRA
homologous
HL_7RQB_015
NA
HL_4V85_0471/BA/487:493GNRA
homologous
HL_5J7L_148
HL_37824.8
HL_4V85_0481/BA/543:550No text annotation
homologous
HL_5J7L_149
HL_09452.1
HL_4V85_0491/BA/566:575T-loop with 2 stacked bulged bases
geometric
HL_5J7L_150
HL_28252.9
HL_4V85_0501/BA/611:617No text annotation
homologous
HL_5J7L_151
HL_80922.2
HL_4V85_0511/BA/629:634GNRA
homologous
HL_5J7L_152
HL_37824.8
HL_4V85_0521/BA/641:647No text annotation
homologous
HL_5J7L_153
HL_13529.1
HL_4V85_0531/BA/712:719GNRA wlth tandem sheared
homologous
HL_5J7L_154
HL_81538.2
HL_4V85_0541/BA/744:753No text annotation
homologous
HL_4WF9_023
HL_88205.2
HL_4V85_0551/BA/779:785UNCG variation
homologous
HL_7A0S_023
HL_53890.2
HL_4V85_0561/BA/826:831No text annotation
homologous
HL_5J7L_157
HL_55195.3
HL_4V85_0581/BA/955:962GNRA
homologous
HL_4WF9_027
HL_37824.8
HL_4V85_0591/BA/978:985No text annotation
homologous
HL_7A0S_027
HL_42998.2
HL_4V85_0601/BA/1064:1074No text annotation
HL_4V85_0611/BA/1092:1099GNRA wlth tandem sheared
homologous
HL_6PRV_002
HL_81538.2
HL_4V85_1121/BA/1172:1177No text annotation
HL_4V85_0631/BA/1222:1227GNRA
homologous
HL_5J7L_164
HL_37824.8
HL_4V85_0641/BA/1281:1289T-loop with 2 stacked bulged bases
homologous
HL_5J7L_165
HL_28252.9
HL_4V85_0651/BA/1324:1330Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_166
HL_57176.2
HL_4V85_0661/BA/1363:1368GNRA
homologous
HL_5J7L_167
HL_37824.8
HL_4V85_0671/BA/1389:1398No text annotation
homologous
HL_5J7L_168
HL_81545.2
HL_4V85_0681/BA/1451:1459Mini UNCG with extended bulge
homologous
HL_5J7L_169
HL_22622.1
HL_4V85_0691/BA/1492:1498Pseudoknot geometry with 3' bulge
homologous
HL_5J7L_170
HL_57176.2
HL_4V85_0701/BA/1533:1538UNCG
homologous
HL_5J7L_171
HL_34617.5
HL_4V85_0711/BA/1565:1568Mini UNCG
homologous
HL_5J7L_172
HL_48778.2
HL_4V85_0721/BA/1612:1619No text annotation
homologous
HL_7RQB_040
NA
HL_4V85_0731/BA/1630:1636GNRA
homologous
HL_5J7L_174
HL_37824.8
HL_4V85_0741/BA/1691:1696UNCG
homologous
HL_5J7L_175
HL_34617.5
HL_4V85_0761/BA/1752:1756No text annotation
homologous
HL_5J7L_177
HL_80709.3
HL_4V85_0771/BA/1777:1787No text annotation
homologous
HL_4WF9_043
HL_01962.2
HL_4V85_0781/BA/1806:1811GNRA related
homologous
HL_5J7L_179
HL_04783.2
HL_4V85_0791/BA/1868:1873GNRA variation
homologous
HL_5J7L_180
HL_37824.8
HL_4V85_0801/BA/1910:1920No text annotation
geometric
HL_5TBW_049
NA
HL_4V85_0811/BA/1949:1957No text annotation
homologous
HL_5J7L_182
HL_20167.2
HL_4V85_0821/BA/2027:2036No text annotation
homologous
HL_7RQB_050
NA
HL_4V85_0841/BA/2209:2215No text annotation
homologous
HL_5J7L_185
HL_49922.4
HL_4V85_0851/BA/2248:2256No text annotation
homologous
HL_4WF9_049
HL_85367.2
HL_4V85_0861/BA/2264:2276No text annotation
homologous
HL_5J7L_187
HL_91939.2
HL_4V85_1111/BA/2304:2312No text annotation
homologous
HL_5J7L_219
HL_50860.2
HL_4V85_0881/BA/2324:2331Pseudoknot geometry
homologous
HL_5J7L_189
HL_93324.4
HL_4V85_0891/BA/2356:2361GNRA
homologous
HL_5J7L_190
HL_37824.8
HL_4V85_0901/BA/2374:2379GNRA
homologous
HL_5J7L_191
HL_37824.8
HL_4V85_0911/BA/2404:2413No text annotation
homologous
HL_5J7L_192
HL_53454.2
HL_4V85_0921/BA/2471:2479No text annotation
homologous
HL_5J7L_193
HL_32735.2
HL_4V85_0931/BA/2528:2535No text annotation
homologous
HL_7RQB_061
NA
HL_4V85_0941/BA/2551:2557No text annotation
homologous
HL_4WF9_058
HL_30068.2
HL_4V85_0951/BA/2594:2599GNRA
homologous
HL_5J7L_196
HL_37824.8
HL_4V85_0961/BA/2658:2663GNRA
homologous
HL_7RQB_064
NA
HL_4V85_0971/BA/2701:2706Ribsomal LSU H95
homologous
HL_5J7L_198
HL_65794.5
HL_4V85_0981/BA/2745:2759No text annotation
homologous
HL_5J7L_199
HL_74055.2
HL_4V85_1001/BA/2819:2827No text annotation
homologous
