RNA 3D Hub //

6ZJ3 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6ZJ3_1231/LA/45:55Pseudoknot with intercalation
homologous
HL_8C3A_229
NA
HL_6ZJ3_0021/LA/114:120No text annotation
homologous
HL_5TBW_075
NA
HL_6ZJ3_0041/LB/198:205No text annotation
geometric
HL_7A0S_006
HL_48677.1
HL_6ZJ3_0051/LB/228:235No text annotation
HL_6ZJ3_0061/LB/250:256No text annotation
homologous
HL_8C3A_003
NA
HL_6ZJ3_0071/LB/272:276No text annotation
geometric
HL_4V9F_003
HL_75660.7
HL_6ZJ3_0081/LC/301:309No text annotation
HL_6ZJ3_0091/LC/386:393T-loop with 2 stacked bulged bases
homologous
HL_8C3A_005
NA
HL_6ZJ3_0101/LC/401:405No text annotation
homologous
HL_5TBW_006
NA
HL_6ZJ3_0111/LC/409:417T-loop with unstacked turn
geometric
HL_7A0S_012
HL_27670.4
HL_6ZJ3_1241/LC/483:492No text annotation
homologous
HL_8C3A_008
NA
HL_6ZJ3_0131/LC/508:517Pseudoknot geometry
homologous
HL_8C3A_009
NA
HL_6ZJ3_1251/LC/562:567GNRA
homologous
HL_8C3A_010
NA
HL_6ZJ3_0151/LC/586:593GNRA with extra cWW
geometric
HL_7A0S_056
HL_87268.2
HL_6ZJ3_0161/LD/696:701No text annotation
geometric
HL_7RQB_007
NA
HL_6ZJ3_1261/LE/926:935T-loop with 2 stacked bulged bases
homologous
HL_8C3A_014
NA
HL_6ZJ3_0191/LE/1001:1006GNRA
homologous
HL_8C3A_016
NA
HL_6ZJ3_0201/LE/1026:1033tRNA D-loop
geometric
HL_1FIR_001
NA
HL_6ZJ3_0211/LE/1062:1066No text annotation
geometric
HL_4WF9_011
HL_75660.7
HL_6ZJ3_0221/LE/1143:1148GNRA
homologous
HL_5TBW_019
NA
HL_6ZJ3_1271/LE/1175:1184No text annotation
homologous
HL_8C3A_020
NA
HL_6ZJ3_1281/LE/1211:1217No text annotation
geometric
HL_8VTW_023
NA
HL_6ZJ3_0251/LE/1258:1263Externally structured
homologous
HL_8C3A_022
NA
HL_6ZJ3_0261/LE/1427:1434No text annotation
HL_6ZJ3_0271/LF/1495:1501GNRA
homologous
HL_8C3A_025
NA
HL_6ZJ3_0281/LF/1517:1524No text annotation
homologous
HL_5TBW_026
NA
HL_6ZJ3_0301/LF/1725:1741No text annotation
HL_6ZJ3_0311/LF/1787:1792GNRA
homologous
HL_5TBW_030
NA
HL_6ZJ3_0341/LF/1958:1966GNRA wlth tandem sheared
geometric
HL_4WF9_004
HL_98423.3
HL_6ZJ3_0351/LG/2017:2027No text annotation
HL_6ZJ3_0361/LG/2062:2067GNRA
geometric
HL_5TBW_036
NA
HL_6ZJ3_1291/LG/2117:2125No text annotation
geometric
HL_8C3A_037
NA
HL_6ZJ3_0381/LG/2164:2170Other HL
geometric
HL_4V9F_039
HL_67772.1
HL_6ZJ3_0401/LH/2243:2247No text annotation
homologous
HL_8C3A_040
NA
HL_6ZJ3_0411/LH/2301:2308No text annotation
homologous
HL_8C3A_041
NA
HL_6ZJ3_0421/LH/2319:2325GNRA
homologous
HL_8C3A_042
NA
HL_6ZJ3_0431/LH/2381:2386UNCG
homologous
HL_8C3A_043
NA
HL_6ZJ3_1301/LH/2598:2602No text annotation
homologous
HL_8C3A_045
NA
HL_6ZJ3_1311/LH/2623:2633No text annotation
homologous
HL_8P9A_157
HL_87681.1
HL_6ZJ3_0461/LH/2652:2658GNRA
homologous
HL_5TBW_047
NA
HL_6ZJ3_1321/LH/2708:2713GNRA
homologous
HL_8P9A_159
HL_34789.3
HL_6ZJ3_0481/LH/2741:2751No text annotation
homologous
HL_5TBW_049
NA
HL_6ZJ3_0491/LH/2780:2788No text annotation
homologous
HL_8C3A_050
NA
HL_6ZJ3_0501/LH/2857:2866No text annotation
homologous
HL_8C3A_051
NA
HL_6ZJ3_1331/LI/3136:3146No text annotation
HL_6ZJ3_0521/LI/3137:3144No text annotation
HL_6ZJ3_0531/LI/3188:3196No text annotation
geometric
HL_4V9F_055
HL_11974.2
HL_6ZJ3_0541/LI/3205:3217No text annotation
HL_6ZJ3_0551/LI/3246:3254No text annotation
homologous
HL_8C3A_057
NA
HL_6ZJ3_0561/LI/3266:3273Pseudoknot geometry
homologous
HL_5TBW_057
NA
HL_6ZJ3_0571/LI/3299:3307No text annotation
homologous
HL_8C3A_059
NA
HL_6ZJ3_0581/LI/3318:3325GNRA with extra cWW
geometric
HL_7A0S_056
HL_87268.2
HL_6ZJ3_0591/LI/3361:3370Pseudoknot geometry
geometric
HL_5TBW_060
NA
HL_6ZJ3_1341/LI/3426:3434No text annotation
homologous
HL_8C3A_062
NA
HL_6ZJ3_0611/LI/3484:3491No text annotation
geometric
HL_5TBW_062
NA
HL_6ZJ3_0621/LI/3507:3513No text annotation
homologous
HL_5TBW_063
NA
HL_6ZJ3_0631/LI/3550:3555GNRA
homologous
HL_5TBW_064
NA
HL_6ZJ3_0641/LJ/3615:3620GNRA
homologous
HL_8C3A_066
NA
HL_6ZJ3_0651/LJ/3658:3663Ribsomal LSU H95
homologous
HL_8C3A_067
NA
HL_6ZJ3_0661/LJ/3700:3715No text annotation
geometric
HL_5J7L_199
NA
HL_6ZJ3_0681/LL/3831:3838No text annotation
geometric
HL_2Y9H_003
HL_75660.7
HL_6ZJ3_0701/LM/3921:3929No text annotation
geometric
HL_7RQB_068
NA
HL_6ZJ3_1351/LO/32:45No text annotation
homologous
HL_4WF9_070
HL_97756.3
HL_6ZJ3_0711/LO/36:41No text annotation
homologous
HL_5TBW_185
NA
HL_6ZJ3_0721/LO/86:91GNRA
homologous
HL_5TBW_186
NA
HL_6ZJ3_0731/S1/7:17No text annotation
homologous
HL_4V88_186
NA
HL_6ZJ3_0741/S1/70:80No text annotation
geometric
HL_361D_002
NA
HL_6ZJ3_0751/S1/140:149No text annotation
HL_6ZJ3_1361/S1/170:176GNRA related
homologous
HL_8C3A_194
NA
HL_6ZJ3_0781/S1/296:301GNRA
geometric
HL_3P22_001
HL_34789.3
HL_6ZJ3_0791/S1/319:326T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_6ZJ3_0811/S1/427:435GNRA related
homologous
HL_4V88_193
NA
HL_6ZJ3_1371/S1/465:470No text annotation
homologous
HL_8P9A_198
HL_93535.2
HL_6ZJ3_0831/S1/490:501No text annotation
homologous
HL_4V88_195
NA
HL_6ZJ3_0841/S1/511:516UNCG
homologous
HL_4V88_196
NA
HL_6ZJ3_0851/S1/547:557No text annotation
homologous
HL_4V88_197
NA
HL_6ZJ3_0871/S1/623:636No text annotation
homologous
HL_4V88_199
NA
HL_6ZJ3_0881/S1/673:678GNRA variation
homologous
HL_4V88_200
