RNA 3D Hub //

4V6I Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4V6I_0011/CA/7:17No text annotation
homologous
HL_8C3A_192
NA
HL_4V6I_1131/CA/70:81No text annotation
HL_4V6I_0021/CA/154:160No text annotation
HL_4V6I_0041/CA/226:232No text annotation
geometric
HL_361D_002
HL_13963.3
HL_4V6I_0051/CA/275:281No text annotation
HL_4V6I_1221/CA/330:338No text annotation
homologous
HL_8P9A_197
HL_84299.4
HL_4V6I_0071/CA/368:373No text annotation
homologous
HL_4V88_194
NA
HL_4V6I_0081/CA/393:404No text annotation
homologous
HL_4V88_195
NA
HL_4V6I_0091/CA/414:419No text annotation
geometric
HL_5U3G_001
HL_75660.5
HL_4V6I_0101/CA/450:456No text annotation
geometric
HL_2ZZM_002
HL_13963.3
HL_4V6I_0111/CA/491:496No text annotation
geometric
HL_5U3G_001
HL_75660.5
HL_4V6I_0121/CA/568:575No text annotation
HL_4V6I_0131/CA/663:669No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_4V6I_0141/CA/827:845Pseudoknot geometry
geometric
HL_4GXY_003
HL_65794.5
HL_4V6I_1141/CA/900:909No text annotation
homologous
HL_8C3A_211
NA
HL_4V6I_0161/CA/937:942GNRA
homologous
HL_4V88_207
NA
HL_4V6I_0171/CA/997:1007No text annotation
homologous
HL_4V88_208
NA
HL_4V6I_0181/CA/1057:1062No text annotation
HL_4V6I_0191/CA/1084:1089GNRA
homologous
HL_4V88_210
NA
HL_4V6I_0201/CA/1121:1126GNRA
homologous
HL_4V88_211
NA
HL_4V6I_0211/CA/1188:1197No text annotation
homologous
HL_4V88_212
NA
HL_4V6I_1151/CA/1227:1258No text annotation
HL_4V6I_0221/CA/1233:1246No text annotation
HL_4V6I_0231/CA/1296:1301GNRA
homologous
HL_4V88_214
NA
HL_4V6I_0241/CA/1309:1316No text annotation
homologous
HL_4V88_215
NA
HL_4V6I_0261/CA/1395:1403No text annotation
HL_4V6I_0271/CA/1501:1506GNRA
homologous
HL_4V88_218
NA
HL_4V6I_0281/CA/1550:1561No text annotation
homologous
HL_4V88_219
NA
HL_4V6I_1231/CA/1594:1602No text annotation
homologous
HL_8P9A_223
NA
HL_4V6I_0301/CA/1698:1703No text annotation
geometric
HL_5M3H_001
NA
HL_4V6I_0311/CA/1778:1783GNRA variation
homologous
HL_4V88_222
NA
HL_4V6I_0321/CB/13:22No text annotation
HL_4V6I_0331/CB/31:39tRNA anticodon loop
homologous
HL_6UFM_002
HL_06059.6
HL_4V6I_0341/CB/52:60T-loop with 2 stacked bulged bases
homologous
HL_6UFM_003
HL_28252.8
HL_4V6I_0351/DA/38:45No text annotation
homologous
HL_8C3A_001
NA
HL_4V6I_0361/DA/69:74No text annotation
HL_4V6I_0371/DA/90:96No text annotation
homologous
HL_5TBW_003
NA
HL_4V6I_0381/DA/132:136No text annotation
geometric
HL_1GID_008
NA
HL_4V6I_0391/DA/194:201T-loop with 2 stacked bulged bases
homologous
HL_8C3A_005
NA
HL_4V6I_0401/DA/216:224T-loop with unstacked turn
homologous
HL_8C3A_007
NA
HL_4V6I_0411/DA/278:287No text annotation
homologous
HL_8C3A_008
NA
HL_4V6I_0421/DA/303:312Pseudoknot geometry
homologous
HL_5TBW_009
NA
HL_4V6I_0431/DA/357:362GNRA
homologous
HL_8C3A_010
NA
HL_4V6I_0441/DA/382:387GNRA
homologous
HL_5TBW_011
NA
HL_4V6I_0451/DA/463:468No text annotation
geometric
HL_4WF9_003
HL_75660.5
HL_4V6I_0461/DA/543:548No text annotation
geometric
HL_8C3A_054
NA
HL_4V6I_0471/DA/599:604GNRA
homologous
HL_5TBW_013
NA
HL_4V6I_0481/DA/640:649T-loop with 2 stacked bulged bases