HL_5J7L_201
HL_64690.6
HL_4V85_1011/BA/2856:2861GNRA
homologous
HL_7A0S_068
HL_37824.8
HL_4V85_1021/BB/38:44No text annotation
geometric
HL_5J7L_203
HL_47787.2
HL_4V85_1031/BB/86:90Mini UNCG
homologous
HL_5J7L_204
HL_48778.2

Problematic loops

#loop idProblemSequence
HL_4V85_104No text annotation
HL_4V85_105No text annotation
HL_4V85_106No text annotation
HL_4V85_022GNRA
HL_4V85_023No text annotation
HL_4V85_030No text annotation
HL_4V85_057No text annotation
HL_4V85_062No text annotation
HL_4V85_108No text annotation
HL_4V85_075No text annotation
HL_4V85_109No text annotation
HL_4V85_083No text annotation
HL_4V85_087No text annotation
HL_4V85_099UNCG variation
HL_4V85_110Mini UNCG

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4V85_0011/AA/30:32,
1/AA/552:553		Single bulged G
geometric
IL_5J7L_001
IL_00225.14
IL_4V85_0021/AA/44:45,
1/AA/396:398		Single bulged A
geometric
IL_5J7L_002
IL_31462.7
IL_4V85_0031/AA/47:52,
1/AA/359:361		No text annotation
geometric
IL_5J7L_003
IL_14177.2
IL_4V85_0041/AA/54:56,
1/AA/356:357		Minor groove platform
geometric
IL_4LFB_004
IL_51454.3
IL_4V85_0051/AA/63:66,
1/AA/103:104		Multiple bulged bases
geometric
IL_4LFB_005
IL_82107.5
IL_4V85_0061/AA/67:69,
1/AA/99:102		Minor groove platform with extra cWW
geometric
IL_5J7L_006
IL_90351.1
IL_4V85_1841/AA/67:73,
1/AA/97:102		No text annotation
IL_4V85_0071/AA/69:73,
1/AA/97:99		No text annotation
geometric
IL_2OEU_001
IL_46387.1
IL_4V85_0081/AA/75:76,
1/AA/93:95		No text annotation
IL_4V85_0111/AA/128:131,
1/AA/231:233		No text annotation
IL_4V85_0121/AA/132:136,
1/AA/227:230		Minor groove platform related
geometric
IL_5J7L_010
IL_64231.5
IL_4V85_0141/AA/144:146,
1/AA/176:178		Isolated cWH basepair
geometric
IL_3W3S_003
IL_10167.6
IL_4V85_0151/AA/147:153,
1/AA/168:175		tWH-tWH-tHW-tHW
geometric
IL_5J7L_012
IL_80604.6
IL_4V85_0161/AA/203:206,
1/AA/213:214		Minor groove platform
geometric
IL_3RW6_003
IL_95583.2
IL_4V85_0171/AA/242:247,
1/AA/277:284		Kink-turn with non-sequential stacking
geometric
IL_5J7L_014
IL_46174.3
IL_4V85_0181/AA/249:252,
1/AA/274:275		No text annotation
geometric
IL_5J7L_015
IL_47074.2
IL_4V85_0191/AA/292:293,
1/AA/304:308		C-loop
geometric
IL_6CZR_125
NA
IL_4V85_0201/AA/367:369,
1/AA/392:393		Single bulged U
geometric
IL_5J7L_017
IL_89505.4
IL_4V85_0211/AA/371:375,
1/AA/389:390		C-loop
geometric
IL_5J7L_018
IL_03109.3
IL_4V85_0221/AA/375:376,
1/AA/387:389		Single bulged G
geometric
IL_5J7L_019
IL_00225.14
IL_4V85_0231/AA/409:416,
1/AA/427:433		No text annotation
geometric
IL_4LFB_017
IL_28026.3
IL_4V85_0241/AA/440:442,
1/AA/492:497		No text annotation
geometric
IL_5J7L_021
IL_33323.1
IL_4V85_0251/AA/446:450,
1/AA/483:488		tSH-tHW-tWW
geometric
IL_5J7L_022
IL_88269.4
IL_4V85_0261/AA/450:455,
1/AA/477:483		No text annotation
geometric
IL_5J7L_023
IL_70801.1
IL_4V85_1851/AA/458:459,
1/AA/472:474		Single stack bend
geometric
IL_8C3A_012
NA
IL_4V85_0281/AA/460:462,
1/AA/470:471		Single bulged A
geometric
IL_5J7L_312
IL_31462.7
IL_4V85_0291/AA/504:511,
1/AA/540:541		SSU/LSU pseudoknot
geometric
IL_5J7L_024
IL_41203.4
IL_4V85_0301/AA/515:521,
1/AA/528:536		Kink-turn related
geometric
IL_4V88_415
NA
IL_4V85_0311/AA/569:575,
1/AA/880:881		No text annotation
geometric
IL_4LFB_022
IL_38186.6
IL_4V85_0321/AA/580:584,
1/AA/757:761		tSH-tHW-tHS
geometric
IL_5J7L_027
IL_17136.7
IL_4V85_0331/AA/594:596,
1/AA/644:645		Major groove platform
geometric
IL_5J7L_028
IL_48076.6
IL_4V85_2011/AA/597:598,
1/AA/640:643		Major groove minor groove platform; mini C-loop
geometric
IL_4PDB_002
IL_68140.4
IL_4V85_0351/AA/605:612,
1/AA/628:633		No text annotation
geometric
IL_5J7L_030
IL_78349.3
IL_4V85_0361/AA/654:655,