NA
HL_6ZJ3_0901/S1/937:945No text annotation
HL_6ZJ3_0921/S1/1044:1052No text annotation
homologous
HL_4V88_203
NA
HL_6ZJ3_0931/S1/1057:1065No text annotation
homologous
HL_4V88_204
NA
HL_6ZJ3_0941/S1/1111:1135No text annotation
HL_6ZJ3_0961/S1/1297:1306No text annotation
homologous
HL_4V88_206
NA
HL_6ZJ3_0971/S1/1334:1339GNRA
homologous
HL_4V88_207
NA
HL_6ZJ3_0981/S1/1394:1404No text annotation
homologous
HL_4V88_208
NA
HL_6ZJ3_0991/S1/1451:1465No text annotation
HL_6ZJ3_1001/S1/1493:1498GNRA
homologous
HL_4V88_210
NA
HL_6ZJ3_1381/S1/1531:1536GNRA
homologous
HL_8C3A_216
NA
HL_6ZJ3_1021/S1/1598:1607No text annotation
homologous
HL_8C3A_217
NA
HL_6ZJ3_1031/S1/1648:1657Anticodon loop related
homologous
HL_4V88_213
NA
HL_6ZJ3_1391/S1/1706:1711GNRA
homologous
HL_8P9A_217
HL_34789.3
HL_6ZJ3_1051/S1/1719:1726No text annotation
homologous
HL_4V88_215
NA
HL_6ZJ3_1071/S1/1878:1887UNCG variation
geometric
HL_1P6V_001
NA
HL_6ZJ3_1091/S1/2004:2009GNRA
homologous
HL_4V88_218
NA
HL_6ZJ3_1101/S1/2053:2064No text annotation
homologous
HL_4V88_219
NA
HL_6ZJ3_1111/S1/2097:2105No text annotation
homologous
HL_4V88_220
NA
HL_6ZJ3_1131/S1/2284:2289GNRA variation
homologous
HL_4V88_222
NA
HL_6ZJ3_1151/S2/31:39tRNA anticodon loop
homologous
HL_6GSK_203
HL_81376.3
HL_6ZJ3_1171/S3/13:22No text annotation
homologous
HL_6PMO_003
NA
HL_6ZJ3_1181/S3/31:39tRNA anticodon loop
homologous
HL_4TUE_034
NA
HL_6ZJ3_1191/S3/52:61T-loop with 2 stacked bulged bases
homologous
HL_5UD5_003
HL_33597.3
HL_6ZJ3_1211/S4/31:39tRNA anticodon loop
homologous
HL_3TUP_002
HL_81376.3

Problematic loops

#loop idProblemSequence
HL_6ZJ3_001No text annotation
HL_6ZJ3_003No text annotation
HL_6ZJ3_012No text annotation
HL_6ZJ3_014tRNA D-loop
HL_6ZJ3_017No text annotation
HL_6ZJ3_018No text annotation
HL_6ZJ3_023No text annotation
HL_6ZJ3_024No text annotation
HL_6ZJ3_029Externally structured
HL_6ZJ3_032No text annotation
HL_6ZJ3_033No text annotation
HL_6ZJ3_037No text annotation
HL_6ZJ3_039No text annotation
HL_6ZJ3_044No text annotation
HL_6ZJ3_045No text annotation
HL_6ZJ3_047No text annotation
HL_6ZJ3_051No text annotation
HL_6ZJ3_060No text annotation
HL_6ZJ3_067No text annotation
HL_6ZJ3_069No text annotation
HL_6ZJ3_076No text annotation
HL_6ZJ3_077No text annotation
HL_6ZJ3_080No text annotation
HL_6ZJ3_082No text annotation
HL_6ZJ3_086No text annotation
HL_6ZJ3_089Externally structured
HL_6ZJ3_091Externally structured
HL_6ZJ3_095No text annotation
HL_6ZJ3_101GNRA with extra cWW
HL_6ZJ3_104No text annotation
HL_6ZJ3_106No text annotation
HL_6ZJ3_108No text annotation
HL_6ZJ3_112No text annotation
HL_6ZJ3_114No text annotation
HL_6ZJ3_116No text annotation
HL_6ZJ3_140No text annotation
HL_6ZJ3_120No text annotation
HL_6ZJ3_122No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6ZJ3_0011/LA/12:17,
1/LC/608:613		No text annotation
geometric
IL_4LFB_055
IL_57885.2
IL_6ZJ3_0021/LA/23:24,
1/LC/542:544		Single bulged A
homologous
IL_5TBW_013
NA
IL_6ZJ3_2981/LA/43:45,
1/LA/55:57		Isolated non-canonical cWW pair
geometric
IL_7ECO_005
IL_01003.3
IL_6ZJ3_0071/LA/125:128,
1/LA/140:143		Double sheared
geometric
IL_1SAQ_002
NA
IL_6ZJ3_0081/LA/147:149,
1/LB/178:180		Isolated non-canonical cWW pair
geometric
IL_4Y1M_005
IL_71625.2
IL_6ZJ3_0091/LA/158:160,
1/LB/168:169		Single bulged C
homologous
IL_5TBW_002
NA
IL_6ZJ3_0101/LB/187:188,
1/LB/216:218		No text annotation
homologous
IL_8C3A_004
NA
IL_6ZJ3_0121/LB/191:198,
1/LB/205:213		No text annotation
homologous
IL_8C3A_005
NA
IL_6ZJ3_0131/LB/242:249,
1/LB/257:263		No text annotation
homologous
IL_8C3A_006
NA
IL_6ZJ3_2991/LB/284:291,
1/LC/320:333		No text annotation
IL_6ZJ3_0141/LB/293:295,
1/LC/316:318		Isolated non-canonical cWW pair
geometric
IL_5TBW_103
NA
IL_6ZJ3_0151/LC/297:299,
1/LC/311:314		Isolated non-canonical cWW pair
geometric
IL_4V88_426
NA
IL_6ZJ3_0161/LC/342:343,
1/LC/465:467		No text annotation
IL_6ZJ3_0181/LC/362:366,
1/LC/443:446		No text annotation
IL_6ZJ3_0191/LC/374:376,
1/LC/423:435		No text annotation
IL_6ZJ3_3001/LC/480:482,
1/LC/493:495		Isolated cWH basepair
geometric
IL_8AF0_002
IL_10892.2
IL_6ZJ3_0211/LC/581:584,
1/LC/595:607		No text annotation
homologous
IL_8C3A_015
NA
IL_6ZJ3_0231/LC/630:633,
1/LE/917:920		Tandem non-canonical cWW pairs
geometric
IL_1JID_002
IL_15225.2
IL_6ZJ3_0241/LC/633:635,
1/LE/915:917		Isolated non-canonical cWW pair
geometric
IL_4LFB_061
NA
IL_6ZJ3_0261/LD/667:669,
1/LD/743:751		No text annotation
geometric
IL_8C3A_151
NA
IL_6ZJ3_0271/LD/670:671,
1/LD/731:742		No text annotation
IL_6ZJ3_0291/LD/678:680,
1/LD/721:722		No text annotation
IL_6ZJ3_0301/LD/684:686,
1/LD/716:717		Single stack bend
geometric
IL_5TBW_070
NA
IL_6ZJ3_0311/LD/687:689,
1/LD/710:715		No text annotation
IL_6ZJ3_3011/LD/687:690,
1/LD/707:715		No text annotation
IL_6ZJ3_0321/LD/689:690,
1/LD/707:710		Multiple bulged bases
geometric
IL_3MXH_004
IL_71421.2
IL_6ZJ3_0331/LE/770:772,
1/LE/866:867		Single bulged U
geometric
IL_2PJP_001
IL_97561.3
IL_6ZJ3_0341/LE/791:792,
1/LE/849:851		Single bulged C
geometric
IL_4C7O_003
IL_05642.2
IL_6ZJ3_0361/LE/810:815,
1/LE/830:833		No text annotation
IL_6ZJ3_0391/LE/955:957,
1/LE/1090:1092		Isolated non-canonical cWW pair