homologous
HL_8C3A_014
NA
HL_4V6I_0491/DA/687:693UNCG variation
geometric
HL_1P6V_001
HL_53890.2
HL_4V6I_0501/DA/707:712GNRA
homologous
HL_8C3A_016
NA
HL_4V6I_0511/DA/732:737No text annotation
geometric
HL_361D_002
HL_13963.3
HL_4V6I_0521/DA/763:768No text annotation
HL_4V6I_0531/DA/844:849GNRA
homologous
HL_5TBW_019
NA
HL_4V6I_0541/DA/876:885No text annotation
homologous
HL_8C3A_020
NA
HL_4V6I_0551/DA/910:918No text annotation
geometric
HL_6CF2_001
HL_87553.1
HL_4V6I_1161/DA/958:963No text annotation
homologous
HL_8P9A_134
HL_70782.2
HL_4V6I_1171/DA/999:1051No text annotation
HL_4V6I_1181/DA/1067:1093No text annotation
HL_4V6I_0581/DA/1076:1083No text annotation
HL_4V6I_0591/DA/1126:1132GNRA
homologous
HL_5TBW_025
NA
HL_4V6I_0601/DA/1148:1155No text annotation
homologous
HL_5TBW_026
NA
HL_4V6I_0611/DA/1239:1249No text annotation
homologous
HL_8C3A_027
NA
HL_4V6I_0621/DA/1267:1274GNRA wlth tandem sheared
homologous
HL_8C3A_028
NA
HL_4V6I_1191/DA/1347:1357No text annotation
HL_4V6I_0641/DA/1403:1408GNRA
geometric
HL_3W3S_003
HL_37824.7
HL_4V6I_0651/DA/1462:1470T-loop with 2 stacked bulged bases
homologous
HL_8C3A_031
NA
HL_4V6I_0661/DA/1506:1512Pseudoknot geometry with 3' bulge
homologous
HL_5TBW_032
NA
HL_4V6I_0671/DA/1544:1549GNRA variation
homologous
HL_5TBW_033
NA
HL_4V6I_0681/DA/1565:1574No text annotation
HL_4V6I_0691/DA/1599:1608No text annotation
homologous
HL_8C3A_035
NA
HL_4V6I_1201/DA/1680:1688No text annotation
geometric
HL_8C3A_039
NA
HL_4V6I_0721/DA/1719:1725Other HL
geometric
HL_4V9F_039
HL_77436.5
HL_4V6I_0731/DA/1760:1765GNRA
geometric
HL_4Y1M_004
HL_37824.7
HL_4V6I_0741/DA/1792:1796No text annotation
homologous
HL_8C3A_040
NA
HL_4V6I_0751/DA/1844:1851No text annotation
homologous
HL_8C3A_041
NA
HL_4V6I_0761/DA/1862:1868No text annotation
HL_4V6I_0771/DA/1923:1928UNCG
homologous
HL_8C3A_043
NA
HL_4V6I_0781/DA/2008:2013No text annotation
geometric
HL_2Y9H_003
HL_75660.5
HL_4V6I_0791/DA/2065:2071No text annotation
geometric
HL_3IGI_004
HL_04783.2
HL_4V6I_0801/DA/2110:2114No text annotation
geometric
HL_4V9F_046
HL_80709.3
HL_4V6I_0811/DA/2135:2145No text annotation
homologous
HL_5TBW_046
NA
HL_4V6I_0831/DA/2220:2225GNRA
homologous
HL_8C3A_048
NA
HL_4V6I_0841/DA/2253:2263No text annotation
homologous
HL_8C3A_049
NA
HL_4V6I_0851/DA/2292:2300No text annotation
homologous
HL_8C3A_050
NA
HL_4V6I_0861/DA/2369:2378No text annotation
homologous
HL_8C3A_051
NA
HL_4V6I_0871/DA/2470:2475No text annotation
geometric
HL_8C3A_054
NA
HL_4V6I_0881/DA/2536:2543GNRA with extra cWW
geometric
HL_7A0S_056
HL_04259.3
HL_4V6I_0891/DA/2568:2573Mini UNCG
geometric
HL_4YAZ_004
HL_48778.2
HL_4V6I_0901/DA/2616:2624No text annotation
homologous
HL_8C3A_055
NA
HL_4V6I_0911/DA/2633:2645No text annotation
geometric
HL_4V9F_056
HL_91939.2
HL_4V6I_0921/DA/2673:2681No text annotation
HL_4V6I_0931/DA/2693:2700Pseudoknot geometry
homologous
HL_5TBW_057
NA
HL_4V6I_0941/DA/2724:2732No text annotation
HL_4V6I_0951/DA/2744:2749GNRA
homologous
HL_8C3A_060
NA
HL_4V6I_0961/DA/2776:2784Pseudoknot geometry
homologous
HL_5TBW_060
NA