1/AA/751:754		Major groove platform; stack outside cWW
geometric
IL_5J7L_031
IL_50694.7
IL_4V85_0371/AA/658:659,
1/AA/746:748		Single stack bend
geometric
IL_5J7L_032
IL_26793.1
IL_4V85_0381/AA/662:666,
1/AA/740:743		Tandem non-canonical cWW pairs
geometric
IL_5J7L_033
IL_85033.2
IL_4V85_0391/AA/684:688,
1/AA/699:706		Kink-turn
geometric
IL_5J7L_035
IL_01488.3
IL_4V85_2021/AA/774:778,
1/AA/804:805		Left turn
geometric
IL_4LFB_032
IL_29346.2
IL_4V85_0411/AA/779:783,
1/AA/799:803		tSH-tHW-tHS
geometric
IL_5J7L_037
IL_17136.7
IL_4V85_0421/AA/887:894,
1/AA/905:910		8x6 Sarcin-Ricin with inserted Y; G-bulge
geometric
IL_5J7L_038
IL_41756.4
IL_4V85_0431/AA/922:923,
1/AA/1393:1395		Single bulged A
geometric
IL_5J7L_039
IL_31462.7
IL_4V85_0441/AA/925:927,
1/AA/1390:1391		Single bulged G
geometric
IL_5J7L_040
IL_00225.14
IL_4V85_0451/AA/933:935,
1/AA/1380:1384		Minor groove platform
geometric
IL_5J7L_041
IL_47078.3
IL_4V85_0461/AA/953:954,
1/AA/1226:1228		Minor groove platform
geometric
IL_4V88_445
NA
IL_4V85_2031/AA/955:984,
1/AA/1221:1225		No text annotation
IL_4V85_0481/AA/1048:1050,
1/AA/1208:1209		Single bulged U
geometric
IL_5J7L_046
IL_89505.4
IL_4V85_0491/AA/1052:1056,
1/AA/1204:1206		Isolated cWS basepair
geometric
IL_4LFB_044
IL_76319.5
IL_4V85_0501/AA/1057:1058,
1/AA/1199:1203		Minor groove platform
geometric
IL_5J7L_048
IL_95583.2
IL_4V85_0511/AA/1060:1061,
1/AA/1195:1197		Single bulged A
geometric
IL_5J7L_049
IL_31462.7
IL_4V85_0521/AA/1061:1063,
1/AA/1193:1195		Isolated non-canonical cWW pair
geometric
IL_5J7L_050
IL_28037.2
IL_4V85_0541/AA/1124:1128,
1/AA/1144:1149		No text annotation
geometric
IL_5J7L_051
IL_06691.1
IL_4V85_2041/AA/1129:1132,
1/AA/1142:1143		Minor groove platform
geometric
IL_5J7L_052
IL_15052.4
IL_4V85_0561/AA/1158:1161,
1/AA/1175:1181		No text annotation
geometric
IL_5J7L_053
IL_42032.1
IL_4V85_0571/AA/1247:1253,
1/AA/1284:1290		No text annotation
geometric
IL_5J7L_054
IL_09129.2
IL_4V85_0581/AA/1255:1258,
1/AA/1277:1282		180 degree turn
geometric
IL_5J7L_055
IL_11344.2
IL_4V85_0591/AA/1259:1263,
1/AA/1272:1276		Double sheared with non-canonical cWW
geometric
IL_5J7L_056
IL_17948.2
IL_4V85_0601/AA/1303:1308,
1/AA/1329:1334		No text annotation
geometric
IL_5J7L_057
IL_85536.2
IL_4V85_0621/AA/1399:1401,
1/AA/1501:1504		No text annotation
geometric
IL_5J7L_058
IL_61438.4
IL_4V85_0631/AA/1401:1404,
1/AA/1497:1501		No text annotation
geometric
IL_4V88_464
NA
IL_4V85_0641/AA/1405:1407,
1/AA/1494:1496		Isolated non-canonical cWW pair
geometric
IL_4V88_465
NA
IL_4V85_0651/AA/1407:1409,
1/AA/1491:1494		Decoding loop related
geometric
IL_3C3Z_002
IL_31737.3
IL_4V85_0661/AA/1412:1414,
1/AA/1486:1488		Isolated non-canonical cWW pair
geometric
IL_5J7L_061
IL_87907.2
IL_4V85_0671/AA/1416:1419,
1/AA/1481:1484		Double sheared
geometric
IL_5J7L_062
IL_09705.15
IL_4V85_0681/AA/1430:1435,
1/AA/1466:1470		Triple sheared related
geometric
IL_5J7L_063
IL_80231.1
IL_4V85_0691/AA/1440:1442,
1/AA/1460:1461		Single bulged A
geometric
IL_5J7L_064
IL_31462.7
IL_4V85_0701/AA/1445:1448,
1/AA/1455:1457		No text annotation
geometric
IL_5J7L_065
IL_31531.3
IL_4V85_0711/BA/24:30,
1/BA/510:516		Triple sheared with non-canonical cWW
homologous
IL_5J7L_245
IL_04021.2
IL_4V85_0721/BA/36:37,
1/BA/442:444		Single bulged A
homologous
IL_5J7L_246
IL_31462.7
IL_4V85_0731/BA/43:44,
1/BA/434:436		Minor groove platform
homologous
IL_5J7L_247
IL_51454.3
IL_4V85_0741/BA/81:85,
1/BA/97:105		No text annotation
homologous
IL_5J7L_248
IL_37015.1
IL_4V85_0761/BA/183:184,
1/BA/212:214		Single stack bend
homologous
IL_5J7L_249
IL_90729.1
IL_4V85_0771/BA/188:194,
1/BA/201:208		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_250
IL_04346.10