geometric
IL_6OL3_002
IL_01003.3
IL_6ZJ3_0411/LE/1020:1024,
1/LE/1035:1040		Triple sheared related
geometric
IL_4V9F_018
IL_67427.1
IL_6ZJ3_3021/LE/1045:1047,
1/LE/1081:1082		Single bulged G
geometric
IL_8TSV_002
IL_28408.2
IL_6ZJ3_0431/LE/1048:1049,
1/LE/1078:1080		Single bulged A
homologous
IL_8C3A_026
NA
IL_6ZJ3_3031/LE/1051:1052,
1/LE/1074:1076		Single bulged U
homologous
IL_8C3A_027
NA
IL_6ZJ3_0441/LE/1055:1059,
1/LE/1069:1071		No text annotation
IL_6ZJ3_3041/LE/1102:1104,
1/LE/1238:1240		Isolated non-canonical cWW pair
homologous
IL_8C3A_029
NA
IL_6ZJ3_3051/LE/1104:1108,
1/LE/1231:1238		No text annotation
homologous
IL_8C3A_030
NA
IL_6ZJ3_3061/LE/1120:1122,
1/LE/1202:1204		Isolated non-canonical cWW pair
geometric
IL_1Z7F_002
NA
IL_6ZJ3_3071/LE/1125:1127,
1/LE/1197:1199		No text annotation
IL_6ZJ3_0481/LE/1127:1128,
1/LE/1195:1197		Single bulged A
homologous
IL_8C3A_031
NA
IL_6ZJ3_0491/LE/1132:1137,
1/LE/1154:1160		Quadruple sheared
geometric
IL_3FTF_001
IL_29495.1
IL_6ZJ3_3081/LE/1168:1171,
1/LE/1188:1190		No text annotation
homologous
IL_8P9A_259
IL_36931.2
IL_6ZJ3_3091/LE/1171:1172,
1/LE/1186:1188		No text annotation
IL_6ZJ3_3101/LE/1172:1174,
1/LE/1185:1186		Single bulged U
homologous
IL_8P9A_260
IL_97561.3
IL_6ZJ3_0511/LE/1207:1209,
1/LE/1219:1223		Multiple bulged bases
geometric
IL_5J7L_265
NA
IL_6ZJ3_0521/LE/1246:1247,
1/LF/1756:1758		Single bulged A
geometric
IL_1I9X_002
IL_14190.2
IL_6ZJ3_0531/LE/1254:1256,
1/LE/1265:1267		Isolated non-canonical cWW pair
homologous
IL_8C3A_037
NA
IL_6ZJ3_0541/LE/1269:1271,
1/LF/1479:1482		No text annotation
geometric
IL_4N0T_004
IL_32983.2
IL_6ZJ3_0561/LE/1303:1305,
1/LF/1468:1469		Single bulged G
homologous
IL_8C3A_040
NA
IL_6ZJ3_3111/LE/1312:1317,
1/LE/1376:1381		No text annotation
IL_6ZJ3_0581/LE/1317:1318,
1/LE/1374:1376		No text annotation
IL_6ZJ3_0591/LE/1319:1323,
1/LE/1370:1373		C-loop
geometric
IL_4V88_443
NA
IL_6ZJ3_3121/LE/1324:1326,
1/LE/1368:1369		No text annotation
IL_6ZJ3_0611/LE/1326:1328,
1/LE/1366:1368		No text annotation
geometric
IL_7RQB_083
NA
IL_6ZJ3_3131/LE/1329:1331,
1/LE/1363:1365		Isolated non-canonical cWW pair
homologous
IL_8C3A_045
NA
IL_6ZJ3_0641/LE/1404:1406,
1/LE/1453:1454		Single bulged U
geometric
IL_6JQ5_006
IL_97561.3
IL_6ZJ3_0651/LE/1406:1413,
1/LE/1450:1453		No text annotation
IL_6ZJ3_3141/LE/1406:1415,
1/LE/1448:1453		No text annotation
IL_6ZJ3_0661/LE/1413:1415,
1/LE/1448:1450		No text annotation
IL_6ZJ3_0671/LE/1417:1419,
1/LE/1443:1446		No text annotation
IL_6ZJ3_0681/LE/1422:1424,
1/LE/1437:1440		No text annotation
IL_6ZJ3_3151/LF/1489:1492,
1/LF/1504:1507		No text annotation
IL_6ZJ3_0711/LF/1536:1540,
1/LF/1706:1710		UAA/GAN
homologous
IL_8C3A_051
NA
IL_6ZJ3_0721/LF/1541:1551,
1/LF/1696:1705		No text annotation
IL_6ZJ3_0751/LF/1556:1566,
1/LF/1686:1691		No text annotation
geometric
IL_5TBW_051
NA
IL_6ZJ3_0761/LF/1566:1577,
1/LF/1671:1686		No text annotation
geometric
IL_5TBW_052
NA
IL_6ZJ3_0771/LF/1579:1581,
1/LF/1668:1669		Single bulged U
homologous
IL_5TBW_053
NA
IL_6ZJ3_3161/LF/1585:1587,
1/LF/1662:1664		Isolated non-canonical cWW pair
geometric
IL_4PDQ_004
IL_01003.3
IL_6ZJ3_0791/LF/1718:1720,
1/LF/1746:1748		Isolated non-canonical cWW pair
geometric
IL_3SZX_002
IL_01003.3
IL_6ZJ3_0801/LF/1761:1763,
1/LF/1813:1816		No text annotation
homologous
IL_8C3A_061
NA
IL_6ZJ3_0811/LF/1765:1767,
1/LF/1809:1811		Isolated non-canonical cWW pair
geometric
IL_6IA2_004
IL_01003.3
IL_6ZJ3_0821/LF/1770:1772,
1/LF/1805:1806		Single bulged A
homologous
IL_8C3A_062
NA
IL_6ZJ3_0831/LF/1773:1781,
1/LF/1798:1804		Kink-turn
geometric
IL_4LFB_031
IL_95727.1
IL_6ZJ3_3171/LF/1829:1835,
1/LH/2842:2847		No text annotation
homologous
IL_8C3A_065
NA
IL_6ZJ3_0851/LF/1844:1846,
1/LF/1885:1887		Isolated non-canonical cWW pair
geometric
IL_4V9F_017
IL_01003.3
IL_6ZJ3_3181/LF/1848:1855,
1/LF/1876:1883		No text annotation
IL_6ZJ3_3191/LF/1855:1858,
1/LF/1875:1876		Multiple bulged bases
geometric
IL_4V9F_088
IL_44609.2
IL_6ZJ3_0891/LF/1906:1909,
1/LH/2291:2292		Major groove platform; stack outside cWW
geometric
IL_7RQB_050
NA
IL_6ZJ3_0901/LF/1914:1920,
1/LF/1928:1931		No text annotation
homologous
IL_8C3A_066
NA
IL_6ZJ3_0911/LF/1946:1951,
1/LG/2002:2008		UAA/GAN with extra cWW
geometric
IL_4WF9_104
IL_91079.1
IL_6ZJ3_0921/LG/2014:2017,
1/LG/2027:2029		Isolated non-canonical cWW pair
geometric
IL_4JGN_004
NA
IL_6ZJ3_0931/LG/2036:2037,
1/LH/2280:2283		Multiple bulged bases
geometric
IL_1KXK_003
NA
IL_6ZJ3_0941/LG/2085:2087,
1/LH/2256:2258		Isolated non-canonical cWW pair
geometric
IL_1U9S_007
IL_01003.3
IL_6ZJ3_0951/LG/2104:2106,
1/LH/2231:2233		Isolated non-canonical cWW pair
geometric
IL_5TBW_068
NA
IL_6ZJ3_0961/LG/2106:2107,
1/LH/2229:2231		Major groove platform
geometric
IL_4WF9_078
IL_48076.8
IL_6ZJ3_0971/LG/2110:2111,
1/LG/2219:2221		Single bulged U
geometric
IL_5J7L_279
NA
IL_6ZJ3_0981/LG/2112:2114,
1/LG/2128:2130		Isolated non-canonical cWW pair
geometric
IL_4E59_001
IL_01003.3
IL_6ZJ3_0991/LG/2131:2135,
1/LG/2193:2198		No text annotation
geometric
IL_5TBW_071
NA
IL_6ZJ3_1001/LG/2136:2138,
1/LG/2191:2192		Single bulged C
geometric
IL_1DQF_001
NA
IL_6ZJ3_3201/LG/2139:2146,