IL_4V85_0781/BA/239:245,
1/BA/253:258		7x6 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_251
IL_26307.2
IL_4V85_0791/BA/269:271,
1/BA/366:370		No text annotation
homologous
IL_5J7L_252
IL_47972.1
IL_4V85_0801/BA/274:281,
1/BA/359:363		No text annotation
homologous
IL_5J7L_253
IL_77870.1
IL_4V85_0811/BA/293:295,
1/BA/343:347		No text annotation
homologous
IL_5J7L_254
IL_69440.3
IL_4V85_0821/BA/481:484,
1/BA/496:509		No text annotation
homologous
IL_5J7L_255
IL_81516.2
IL_4V85_0831/BA/536:539,
1/BA/554:557		Double sheared
homologous
IL_5J7L_256
IL_09705.15
IL_4V85_0841/BA/564:566,
1/BA/575:577		Isolated non-canonical cWW pair
homologous
IL_5J7L_257
IL_07785.1
IL_4V85_0851/BA/606:610,
1/BA/618:622		AAA cross-strand stack
homologous
IL_5J7L_258
IL_66798.2
IL_4V85_0861/BA/672:674,
1/BA/806:808		Isolated non-canonical cWW pair
homologous
IL_5J7L_259
IL_87907.2
IL_4V85_0871/BA/674:678,
1/BA/799:806		tHW-tHW cross-strand stack
geometric
IL_5J7L_260
IL_54041.2
IL_4V85_0881/BA/697:698,
1/BA/763:765		Single bulged A
homologous
IL_5J7L_261
IL_31462.7
IL_4V85_0891/BA/702:703,
1/BA/728:730		Single bulged G
geometric
IL_5J7L_262
IL_00225.14
IL_4V85_0901/BA/703:707,
1/BA/724:728		Triple sheared
homologous
IL_5J7L_263
IL_50730.2
IL_4V85_0911/BA/738:740,
1/BA/757:758		Major groove platform
homologous
IL_4WF9_026
IL_48076.6
IL_4V85_0921/BA/775:777,
1/BA/787:791		Multiple bulged bases
homologous
IL_5J7L_265
IL_06549.2
IL_4V85_0931/BA/837:838,
1/BA/940:942		Single stack bend
homologous
IL_4WF9_028
IL_90729.1
IL_4V85_0941/BA/844:847,
1/BA/933:934		90 degree turn
geometric
IL_5J7L_267
IL_90729.1
IL_4V85_1921/BA/844:848,
1/BA/930:934		No text annotation
homologous
IL_5J7L_399
IL_96236.1
IL_4V85_0951/BA/847:848,
1/BA/930:933		Stack outside cWW
homologous
IL_5J7L_268
IL_56987.1
IL_4V85_0961/BA/850:851,
1/BA/926:928		Single stack bend
homologous
IL_5J7L_269
IL_26793.1
IL_4V85_0971/BA/856:862,
1/BA/915:921		7x7 Sarcin-Ricin with intercalated A; G-bulge
homologous
IL_5J7L_270
IL_29198.2
IL_4V85_0981/BA/862:863,
1/BA/913:915		Single bulged G
geometric
IL_5J7L_271
IL_00225.14
IL_4V85_0991/BA/864:868,
1/BA/909:912		C-loop with bulged stacked A's
homologous
IL_5J7L_272
IL_26222.2
IL_4V85_1001/BA/870:872,
1/BA/905:907		Isolated non-canonical cWW pair
homologous
IL_5J7L_273
IL_28037.2
IL_4V85_1011/BA/875:879,
1/BA/898:902		No text annotation
IL_4V85_2051/BA/875:881,
1/BA/895:902		No text annotation
IL_4V85_1031/BA/994:996,
1/BA/1159:1160		Single bulged C
homologous
IL_7RQB_035
NA
IL_4V85_1041/BA/998:1002,
1/BA/1153:1157		UAA/GAN
homologous
IL_5J7L_277
IL_38507.2
IL_4V85_1051/BA/1004:1011,
1/BA/1150:1151		SSU/LSU pseudoknot
homologous
IL_4WF9_037
IL_41203.4
IL_4V85_1061/BA/1011:1013,
1/BA/1149:1150		Single bulged U
geometric
IL_5J7L_279
IL_89505.4
IL_4V85_1071/BA/1018:1024,
1/BA/1140:1144		Kink-turn related
geometric
IL_5J7L_280
IL_57188.5
IL_4V85_1081/BA/1024:1030,
1/BA/1124:1140		No text annotation
geometric
IL_5J7L_281
IL_50715.3
IL_4V85_1091/BA/1031:1034,
1/BA/1121:1123		Isolated non-canonical cWW pair
homologous
IL_7RQB_041
NA
IL_4V85_1101/BA/1038:1041,
1/BA/1114:1117		Tandem non-canonical cWW pairs
homologous
IL_5J7L_283
IL_85033.2
IL_4V85_1111/BA/1043:1051,
1/BA/1108:1112		Kink-turn
homologous
IL_5J7L_284
IL_99692.2
IL_4V85_1121/BA/1059:1062,
1/BA/1076:1079		No text annotation
homologous
IL_6PRV_001
IL_92446.2
IL_4V85_1131/BA/1196:1198,
1/BA/1247:1250		Isolated cWS basepair
homologous
IL_5J7L_286
IL_42997.3
IL_4V85_1141/BA/1202:1206,
1/BA/1240:1243		No text annotation
homologous
IL_5J7L_287
IL_91920.1
IL_4V85_1151/BA/1208:1215,
1/BA/1234:1238		Kink-turn
homologous
IL_5J7L_288
IL_70923.9
IL_4V85_1161/BA/1262:1269,
1/BA/2011:2017		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_289
IL_04346.10
IL_4V85_1171/BA/1310:1313,
1/BA/1603:1604		Major groove platform; stack outside cWW
homologous
IL_7RQB_050
NA
IL_4V85_1181/BA/1319:1323,
1/BA/1331:1333		C-loop
homologous
IL_5J7L_291
IL_63596.11
IL_4V85_1191/BA/1351:1355,
1/BA/1376:1380		UAA/GAN
homologous
IL_5J7L_292
IL_89021.2
IL_4V85_1201/BA/1357:1361,
1/BA/1370:1374		tSH-tHW-tHS
homologous
IL_5J7L_293
IL_17136.7
IL_4V85_1211/BA/1415:1416,
1/BA/1582:1587		No text annotation
homologous
IL_5J7L_294
IL_87211.1
IL_4V85_1221/BA/1417:1421,
1/BA/1577:1581		UAA/GAN
homologous
IL_5J7L_295
IL_38507.2
IL_4V85_1231/BA/1432:1435,
1/BA/1557:1561		Tandem non-canonical cWW pairs
homologous
IL_5J7L_296
IL_58112.2
IL_4V85_1241/BA/1437:1440,
1/BA/1551:1555		tSH-tHW
homologous
IL_5J7L_297
IL_99646.2
IL_4V85_1251/BA/1450:1451,
1/BA/1459:1461		Single bulged U
geometric
IL_5J7L_298
IL_89505.4
IL_4V85_1261/BA/1468:1471,
1/BA/1520:1524		No text annotation
homologous
IL_5J7L_299
IL_68574.4
IL_4V85_1271/BA/1474:1478,
1/BA/1513:1517		tSH-tHW-tHS
homologous
IL_5J7L_300
IL_38862.4
IL_4V85_1291/BA/1489:1491,
1/BA/1499:1500		Single bulged A
homologous
IL_5J7L_302
IL_31462.7
IL_4V85_1301/BA/1526:1529,
1/BA/1542:1546		UAA/GAN variation
homologous
IL_5J7L_303
IL_23774.1
IL_4V85_1311/BA/1651:1656,
1/BA/2004:2006		No text annotation
homologous
IL_5J7L_304
IL_12566.4
IL_4V85_1321/BA/1663:1665,
1/BA/1995:1997		Isolated tWW turn
homologous
IL_5J7L_305
IL_67095.2
IL_4V85_1331/BA/1666:1669,
1/BA/1993:1994		Major groove platform; stack outside cWW
geometric
IL_7RQB_066
NA
IL_4V85_1971/BA/1666:1674,
1/BA/1990:1994		No text annotation
homologous
IL_5J7L_386
IL_22854.4
IL_4V85_1341/BA/1669:1674,
1/BA/1990:1993		Intercalated tWH
homologous
IL_5J7L_307
IL_76758.2
IL_4V85_1351/BA/1686:1691,
1/BA/1696:1702		tSH-tSH-tHH-tHS
geometric
IL_5J7L_308
IL_47346.2
IL_4V85_1361/BA/1712:1718,
1/BA/1742:1746		6x5 Sarcin-Ricin; G-bulge
homologous
IL_5J7L_309
IL_88269.4
IL_4V85_1371/BA/1720:1724,
1/BA/1736:1740		Triple sheared
homologous
IL_5J7L_310
IL_50730.2
IL_4V85_1391/BA/1770:1771,
1/BA/1980:1982		Single bulged A
homologous
IL_5J7L_312
IL_31462.7
IL_4V85_1401/BA/1798:1804,
1/BA/1813:1821		Kink-turn related
homologous
IL_5J7L_313
IL_17069.5
IL_4V85_1411/BA/1837:1840,
1/BA/1902:1903		Minor groove platform, major groove intercalation
homologous
IL_5J7L_314
IL_95583.2
IL_4V85_1421/BA/1841:1842,
1/BA/1898:1901		Major groove intercalation
homologous
IL_5J7L_315
IL_82107.5
IL_4V85_1431/BA/1846:1849,
1/BA/1893:1894		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_316
IL_68140.4
IL_4V85_1981/BA/1851:1860,
1/BA/1882:1891		No text annotation
homologous
IL_5J7L_387
IL_61249.1
IL_4V85_1441/BA/1864:1867,
1/BA/1874:1878		UAA/GAN related
homologous
IL_5J7L_317
IL_77691.5
IL_4V85_1451/BA/1933:1934,
1/BA/1964:1967		Bulged stacked bases
homologous
IL_7RQB_076
NA
IL_4V85_1461/BA/1934:1945,
1/BA/1961:1964		No text annotation
geometric
IL_4V9F_071
IL_04332.3
IL_4V85_1471/BA/2050:2052,
1/BA/2617:2618		Major groove platform
homologous
IL_5J7L_320
IL_48076.6
IL_4V85_1481/BA/2054:2056,
1/BA/2612:2615		No text annotation
homologous
IL_5J7L_321
IL_83389.2
IL_4V85_1491/BA/2067:2069,
1/BA/2442:2443		Single bulged U
homologous
IL_7A0S_075
IL_89505.4
IL_4V85_1501/BA/2070:2071,
1/BA/2438:2441		Minor groove platform
homologous
IL_7RQB_081
NA
IL_4V85_1511/BA/2081:2083,
1/BA/2236:2239		Isolated tHS basepair with bulges
homologous
IL_5J7L_325
IL_85599.2
IL_4V85_1521/BA/2085:2087,
1/BA/2232:2234		Isolated non-canonical cWW pair
homologous
IL_5J7L_326
IL_28037.2
IL_4V85_1561/BA/2202:2204,
1/BA/2220:2221		Single bulged U
homologous
IL_5J7L_331
IL_89505.4