1/LG/2188:2190		No text annotation
IL_6ZJ3_3211/LG/2146:2148,
1/LG/2185:2188		No text annotation
IL_6ZJ3_1021/LG/2151:2152,
1/LG/2180:2182		No text annotation
IL_6ZJ3_3221/LG/2154:2162,
1/LG/2172:2178		No text annotation
geometric
IL_8C3A_079
NA
IL_6ZJ3_1051/LH/2339:2347,
1/LH/2834:2838		No text annotation
IL_6ZJ3_3241/LH/2348:2350,
1/LH/2831:2833		Isolated non-canonical cWW pair
geometric
IL_6IA2_005
IL_01003.3
IL_6ZJ3_1071/LH/2353:2355,
1/LH/2826:2828		No text annotation
homologous
IL_8C3A_081
NA
IL_6ZJ3_3251/LH/2356:2359,
1/LH/2824:2825		Major groove platform; stack outside cWW
geometric
IL_8C3A_082
NA
IL_6ZJ3_3261/LH/2356:2364,
1/LH/2821:2825		No text annotation
homologous
IL_8C3A_484
NA
IL_6ZJ3_1091/LH/2359:2364,
1/LH/2821:2824		No text annotation
homologous
IL_8C3A_083
NA
IL_6ZJ3_1101/LH/2376:2381,
1/LH/2386:2392		tSH-tSH-tHH-tHS
geometric
IL_4V9F_063
IL_20700.1
IL_6ZJ3_1111/LH/2398:2400,
1/LH/2594:2596		Isolated non-canonical cWW pair
homologous
IL_8C3A_085
NA
IL_6ZJ3_3271/LH/2403:2406,
1/LH/2586:2591		No text annotation
IL_6ZJ3_3281/LH/2616:2617,
1/LH/2811:2813		Single bulged A
homologous
IL_8C3A_087
NA
IL_6ZJ3_1161/LH/2644:2649,
1/LH/2661:2668		Kink-turn related
homologous
IL_5TBW_083
NA
IL_6ZJ3_1171/LH/2650:2652,
1/LH/2658:2660		Isolated non-canonical cWW pair
geometric
IL_5H1K_001
NA
IL_6ZJ3_1191/LH/2684:2687,
1/LH/2733:2734		No text annotation
homologous
IL_8C3A_089
NA
IL_6ZJ3_1201/LH/2688:2689,
1/LH/2729:2732		Multiple bulged bases
homologous
IL_8C3A_090
NA
IL_6ZJ3_3701/LH/2692:2697,
1/LH/2724:2726		No text annotation
IL_6ZJ3_1221/LH/2699:2704,
1/LH/2718:2722		No text annotation
IL_6ZJ3_1231/LH/2705:2706,
1/LH/2715:2717		Single stack bend
geometric
IL_7KGA_003
IL_15011.2
IL_6ZJ3_1261/LH/2764:2765,
1/LH/2795:2798		Bulged stacked bases
geometric
IL_5TBW_089
NA
IL_6ZJ3_3291/LH/2765:2776,
1/LH/2792:2795		No text annotation
homologous
IL_8C3A_095
NA
IL_6ZJ3_1291/LH/2875:2877,
1/LI/3577:3579		Isolated non-canonical cWW pair
geometric
IL_5J7L_273
NA
IL_6ZJ3_3301/LH/2879:2882,
1/LI/3573:3575		No text annotation
homologous
IL_8P9A_319
IL_75527.2
IL_6ZJ3_3311/LH/2884:2886,
1/LI/3568:3571		No text annotation
homologous
IL_8C3A_097
NA
IL_6ZJ3_3321/LH/2897:2899,
1/LI/3397:3398		Single bulged U
homologous
IL_8P9A_321
IL_97561.3
IL_6ZJ3_1331/LH/2900:2901,
1/LI/3393:3396		Minor groove platform
geometric
IL_5TBW_094
NA
IL_6ZJ3_1351/LH/2911:2913,
1/LI/3176:3179		Isolated tHS basepair with bulges
geometric
IL_5J7L_325
NA
IL_6ZJ3_3331/LH/2913:2915,
1/LI/3174:3176		No text annotation
IL_6ZJ3_3341/LH/2925:2927,
1/LI/3009:3011		Isolated non-canonical cWW pair
geometric
IL_4V88_444
NA
IL_6ZJ3_1391/LH/2932:2935,
1/LI/3000:3004		No text annotation
IL_6ZJ3_3351/LI/3186:3187,
1/LI/3197:3199		Single bulged A
homologous
IL_8P9A_325
IL_14190.2
IL_6ZJ3_1441/LI/3233:3235,
1/LI/3281:3283		Isolated non-canonical cWW pair
geometric
IL_5TBW_021
NA
IL_6ZJ3_1451/LI/3239:3241,
1/LI/3259:3263		Isolated tHS basepair with bulges
homologous
IL_5TBW_099
NA
IL_6ZJ3_1461/LI/3242:3244,
1/LI/3256:3258		Isolated non-canonical cWW pair
geometric
IL_1UN6_005
IL_01003.3
IL_6ZJ3_1491/LI/3346:3359,
1/LI/3372:3373		Major groove intercalation
geometric
IL_5TBW_085
NA
IL_6ZJ3_3361/LI/3409:3410,
1/LI/3451:3453		Major groove platform
homologous
IL_8P9A_329
IL_48076.8
IL_6ZJ3_3371/LI/3410:3412,
1/LI/3449:3451		Isolated non-canonical cWW pair
homologous
IL_8P9A_330
IL_01003.3
IL_6ZJ3_3381/LI/3412:3414,
1/LI/3448:3449		No text annotation
homologous
IL_8P9A_331
IL_46637.2
IL_6ZJ3_3391/LI/3414:3416,
1/LI/3444:3448		No text annotation
homologous
IL_8P9A_332
IL_36931.2
IL_6ZJ3_3401/LI/3418:3420,
1/LI/3440:3442		Isolated non-canonical cWW pair
geometric
IL_4P3U_012
IL_71625.2
IL_6ZJ3_1531/LI/3421:3425,
1/LI/3435:3439		Double sheared with non-canonical cWW
geometric
IL_7A0S_087
IL_87767.2
IL_6ZJ3_1541/LI/3462:3463,
1/LI/3536:3538		Major groove platform
geometric
IL_4WF9_094
IL_46637.2
IL_6ZJ3_3411/LI/3465:3467,
1/LI/3530:3534		No text annotation
homologous
IL_8C3A_116
NA
IL_6ZJ3_1561/LI/3467:3468,
1/LI/3527:3530		Multiple bulged bases
geometric
IL_4V9F_088
IL_44609.2
IL_6ZJ3_1581/LI/3477:3478,
1/LI/3496:3499		Major groove platform with intercalation
homologous
IL_5TBW_111
NA
IL_6ZJ3_1591/LI/3479:3481,
1/LI/3494:3495		No text annotation
IL_6ZJ3_1601/LI/3482:3484,
1/LI/3491:3493		Isolated non-canonical cWW pair
geometric
IL_6IA2_002
IL_01003.3
IL_6ZJ3_1611/LI/3505:3507,
1/LI/3513:3515		Isolated non-canonical cWW pair
homologous
IL_8C3A_120
NA
IL_6ZJ3_1631/LI/3547:3548,
1/LI/3557:3559		Single bulged A
geometric
IL_7RQB_101
NA
IL_6ZJ3_1651/LJ/3592:3594,
1/LJ/3733:3741		Isolated non-canonical cWW pair
geometric
IL_3TD0_005
NA
IL_6ZJ3_1661/LJ/3594:3597,
1/LJ/3731:3733		No text annotation
IL_6ZJ3_1671/LJ/3606:3608,
1/LJ/3626:3628		Isolated non-canonical cWW pair
geometric
IL_5TBW_016
NA
IL_6ZJ3_1681/LJ/3609:3615,
1/LJ/3620:3625		Sarcin-Ricin target in LSU H95; G-bulge
geometric
IL_4V9F_092
IL_02666.1
IL_6ZJ3_3421/LJ/3636:3641,
1/LJ/3681:3685		No text annotation
geometric
IL_5TBW_062
NA
IL_6ZJ3_3711/LJ/3644:3649,
1/LJ/3674:3678		No text annotation
homologous
IL_8CRE_127
NA
IL_6ZJ3_1721/LJ/3650:3652,