IL_4V85_1571/BA/2350:2353,
1/BA/2364:2367		Double sheared
homologous
IL_5J7L_333
IL_09705.15
IL_4V85_1581/BA/2401:2403,
1/BA/2414:2415		Single bulged U
geometric
IL_5LYS_008
IL_89505.4
IL_4V85_1591/BA/2453:2454,
1/BA/2498:2500		Single stack bend
homologous
IL_4WF9_089
IL_26793.1
IL_4V85_1601/BA/2454:2455,
1/BA/2496:2498		Major groove platform
geometric
IL_7RQB_092
NA
IL_4V85_1611/BA/2457:2459,
1/BA/2493:2494		Major groove platform
geometric
IL_4WF9_091
IL_48076.6
IL_4V85_1621/BA/2459:2461,
1/BA/2489:2493		Major groove minor groove platform with extra cWW
homologous
IL_7A0S_086
IL_51387.3
IL_4V85_1631/BA/2466:2470,
1/BA/2480:2484		Double sheared with non-canonical cWW
homologous
IL_5J7L_338
IL_17948.2
IL_4V85_1641/BA/2507:2508,
1/BA/2580:2582		Major groove platform
homologous
IL_7RQB_096
NA
IL_4V85_1651/BA/2510:2512,
1/BA/2574:2578		Isolated non-canonical cWW with bulges
geometric
IL_5J7L_340
IL_07785.1
IL_4V85_1661/BA/2512:2513,
1/BA/2571:2574		No text annotation
homologous
IL_5J7L_341
IL_42626.2
IL_4V85_1671/BA/2522:2523,
1/BA/2540:2543		Major groove platform with intercalation
homologous
IL_5J7L_342
IL_02555.1
IL_4V85_1681/BA/2591:2592,
1/BA/2601:2603		Single bulged A
homologous
IL_5J7L_344
IL_31462.7
IL_4V85_1691/BA/2636:2640,
1/BA/2774:2782		tSH-tHS-tHW
homologous
IL_5J7L_345
IL_04638.3
IL_4V85_1701/BA/2652:2658,
1/BA/2663:2668		Sarcin-Ricin target in LSU H95; G-bulge
geometric
IL_5J7L_346
IL_16458.4
IL_4V85_1711/BA/2680:2684,
1/BA/2725:2727		C-loop
homologous
IL_5J7L_347
IL_63596.11
IL_4V85_1721/BA/2687:2691,
1/BA/2718:2722		UAA/GAN related, with intercalation
homologous
IL_5J7L_348
IL_23774.1
IL_4V85_1731/BA/2695:2696,
1/BA/2711:2714		Multiple bulged bases
homologous
IL_5J7L_349
IL_42626.2
IL_4V85_1741/BA/2737:2742,
1/BA/2762:2767		UAA/GAN with extra cWW
homologous
IL_5J7L_350
IL_49767.8
IL_4V85_2071/BA/2795:2796,
1/BA/2799:2801		Single bulged A
geometric
IL_8C3A_031
NA
IL_4V85_1751/BA/2806:2811,
1/BA/2889:2892		No text annotation
homologous
IL_5J7L_351
IL_29471.1
IL_4V85_1761/BA/2838:2839,
1/BA/2878:2880		Major groove intercalation
homologous
IL_5J7L_352
IL_66635.5
IL_4V85_1771/BA/2843:2846,
1/BA/2870:2874		Multiple bulged bases with non-canonical cWW
homologous
IL_5J7L_353
IL_64231.5
IL_4V85_1781/BA/2847:2852,
1/BA/2865:2869		tHS double platform
homologous
IL_5J7L_354
IL_70411.2
IL_4V85_1791/BB/17:18,
1/BB/65:67		Major groove intercalation
homologous
IL_7RQB_111
NA
IL_4V85_1801/BB/23:28,
1/BB/56:60		No text annotation
homologous
IL_5J7L_356
IL_18472.4
IL_4V85_2081/BB/30:31,
1/BB/51:54		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_357
IL_68140.4
IL_4V85_1821/BB/34:38,
1/BB/44:48		Symmetric double minor groove platform
homologous
IL_5J7L_358
IL_58103.11
IL_4V85_1831/BB/71:79,
1/BB/97:105		Bacterial 5S Loop E
homologous
IL_5J7L_359
IL_56455.6

Problematic loops

#loop idProblemSequence
IL_4V85_009No text annotation
IL_4V85_010No text annotation
IL_4V85_013Isolated non-canonical cWW pair
IL_4V85_027No text annotation
IL_4V85_186No text annotation
IL_4V85_0348-nt loop receptor
IL_4V85_187No text annotation
IL_4V85_040No text annotation
IL_4V85_188No text annotation
IL_4V85_189No text annotation
IL_4V85_190No text annotation
IL_4V85_047Single stack bend
IL_4V85_053Tandem non-canonical cWW pairs
IL_4V85_191No text annotation
IL_4V85_055No text annotation
IL_4V85_061Isolated non-canonical cWW pair
IL_4V85_075No text annotation
IL_4V85_193No text annotation
IL_4V85_102No text annotation
IL_4V85_194No text annotation
IL_4V85_195No text annotation
IL_4V85_128180 degree turn
IL_4V85_196Isolated non-canonical cWW pair
IL_4V85_138Single bulged C
IL_4V85_153Isolated non-canonical cWW pair
IL_4V85_206No text annotation
IL_4V85_154No text annotation
IL_4V85_155No text annotation
IL_4V85_199Isolated non-canonical cWW pair
IL_4V85_200No text annotation
IL_4V85_181No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4V85_0201/AA/46:47,
1/AA/361:367,
1/AA/393:395		No text annotation
geometric
J3_8C3A_082
NA
J3_4V85_0211/AA/46:52,
1/AA/359:367,
1/AA/393:395		No text annotation
geometric
J3_5J7L_050
J3_46317.4
J3_4V85_0221/AA/586:588,
1/AA/651:654,
1/AA/754:755		No text annotation
geometric
J3_5J7L_002
J3_56052.5
J3_4V85_0231/AA/586:588,
1/AA/651:655,
1/AA/751:755		No text annotation
geometric
J3_5J7L_051
J3_17385.4
J3_4V85_0241/AA/672:677,
1/AA/713:725,
1/AA/732:734		No text annotation
J3_4V85_0011/AA/826:829,
1/AA/857:861,
1/AA/868:874		No text annotation
geometric
J3_5J7L_004
J3_85054.4
J3_4V85_0021/AA/936:939,
1/AA/1344:1350,
1/AA/1372:1379		No text annotation
geometric
J3_4LFB_002
J3_25303.4
J3_4V85_0031/AA/943:946,
1/AA/1235:1237,
1/AA/1337:1340		No text annotation
geometric
J3_5J7L_005
J3_52655.4
J3_4V85_0041/AA/954:962,
1/AA/973:984,
1/AA/1221:1226		No text annotation
J3_4V85_0051/AA/990:997,
1/AA/1044:1047,
1/AA/1210:1215		No text annotation
geometric
J3_5J7L_053
J3_76475.2
J3_4V85_0071/AA/1063:1068,
1/AA/1107:1113,
1/AA/1187:1193		No text annotation
geometric
J3_5J7L_008
J3_08394.3
J3_4V85_0271/AA/1073:1074,
1/AA/1083:1087,
1/AA/1098:1102		No text annotation
geometric
J3_5J7L_009
J3_76043.3
J3_4V85_0081/AA/1116:1118,
1/AA/1155:1158,
1/AA/1181:1184		No text annotation
geometric
J3_5J7L_010
J3_82365.4
J3_4V85_0281/AA/1116:1118,
1/AA/1155:1161,
1/AA/1175:1184		No text annotation
geometric
J3_5J7L_054
J3_17791.2
J3_4V85_0091/AA/1237:1241,
1/AA/1296:1303,
1/AA/1334:1337		No text annotation
geometric
J3_5J7L_011
J3_37047.6
J3_4V85_0291/BA/30:31,
1/BA/474:481,
1/BA/509:510		No text annotation
geometric
J3_8VTW_036
NA
J3_4V85_0301/BA/30:31,
1/BA/474:484,
1/BA/496:510		No text annotation
homologous
J3_5J7L_066
J3_92134.2
J3_4V85_0311/BA/32:35,
1/BA/445:461,
1/BA/468:473		No text annotation
homologous
J3_5J7L_067
J3_30040.2
J3_4V85_0321/BA/56:57,
1/BA/70:76,
1/BA/110:114		No text annotation
homologous
J3_5J7L_037
J3_35667.2
J3_4V85_0331/BA/297:301,
1/BA/316:325,
1/BA/337:341		No text annotation
homologous
J3_5J7L_068
J3_46299.2
J3_4V85_0101/BA/683:689,
1/BA/773:775,
1/BA/791:794		No text annotation
homologous
J3_5J7L_038
J3_64189.2
J3_4V85_0111/BA/698:700,
1/BA/732:736,
1/BA/760:763		No text annotation
homologous
J3_5J7L_039
J3_44724.7
J3_4V85_0121/BA/1055:1057,
1/BA/1081:1090,
1/BA/1101:1104		No text annotation
J3_4V85_0131/BA/1298:1303,
1/BA/1625:1627,
1/BA/1639:1642		No text annotation
homologous
J3_5J7L_041
J3_32852.6
J3_4V85_0141/BA/1306:1309,
1/BA/1605:1611,
1/BA/1620:1622		No text annotation
homologous
J3_5J7L_042
J3_19545.2
J3_4V85_0351/BA/1344:1349,
1/BA/1382:1385,
1/BA/1402:1403		No text annotation
homologous
J3_5J7L_043
J3_92705.1
J3_4V85_0361/BA/1424:1429,
1/BA/1564:1565,
1/BA/1568:1574		No text annotation
homologous
J3_5J7L_069
J3_34864.2
J3_4V85_0151/BA/2091:2093,
1/BA/2196:2200,
1/BA/2223:2228		Kink-turn 3-way junction
homologous
J3_5J7L_044
J3_89368.5
J3_4V85_0371/BA/2282:2284,
1/BA/2384:2395,
1/BA/2421:2427		No text annotation
homologous
J3_5J7L_070
J3_20992.1
J3_4V85_0161/BA/2295:2299,
1/BA/2317:2323,
1/BA/2332:2337		No text annotation
homologous
J3_5J7L_071
J3_44961.1
J3_4V85_0171/BA/2517:2520,
1/BA/2545:2547,
1/BA/2561:2567		No text annotation
homologous
J3_5J7L_046
J3_32601.5
J3_4V85_0381/BA/2789:2791,
1/BA/2805:2806,
1/BA/2892:2894		No text annotation
homologous
J3_5J7L_047
J3_30104.1
J3_4V85_0181/BA/2812:2815,
1/BA/2831:2836,
1/BA/2882:2888		No text annotation
homologous
J3_5J7L_048
J3_64069.1