1/LJ/3671:3673		Isolated non-canonical cWW pair
geometric
IL_1YZ9_002
IL_01003.3
IL_6ZJ3_1731/LJ/3653:3655,
1/LJ/3666:3670		Isolated non-canonical cWW pair
geometric
IL_7A0S_042
IL_01003.3
IL_6ZJ3_1741/LJ/3692:3698,
1/LJ/3717:3723		No text annotation
IL_6ZJ3_1751/LJ/3698:3700,
1/LJ/3715:3717		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
IL_01003.3
IL_6ZJ3_1761/LK/3752:3754,
1/LK/3802:3803		Single bulged C
geometric
IL_1S03_002
IL_05642.2
IL_6ZJ3_3431/LK/3755:3765,
1/LK/3785:3801		No text annotation
IL_6ZJ3_1771/LK/3768:3770,
1/LK/3781:3782		Single bulged U
geometric
IL_7KVT_002
IL_97561.3
IL_6ZJ3_1781/LL/3817:3821,
1/LL/3883:3886		No text annotation
IL_6ZJ3_1791/LL/3824:3825,
1/LL/3877:3880		Multiple bulged bases
geometric
IL_1R3E_002
IL_05670.1
IL_6ZJ3_1801/LL/3830:3831,
1/LL/3838:3841		Multiple bulged bases
geometric
IL_3IGI_013
IL_44609.2
IL_6ZJ3_1811/LL/3852:3855,
1/LL/3866:3869		Double sheared
geometric
IL_5J7L_256
NA
IL_6ZJ3_1831/LM/3918:3919,
1/LM/3931:3933		Single stack bend
geometric
IL_5J7L_249
NA
IL_6ZJ3_1841/LM/3943:3944,
1/LN/3985:3990		Multiple bulged bases
geometric
IL_5WLH_001
IL_71421.2
IL_6ZJ3_1851/LM/3947:3952,
1/LN/3978:3982		No text annotation
geometric
IL_5TBW_133
NA
IL_6ZJ3_1881/LM/3958:3961,
1/LN/3971:3974		Double sheared
geometric
IL_4V9F_100
IL_58355.2
IL_6ZJ3_3441/LM/3962:3964,
1/LN/3968:3970		No text annotation
IL_6ZJ3_1901/LN/4006:4008,
1/LN/4021:4022		Single stack bend
geometric
IL_4C7O_002
IL_15011.2
IL_6ZJ3_1911/LO/15:16,
1/LO/62:64		Single bulged A
homologous
IL_5TBW_372
NA
IL_6ZJ3_1921/LO/21:27,
1/LO/52:57		Minor groove platform related
homologous
IL_5TBW_373
NA
IL_6ZJ3_1931/LO/28:29,
1/LO/48:51		Major groove minor groove platform; mini C-loop
homologous
IL_5J7L_357
NA
IL_6ZJ3_1941/LO/32:36,
1/LO/41:45		Symmetric double minor groove platform
geometric
IL_4WF9_115
IL_58103.12
IL_6ZJ3_1951/LO/71:78,
1/LO/98:104		8x7 Sarcin-Ricin; G-bulge
homologous
IL_5TBW_377
NA
IL_6ZJ3_1961/LO/82:85,
1/LO/92:94		Isolated non-canonical cWW pair
homologous
IL_5TBW_378
NA
IL_6ZJ3_3451/S1/24:26,
1/S1/704:705		Single bulged C
homologous
IL_8P9A_373
IL_05642.2
IL_6ZJ3_3461/S1/38:41,
1/S1/567:571		Double sheared
geometric
IL_4WF9_016
IL_58355.2
IL_6ZJ3_3471/S1/42:48,
1/S1/528:530		No text annotation
geometric
IL_4V88_387
NA
IL_6ZJ3_1991/S1/50:52,
1/S1/525:526		Minor groove platform
homologous
IL_4V88_388
NA
IL_6ZJ3_2001/S1/58:63,
1/S1/86:88		No text annotation
homologous
IL_4V88_389
NA
IL_6ZJ3_2011/S1/63:69,
1/S1/81:86		No text annotation
IL_6ZJ3_3481/S1/108:110,
1/S1/402:404		No text annotation
IL_6ZJ3_2031/S1/112:115,
1/S1/399:400		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_6ZJ3_2041/S1/117:120,
1/S1/395:397		Decoding loop with one bulged A
geometric
IL_3LOA_003
IL_55553.2
IL_6ZJ3_2061/S1/128:136,
1/S1/153:154		No text annotation
geometric
IL_8C3A_128
NA
IL_6ZJ3_2071/S1/159:165,
1/S1/181:188		tWH-tWH-tHW-tHW
geometric
IL_5J7L_012
NA
IL_6ZJ3_3491/S1/168:170,
1/S1/176:178		No text annotation
homologous
IL_8P9A_384
IL_87720.1
IL_6ZJ3_2091/S1/203:205,
1/S1/261:263		No text annotation
geometric
IL_3ICQ_003
NA
IL_6ZJ3_2101/S1/209:214,
1/S1/256:257		No text annotation
IL_6ZJ3_2111/S1/216:219,
1/S1/252:254		No text annotation
geometric
IL_4V84_070
NA
IL_6ZJ3_2121/S1/358:366,
1/S1/382:384		No text annotation
IL_6ZJ3_2131/S1/410:415,
1/S1/445:452		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_6ZJ3_2141/S1/417:420,
1/S1/442:443		No text annotation
geometric
IL_5Y58_001
IL_37738.1
IL_6ZJ3_2151/S1/460:462,
1/S1/473:478		No text annotation
homologous
IL_4V88_404
NA
IL_6ZJ3_2161/S1/486:488,
1/S1/503:505		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_6ZJ3_3501/S1/536:538,
1/S1/564:565		Single bulged U
geometric
IL_4LFB_014
IL_97561.3
IL_6ZJ3_3511/S1/540:544,
1/S1/561:562		C-loop
homologous
IL_8P9A_397
IL_26900.1
IL_6ZJ3_3521/S1/544:545,
1/S1/559:561		Single bulged G
homologous
IL_8P9A_398
IL_28408.2
IL_6ZJ3_2181/S1/582:584,
1/S1/609:611		Isolated non-canonical cWW pair
geometric
IL_2O3Y_001
IL_71625.2
IL_6ZJ3_2191/S1/585:586,
1/S1/606:608		Single stack bend
geometric
IL_4WF9_007
IL_15011.2
IL_6ZJ3_3541/S1/618:620,
1/S1/640:647		No text annotation
homologous
IL_8C3A_420
NA
IL_6ZJ3_3551/S1/621:622,
1/S1/637:639		Single bulged C
geometric
IL_7PMM_001
IL_05642.2
IL_6ZJ3_2211/S1/654:661,
1/S1/691:692		SSU/LSU pseudoknot
geometric
IL_4V88_413
NA
IL_6ZJ3_2221/S1/661:663,
1/S1/690:691		Single bulged U
geometric
IL_2PJP_001
IL_97561.3
IL_6ZJ3_2231/S1/666:672,
1/S1/679:687		Kink-turn related
homologous
IL_4V88_415
NA
IL_6ZJ3_2241/S1/720:726,
1/S1/1514:1515		No text annotation
homologous
IL_4V88_416
NA
IL_6ZJ3_2251/S1/728:730,
1/S1/1370:1372		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_6ZJ3_2261/S1/731:735,
1/S1/1365:1369		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_6ZJ3_2371/S1/954:961,
1/S1/995:997		No text annotation
IL_6ZJ3_2401/S1/1026:1027,
1/S1/1084:1087		Minor groove platform
geometric
IL_7RQB_073
NA
IL_6ZJ3_2411/S1/1028:1030,
1/S1/1081:1083		Isolated non-canonical cWW pair
homologous
IL_4V88_424
NA
IL_6ZJ3_3581/S1/1032:1039,
1/S1/1073:1079		No text annotation
IL_6ZJ3_2421/S1/1033:1039,