J3_4V85_0191/BB/10:16,
1/BB/68:70,
1/BB/106:110		No text annotation
homologous
J3_7A0S_014
NA
J4_4V85_0011/AA/115:122,
1/AA/239:240,
1/AA/286:289,
1/AA/311:312		No text annotation
J4_4V85_0151/AA/142:144,
1/AA/178:184,
1/AA/193:198,
1/AA/219:221		No text annotation
J4_4V85_0031/AA/575:577,
1/AA/764:769,
1/AA/810:821,
1/AA/879:880		No text annotation
J4_4V85_0041/BA/268:269,
1/BA/370:375,
1/BA/399:406,
1/BA/421:424		No text annotation
homologous
J4_5J7L_018
J4_45801.6
J4_4V85_0051/BA/297:301,
1/BA/316:319,
1/BA/323:325,
1/BA/337:341		No text annotation
homologous
J4_5J7L_019
J4_71729.5
J4_4V85_0061/BA/601:604,
1/BA/624:628,
1/BA/635:638,
1/BA/650:656		No text annotation
homologous
J4_5J7L_020
J4_60168.1
J4_4V85_0071/BA/1270:1276,
1/BA/1294:1295,
1/BA/1645:1648,
1/BA/2009:2010		No text annotation
homologous
J4_5J7L_021
J4_64571.5
J4_4V85_0081/BA/1310:1314,
1/BA/1338:1343,
1/BA/1404:1405,
1/BA/1597:1604		No text annotation
homologous
J4_5J7L_022
J4_69051.6
J4_4V85_0091/BA/1313:1314,
1/BA/1338:1343,
1/BA/1404:1405,
1/BA/1597:1603		No text annotation
homologous
J4_5J7L_023
J4_10313.5
J4_4V85_0101/BA/1444:1445,
1/BA/1466:1467,
1/BA/1525:1526,
1/BA/1546:1547		No text annotation
homologous
J4_5J7L_024
J4_24280.2
J4_4V85_0111/BA/1772:1776,
1/BA/1788:1792,
1/BA/1827:1830,
1/BA/1975:1979		No text annotation
homologous
J4_5J7L_025
J4_61477.5
J4_4V85_0121/BA/1833:1835,
1/BA/1905:1906,
1/BA/1924:1933,
1/BA/1967:1972		No text annotation
homologous
J4_5J7L_026
J4_93343.1
J4_4V85_0131/BA/2285:2289,
1/BA/2343:2347,
1/BA/2370:2372,
1/BA/2381:2383		No text annotation
homologous
J4_9DFE_009
J4_04930.6
J4_4V85_0141/BA/2643:2646,
1/BA/2674:2676,
1/BA/2731:2735,
1/BA/2769:2771		No text annotation
homologous
J4_5J7L_028
J4_77044.4
J5_4V85_0011/AA/36:39,
1/AA/403:406,
1/AA/436:440,
1/AA/497:500,
1/AA/545:548		No text annotation
J5_4V85_0021/AA/36:39,
1/AA/403:406,
1/AA/436:442,
1/AA/492:500,
1/AA/545:548		No text annotation
J5_4V85_0031/AA/58:61,
1/AA/106:113,
1/AA/314:316,
1/AA/337:339,
1/AA/350:354		No text annotation
J5_4V85_0041/BA/47:54,
1/BA/116:121,
1/BA/130:131,
1/BA/148:150,
1/BA/176:178		No text annotation
homologous
J5_5J7L_013
J5_01737.2
J5_4V85_0051/BA/531:533,
1/BA/560:564,
1/BA/577:579,
1/BA/1261:1262,
1/BA/2017:2018		No text annotation
homologous
J5_5J7L_014
J5_43153.5
J5_4V85_0061/BA/584:589,
1/BA/668:671,
1/BA/809:812,
1/BA/1195:1196,
1/BA/1250:1256		No text annotation
homologous
J5_5J7L_015
J5_74302.5
J5_4V85_0071/BA/1674:1682,
1/BA/1706:1707,
1/BA/1751:1752,
1/BA/1756:1764,
1/BA/1988:1990		No text annotation
homologous
J5_5J7L_016
J5_62523.6
J5_4V85_0101/BA/2057:2064,
1/BA/2446:2453,
1/BA/2500:2506,
1/BA/2583:2588,
1/BA/2606:2611		No text annotation
J5_4V85_0091/BA/2074:2077,
1/BA/2243:2246,
1/BA/2258:2259,
1/BA/2281:2282,
1/BA/2427:2435		No text annotation
homologous
J5_4WF9_007
J5_39529.1
J6_4V85_0011/BA/45:46,
1/BA/179:183,
1/BA/214:224,
1/BA/231:235,
1/BA/262:266,
1/BA/426:433		No text annotation
J6_4V85_0021/BA/2074:2077,
1/BA/2243:2246,
1/BA/2258:2259,
1/BA/2281:2284,
1/BA/2384:2395,
1/BA/2421:2435		No text annotation
J7_4V85_0011/BA/8:15,
1/BA/525:531,
1/BA/2018:2023,
1/BA/2040:2043,
1/BA/2625:2630,
1/BA/2788:2789,
1/BA/2894:2895		No text annotation
J7_4V85_0021/BA/817:822,
1/BA/835:837,
1/BA/942:946,
1/BA/971:976,
1/BA/987:991,
1/BA/1163:1164,
1/BA/1185:1190		No text annotation

Problematic loops

#loop idProblemSequence
J3_4V85_025No text annotation
J3_4V85_006No text annotation
J3_4V85_026No text annotation
J3_4V85_039No text annotation
J3_4V85_034No text annotation
J4_4V85_002No text annotation
J5_4V85_008No text annotation

Coloring options:
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