1/S1/1073:1078		No text annotation
IL_6ZJ3_2431/S1/1103:1104,
1/S1/1141:1143		Single bulged C
geometric
IL_1S03_006
IL_05642.2
IL_6ZJ3_2441/S1/1107:1109,
1/S1/1137:1138		No text annotation
IL_6ZJ3_2461/S1/1262:1263,
1/S1/1359:1362		Major groove platform; stack outside cWW
geometric
IL_6N5P_003
IL_74641.2
IL_6ZJ3_2471/S1/1265:1267,
1/S1/1354:1357		Isolated non-canonical cWW pair
geometric
IL_3TD0_005
NA
IL_6ZJ3_2481/S1/1269:1271,
1/S1/1350:1352		Isolated non-canonical cWW pair
geometric
IL_5TBW_016
NA
IL_6ZJ3_2491/S1/1271:1275,
1/S1/1347:1350		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_6ZJ3_2501/S1/1277:1279,
1/S1/1343:1345		Isolated non-canonical cWW pair
geometric
IL_5TBW_110
NA
IL_6ZJ3_2511/S1/1282:1286,
1/S1/1320:1324		No text annotation
geometric
IL_5TBW_121
NA
IL_6ZJ3_2521/S1/1287:1289,
1/S1/1317:1319		Isolated cWH basepair
geometric
IL_3R1C_012
IL_10892.2
IL_6ZJ3_2531/S1/1292:1296,
1/S1/1307:1314		Kink-turn
homologous
IL_4V88_434
NA
IL_6ZJ3_3591/S1/1378:1379,
1/S1/1416:1419		Major groove intercalation
geometric
IL_1NBS_009
IL_71421.2
IL_6ZJ3_2551/S1/1382:1386,
1/S1/1412:1413		Left turn
geometric
IL_4LFB_032
IL_29346.3
IL_6ZJ3_2561/S1/1387:1391,
1/S1/1407:1411		tSH-tHW-tHS
homologous
IL_4V88_436
NA
IL_6ZJ3_2581/S1/1433:1435,
1/S1/1505:1511		No text annotation
homologous
IL_4V88_437
NA
IL_6ZJ3_2591/S1/1521:1529,
1/S1/1538:1544		9x7 Sarcin-Ricin with inserted C; G-bulge
geometric
IL_6CZR_146
NA
IL_6ZJ3_2601/S1/1556:1557,
1/S1/2133:2135		Single bulged A
homologous
IL_4V88_441
NA
IL_6ZJ3_3601/S1/1559:1561,
1/S1/2130:2131		Single bulged G
homologous
IL_8C3A_448
NA
IL_6ZJ3_2631/S1/1567:1570,
1/S1/2120:2124		C-loop
homologous
IL_4V88_443
NA
IL_6ZJ3_2651/S1/1583:1585,
1/S1/1949:1951		Isolated non-canonical cWW pair
homologous
IL_4V88_444
NA
IL_6ZJ3_2661/S1/1588:1589,
1/S1/1944:1946		Minor groove platform
homologous
IL_4V88_445
NA
IL_6ZJ3_3611/S1/1623:1625,
1/S1/1933:1935		Isolated non-canonical cWW pair
geometric
IL_4PCJ_002
IL_68118.3
IL_6ZJ3_2671/S1/1634:1640,
1/S1/1667:1669		No text annotation
IL_6ZJ3_3621/S1/1634:1643,
1/S1/1662:1669		No text annotation
homologous
IL_8P9A_470
IL_28304.1
IL_6ZJ3_2681/S1/1640:1643,
1/S1/1662:1667		No text annotation
IL_6ZJ3_2691/S1/1644:1646,
1/S1/1659:1661		No text annotation
homologous
IL_4V88_448
NA
IL_6ZJ3_3631/S1/1678:1680,
1/S1/1925:1926		Single bulged U
homologous
IL_8C3A_455
NA
IL_6ZJ3_2711/S1/1682:1686,
1/S1/1921:1923		Isolated cWS basepair
homologous
IL_4V88_450
NA
IL_6ZJ3_3641/S1/1682:1688,
1/S1/1915:1923		No text annotation
homologous
IL_8P9A_439
IL_99893.1
IL_6ZJ3_2721/S1/1686:1688,
1/S1/1915:1921		Minor groove platform with extra cWW
geometric
IL_4V88_451
NA
IL_6ZJ3_2731/S1/1690:1691,
1/S1/1911:1913		Single bulged A
homologous
IL_4V88_452
NA
IL_6ZJ3_2741/S1/1700:1702,
1/S1/1733:1735		Isolated cWH basepair
homologous
IL_4V88_453
NA
IL_6ZJ3_2751/S1/1716:1718,
1/S1/1727:1728		Minor groove platform
homologous
IL_4V88_454
NA
IL_6ZJ3_2761/S1/1751:1754,
1/S1/1862:1865		Tandem non-canonical cWW pairs
geometric
IL_4XW0_002
IL_71194.2
IL_6ZJ3_2771/S1/1754:1757,
1/S1/1859:1862		Minor groove platform
homologous
IL_4V88_456
NA
IL_6ZJ3_2781/S1/1759:1760,
1/S1/1852:1857		Minor groove platform
geometric
IL_5TBW_094
NA
IL_6ZJ3_2791/S1/1762:1763,
1/S1/1848:1850		Single bulged C
geometric
IL_8P9A_297
IL_05642.2
IL_6ZJ3_2821/S1/1871:1873,
1/S1/1892:1897		Major groove platform; stack outside cWW
homologous
IL_4V88_458
NA
IL_6ZJ3_3661/S1/1965:1973,
1/S1/2021:2030		No text annotation
IL_6ZJ3_2841/S1/2043:2048,
1/S1/2069:2074		No text annotation
geometric
IL_4V88_462
NA
IL_6ZJ3_2851/S1/2049:2051,
1/S1/2066:2068		Isolated non-canonical cWW pair
geometric
IL_4M4O_001
IL_01003.3
IL_6ZJ3_2871/S1/2091:2093,
1/S1/2109:2111		No text annotation
geometric
IL_4KR9_001
NA
IL_6ZJ3_2881/S1/2139:2141,
1/S1/2270:2273		No text annotation
homologous
IL_4V88_463
NA
IL_6ZJ3_3671/S1/2141:2144,
1/S1/2266:2270		No text annotation
homologous
IL_8P9A_453
IL_25873.2
IL_6ZJ3_2901/S1/2145:2147,
1/S1/2263:2265		Isolated non-canonical cWW pair
geometric
IL_5MWI_004
IL_01003.3
IL_6ZJ3_2911/S1/2147:2149,
1/S1/2260:2263		Decoding loop related
geometric
IL_3C3Z_002
IL_53541.1
IL_6ZJ3_2921/S1/2153:2155,
1/S1/2254:2256		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_6ZJ3_2931/S1/2156:2159,
1/S1/2250:2253		Double sheared
homologous
IL_4V88_468
NA
IL_6ZJ3_2941/S1/2171:2174,
1/S1/2235:2238		Double sheared
homologous
IL_4V88_471
NA
IL_6ZJ3_2951/S1/2176:2184,
1/S1/2225:2233		No text annotation
IL_6ZJ3_2961/S1/2188:2190,
1/S1/2220:2221		No text annotation

Problematic loops

#loop idProblemSequence
IL_6ZJ3_003Not an internal loop
IL_6ZJ3_004Isolated non-canonical cWW pair
IL_6ZJ3_005Isolated non-canonical cWW pair
IL_6ZJ3_006No text annotation
IL_6ZJ3_011Isolated non-canonical cWW pair
IL_6ZJ3_017No text annotation
IL_6ZJ3_020tSH-tHW
IL_6ZJ3_022Stack and bulge
IL_6ZJ3_025No text annotation
IL_6ZJ3_028Multiple bulged bases
IL_6ZJ3_035Tandem non-canonical cWW pairs with near WC pairs
IL_6ZJ3_037Isolated non-canonical cWW pair
IL_6ZJ3_038No text annotation
IL_6ZJ3_040No text annotation
IL_6ZJ3_042Isolated non-canonical cWW pair
IL_6ZJ3_045No text annotation
IL_6ZJ3_046Tandem non-canonical cWW pairs
IL_6ZJ3_047Stack and bulge
IL_6ZJ3_050No text annotation
IL_6ZJ3_055No text annotation
IL_6ZJ3_0577x7 Sarcin-Ricin with intercalated A; G-bulge
IL_6ZJ3_060Isolated cWS basepair
IL_6ZJ3_062No text annotation
IL_6ZJ3_063Isolated non-canonical cWW pair
IL_6ZJ3_069No text annotation
IL_6ZJ3_070Isolated non-canonical cWW pair
IL_6ZJ3_073Isolated non-canonical cWW pair
IL_6ZJ3_074Not an internal loop
IL_6ZJ3_078No text annotation
IL_6ZJ3_084Isolated non-canonical cWW pair
IL_6ZJ3_086Not an internal loop
IL_6ZJ3_087Isolated non-canonical cWW pair
IL_6ZJ3_088Isolated non-canonical cWW pair
IL_6ZJ3_101No text annotation
IL_6ZJ3_103No text annotation
IL_6ZJ3_104Not an internal loop
IL_6ZJ3_323Single stack bend
IL_6ZJ3_106Tandem non-canonical cWW pairs
IL_6ZJ3_108Major groove platform with extra pair
IL_6ZJ3_112No text annotation
IL_6ZJ3_113Stack and bulge
IL_6ZJ3_114Not an internal loop
IL_6ZJ3_115Isolated tHS basepair with bulges
IL_6ZJ3_118Stack and bulge
IL_6ZJ3_121No text annotation
IL_6ZJ3_124Not an internal loop
IL_6ZJ3_125Not an internal loop
IL_6ZJ3_127No text annotation
IL_6ZJ3_128Not an internal loop
IL_6ZJ3_130No text annotation
IL_6ZJ3_131Isolated non-canonical cWW pair
IL_6ZJ3_132Tandem non-canonical cWW pairs
IL_6ZJ3_134No text annotation
IL_6ZJ3_136Tandem non-canonical cWW pairs
IL_6ZJ3_137Isolated non-canonical cWW pair
IL_6ZJ3_138Tandem non-canonical cWW pairs
IL_6ZJ3_140Isolated non-canonical cWW pair
IL_6ZJ3_141Single stack bend
IL_6ZJ3_142No text annotation
IL_6ZJ3_143Stack and bulge
IL_6ZJ3_147Isolated non-canonical cWW pair
IL_6ZJ3_148No text annotation
IL_6ZJ3_150No text annotation
IL_6ZJ3_151No text annotation
IL_6ZJ3_152Tandem non-canonical cWW pairs
IL_6ZJ3_155tSH-tHW-tHS
IL_6ZJ3_157Isolated non-canonical cWW pair
IL_6ZJ3_162No text annotation
IL_6ZJ3_164Not an internal loop
IL_6ZJ3_169No text annotation
IL_6ZJ3_170Stack and bulge
IL_6ZJ3_171No text annotation
IL_6ZJ3_182Stack and bulge
IL_6ZJ3_186Stack and bulge
IL_6ZJ3_187Decoding loop related
IL_6ZJ3_189Isolated non-canonical cWW pair
IL_6ZJ3_197No text annotation
IL_6ZJ3_198Triple sheared related
IL_6ZJ3_202Tandem non-canonical cWW pairs
IL_6ZJ3_205Tandem non-canonical cWW pairs
IL_6ZJ3_208Tandem non-canonical cWW pairs
IL_6ZJ3_217C-loop with extra cWW pair
IL_6ZJ3_353Isolated non-canonical cWW pair
IL_6ZJ3_220No text annotation
IL_6ZJ3_227Single stack bend
IL_6ZJ3_228No text annotation
IL_6ZJ3_229Single stack bend
IL_6ZJ3_356No text annotation
IL_6ZJ3_230No text annotation
IL_6ZJ3_231No text annotation
IL_6ZJ3_232Single stack bend
IL_6ZJ3_357No text annotation
IL_6ZJ3_233Single stack bend
IL_6ZJ3_234Isolated non-canonical cWW pair
IL_6ZJ3_235No text annotation
IL_6ZJ3_236Isolated non-canonical cWW pair
IL_6ZJ3_238No text annotation
IL_6ZJ3_239No text annotation
IL_6ZJ3_245No text annotation
IL_6ZJ3_254Isolated cWS basepair
IL_6ZJ3_257Stack and bulge
IL_6ZJ3_261Intercalated cWW
IL_6ZJ3_262Stack and bulge
IL_6ZJ3_264Isolated cWS basepair
IL_6ZJ3_270Isolated non-canonical cWW pair
IL_6ZJ3_365No text annotation
IL_6ZJ3_280No text annotation
IL_6ZJ3_281Not an internal loop
IL_6ZJ3_283Stack and bulge
IL_6ZJ3_286Isolated tHS basepair with bulges
IL_6ZJ3_289No text annotation
IL_6ZJ3_297No text annotation
IL_6ZJ3_368Single stack bend
IL_6ZJ3_369Single stack bend

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6ZJ3_0011/LA/17:18,
1/LC/574:581,
1/LC/607:608		No text annotation
homologous
J3_5TBW_002
NA
J3_6ZJ3_0301/LA/17:18,
1/LC/574:584,
1/LC/595:608		No text annotation
geometric
J3_5TBW_062
NA
J3_6ZJ3_0311/LA/19:22,
1/LC/545:561,
1/LC/568:573		No text annotation
geometric
J3_8C3A_047
NA
J3_6ZJ3_0321/LA/42:43,
1/LA/57:65,
1/LA/91:106		No text annotation
J3_6ZJ3_0021/LB/279:282,
1/LC/335:340,
1/LC/469:472		No text annotation
J3_6ZJ3_0331/LC/376:383,
1/LC/396:407,
1/LC/419:423		No text annotation
J3_6ZJ3_0031/LE/1113:1119,
1/LE/1205:1207,
1/LE/1223:1226		No text annotation
homologous
J3_8C3A_003
NA
J3_6ZJ3_0041/LE/1128:1130,
1/LE/1162:1166,
1/LE/1192:1195		No text annotation
homologous
J3_8C3A_004
NA
J3_6ZJ3_0051/LF/1892:1899,
1/LH/2314:2316,
1/LH/2328:2332		No text annotation
J3_6ZJ3_0061/LF/1902:1905,
1/LH/2293:2300,
1/LH/2309:2311		No text annotation
homologous
J3_5TBW_009
NA
J3_6ZJ3_0071/LF/1941:1946,
1/LG/2008:2012,
1/LG/2031:2032		No text annotation
homologous
J3_5TBW_010
NA
J3_6ZJ3_0341/LF/1954:1956,
1/LF/1968:1982,
1/LG/1995:1999		No text annotation
J3_6ZJ3_0351/LG/2091:2095,
1/LH/2242:2243,
1/LH/2247:2252		No text annotation
geometric
J3_8C3A_055
NA
J3_6ZJ3_0091/LH/2919:2923,
1/LI/3013:3017,
1/LI/3162:3170		No text annotation
J3_6ZJ3_0101/LI/3030:3033,
1/LI/3087:3101,
1/LI/3125:3128		No text annotation
J3_6ZJ3_0361/LI/3223:3225,
1/LI/3329:3340,
1/LI/3379:3384		No text annotation
homologous
J3_8C3A_056
NA
J3_6ZJ3_0111/LI/3237:3239,
1/LI/3263:3265,
1/LI/3274:3279		No text annotation
homologous
J3_8C3A_010
NA
J3_6ZJ3_0371/LI/3472:3475,
1/LI/3501:3503,
1/LI/3517:3523		No text annotation
homologous
J3_8C3A_011
NA
J3_6ZJ3_0131/LL/3825:3827,
1/LL/3844:3847,
1/LL/3874:3877		No text annotation
J3_6ZJ3_0141/LM/3917:3918,
1/LM/3933:3936,
1/LN/4045:4048		No text annotation
J3_6ZJ3_0381/LM/3917:3919,
1/LM/3931:3936,
1/LN/4045:4048		No text annotation
J3_6ZJ3_0161/LO/9:14,
1/LO/65:66,
1/LO/109:110		No text annotation
homologous
J3_5TBW_045
NA
J3_6ZJ3_0391/S1/41:42,
1/S1/530:536,
1/S1/565:567		No text annotation
geometric
J3_8C3A_082
NA
J3_6ZJ3_0401/S1/41:48,
1/S1/528:536,
1/S1/565:567		No text annotation
homologous
J3_8P9A_069
J3_63856.1
J3_6ZJ3_0181/S1/269:272,
1/S1/333:334,
1/S1/343:349		No text annotation
J3_6ZJ3_0191/S1/737:740,
1/S1/1257:1262,
1/S1/1362:1363		No text annotation
J3_6ZJ3_0411/S1/737:740,
1/S1/1257:1263,
1/S1/1359:1363		No text annotation
J3_6ZJ3_0201/S1/1040:1043,
1/S1/1053:1056,
1/S1/1066:1072		No text annotation
J3_6ZJ3_0421/S1/1099:1101,
1/S1/1145:1152,
1/S1/1249:1252		No text annotation
J3_6ZJ3_0211/S1/1280:1281,
1/S1/1325:1333,
1/S1/1340:1342		No text annotation
geometric
J3_1G1X_004
NA
J3_6ZJ3_0231/S1/1571:1574,
1/S1/2084:2091,
1/S1/2111:2119		No text annotation
J3_6ZJ3_0241/S1/1578:1581,
1/S1/1953:1955,
1/S1/2077:2080		No text annotation
homologous
J3_8C3A_039
NA
J3_6ZJ3_0431/S1/1590:1597,
1/S1/1608:1619,
1/S1/1939:1943		No text annotation
homologous
J3_8C3A_040
NA
J3_6ZJ3_0441/S1/1625:1630,
1/S1/1673:1677,
1/S1/1927:1933		No text annotation
J3_6ZJ3_0451/S1/1693:1698,
1/S1/1737:1744,
1/S1/1902:1909		No text annotation
J3_6ZJ3_0271/S1/1703:1704,
1/S1/1713:1716,
1/S1/1728:1732		No text annotation
homologous
J3_8P9A_081
J3_76043.4
J3_6ZJ3_0461/S1/1746:1748,
1/S1/1868:1871,
1/S1/1897:1900		No text annotation
geometric
J3_4V88_040
NA
J3_6ZJ3_0471/S1/1746:1748,
1/S1/1868:1873,
1/S1/1892:1900		No text annotation
homologous
J3_8C3A_086
NA
J3_6ZJ3_0281/S1/1955:1959,
1/S1/2036:2043,
1/S1/2074:2077		No text annotation
homologous
J3_4V88_041
NA
J3_6ZJ3_0291/S1/1973:1981,
1/S1/1996:1997,
1/S1/2016:2021		No text annotation
J4_6ZJ3_0011/LB/278:279,
1/LC/472:477,
1/LC/498:504,
1/LC/521:524		No text annotation
homologous
J4_8P9A_012
J4_94698.1
J4_6ZJ3_0021/LC/376:383,
1/LC/396:401,
1/LC/405:407,
1/LC/419:423		No text annotation
J4_6ZJ3_0031/LF/1836:1842,
1/LF/1889:1890,
1/LH/2334:2337,
1/LH/2840:2841		No text annotation
homologous
J4_8C3A_003
NA
J4_6ZJ3_0041/LG/2111:2112,
1/LG/2130:2131,
1/LG/2198:2200,
1/LG/2218:2219		No text annotation
J4_6ZJ3_0051/LH/2618:2622,
1/LH/2634:2638,
1/LH/2674:2678,
1/LH/2805:2810		No text annotation
homologous
J4_8P9A_017
J4_78485.1
J4_6ZJ3_0061/LH/2680:2682,
1/LH/2736:2737,
1/LH/2755:2764,
1/LH/2798:2803		No text annotation
homologous
J4_8C3A_007
NA
J4_6ZJ3_0071/LI/3226:3231,
1/LI/3285:3295,
1/LI/3311:3317,
1/LI/3326:3328		No text annotation
J4_6ZJ3_0081/LJ/3599:3603,
1/LJ/3631:3633,
1/LJ/3688:3690,
1/LJ/3725:3729		No text annotation
J4_6ZJ3_0091/S1/98:106,
1/S1/406:408,
1/S1/454:458,
1/S1/480:481		No text annotation
homologous
J4_8C3A_021
NA
J4_6ZJ3_0101/S1/726:728,
1/S1/1372:1377,
1/S1/1420:1431,
1/S1/1513:1514		No text annotation
homologous
J4_8P9A_022
J4_14595.1
J4_6ZJ3_0111/S1/893:902,
1/S1/920:936,
1/S1/946:951,
1/S1/1000:1007		No text annotation
J4_6ZJ3_0121/S2/6:10,
1/S2/25:27,
1/S2/43:50,
1/S2/64:67		No text annotation
J4_6ZJ3_0151/S3/7:10,
1/S3/25:27,
1/S3/43:52,
1/S3/61:66		No text annotation
J5_6ZJ3_0011/LA/33:40,
1/LA/108:113,
1/LA/121:123,
1/LA/145:147,
1/LB/180:182		No text annotation
J5_6ZJ3_0021/LE/961:964,
1/LE/996:1000,
1/LE/1007:1016,
1/LE/1044:1045,
1/LE/1082:1086		No text annotation
J5_6ZJ3_0031/LH/2364:2372,
1/LH/2396:2397,
1/LH/2597:2598,
1/LH/2602:2610,
1/LH/2819:2821		No text annotation
homologous
J5_8P9A_013
J5_99177.1
J5_6ZJ3_0041/LH/2887:2894,
1/LI/3401:3409,
1/LI/3453:3462,
1/LI/3538:3544,
1/LI/3562:3567		No text annotation
J5_6ZJ3_0051/LH/2904:2907,
1/LI/3183:3186,
1/LI/3199:3200,
1/LI/3222:3223,
1/LI/3384:3390		No text annotation
homologous
J5_8C3A_006
NA
J5_6ZJ3_0061/S1/31:34,
1/S1/575:580,
1/S1/613:618,
1/S1/647:651,
1/S1/695:699		No text annotation
J5_6ZJ3_0071/S1/31:34,
1/S1/575:580,
1/S1/613:620,
1/S1/640:651,
1/S1/695:699		No text annotation
J5_6ZJ3_0081/S1/54:57,
1/S1/89:96,
1/S1/483:485,
1/S1/506:508,
1/S1/519:523		No text annotation
homologous
J5_8C3A_020
NA
J6_6ZJ3_0011/LH/2904:2907,
1/LI/3183:3186,
1/LI/3199:3200,
1/LI/3222:3225,
1/LI/3329:3340,
1/LI/3379:3390		No text annotation
J6_6ZJ3_0021/S1/124:128,
1/S1/154:158,
1/S1/189:201,
1/S1/265:268,
1/S1/350:355,
1/S1/387:391		No text annotation
J7_6ZJ3_0011/LA/31:33,
1/LB/182:187,
1/LB/218:228,
1/LB/235:239,
1/LB/266:272,
1/LB/276:277,
1/LC/525:535		No text annotation
J9_6ZJ3_0011/LF/1906:1910,
1/LF/1935:1940,
1/LG/2033:2034,
1/LH/2285:2288,
1/LF/1943:1946,
1/LG/2008:2012,
1/LG/2031:2032,
1/LF/1941:1942,
1/LH/2289:2292		No text annotation
J9_6ZJ3_0021/LF/1909:1910,
1/LF/1935:1940,
1/LG/2033:2034,
1/LH/2285:2288,
1/LF/1943:1946,
1/LG/2008:2012,
1/LG/2031:2032,
1/LF/1941:1942,
1/LH/2289:2291		No text annotation

Problematic loops

#loop idProblemSequence
J3_6ZJ3_008No text annotation
J3_6ZJ3_012No text annotation
J3_6ZJ3_015No text annotation
J3_6ZJ3_017No text annotation
J3_6ZJ3_022No text annotation
J3_6ZJ3_025No text annotation
J3_6ZJ3_026No text annotation
J4_6ZJ3_013No text annotation
J4_6ZJ3_014tRNA junction

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