HL_4V6I_0971/DA/2840:2848No text annotation
homologous
HL_8C3A_062
NA
HL_4V6I_0981/DA/2897:2904No text annotation
homologous
HL_5TBW_062
NA
HL_4V6I_0991/DA/2920:2926No text annotation
geometric
HL_5TBW_063
NA
HL_4V6I_1001/DA/2963:2968GNRA
homologous
HL_8C3A_065
NA
HL_4V6I_1011/DA/3025:3030GNRA
homologous
HL_8C3A_066
NA
HL_4V6I_1021/DA/3068:3073Ribsomal LSU H95
homologous
HL_8C3A_067
NA
HL_4V6I_1031/DA/3110:3124No text annotation
homologous
HL_8C3A_068
NA
HL_4V6I_1041/DA/3214:3219No text annotation
HL_4V6I_1051/DA/3240:3247tRNA anticodon loop
geometric
HL_3RG5_006
HL_04259.3
HL_4V6I_1061/DA/3303:3311No text annotation
homologous
HL_8C3A_071
NA
HL_4V6I_1071/DA/3349:3356No text annotation
geometric
HL_4WF9_041
NA
HL_4V6I_1081/DB/47:56Pseudoknot with intercalation
geometric
HL_4V9F_001
HL_93438.2
HL_4V6I_1091/DB/109:113No text annotation
geometric
HL_5TBW_006
NA
HL_4V6I_1211/DB/124:129No text annotation
geometric
HL_8C3A_054
NA
HL_4V6I_1111/DC/36:41No text annotation
homologous
HL_5J7L_203
HL_47787.2
HL_4V6I_1121/DC/85:90GNRA
homologous
HL_5TBW_186
NA

Problematic loops

#loop idProblemSequence
HL_4V6I_003No text annotation
HL_4V6I_006No text annotation
HL_4V6I_015No text annotation
HL_4V6I_025No text annotation
HL_4V6I_029No text annotation
HL_4V6I_056No text annotation
HL_4V6I_057No text annotation
HL_4V6I_063No text annotation
HL_4V6I_070No text annotation
HL_4V6I_071No text annotation
HL_4V6I_082GNRA
HL_4V6I_110No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4V6I_0011/CA/24:27,
1/CA/599:601		Isolated non-canonical cWW pair
geometric
IL_4V83_235
IL_07785.1
IL_4V6I_0021/CA/37:41,
1/CA/466:471		Triple sheared related
homologous
IL_4V88_386
NA
IL_4V6I_0041/CA/50:52,
1/CA/428:429		Minor groove platform
homologous
IL_4V88_388
NA
IL_4V6I_0051/CA/58:62,
1/CA/88:89		Multiple bulged bases
geometric
IL_4YAZ_007
IL_82107.4
IL_4V6I_0061/CA/63:69,
1/CA/82:87		No text annotation
IL_4V6I_0071/CA/109:113,
1/CA/301:305		No text annotation
geometric
IL_5TBW_121
NA
IL_4V6I_0081/CA/113:116,
1/CA/300:301		Multiple bulged bases
geometric
IL_4V88_392
NA
IL_4V6I_0101/CA/149:152,
1/CA/162:165		No text annotation
homologous
IL_8CRE_401
IL_51479.1
IL_4V6I_2091/CA/178:180,
1/CA/194:196		No text annotation
IL_4V6I_2101/CA/205:226,
1/CA/232:254		No text annotation
IL_4V6I_0121/CA/270:272,
1/CA/284:285		Single stack bend
geometric
IL_7A0S_022
IL_90729.1
IL_4V6I_2111/CA/311:316,
1/CA/348:355		Kink-turn with non-sequential stacking
homologous
IL_8C3A_410
NA
IL_4V6I_2551/CA/364:366,
1/CA/375:380		No text annotation
IL_4V6I_0161/CA/389:391,
1/CA/406:408		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_4V6I_0171/CA/411:413,
1/CA/420:422		Isolated near basepair
homologous
IL_4V88_406
NA
IL_4V6I_0181/CA/439:441,
1/CA/463:464		Single bulged U
geometric
IL_4LFB_014
IL_89505.4
IL_4V6I_0191/CA/443:447,
1/CA/460:461		C-loop
geometric
IL_5J7L_018
IL_03109.3
IL_4V6I_0201/CA/447:448,
1/CA/458:460		Single bulged G
geometric
IL_5J7L_019
IL_00225.13
IL_4V6I_0211/CA/481:482,
1/CA/505:507		Single stack bend
geometric
IL_7KGA_003
IL_90729.1
IL_4V6I_0231/CA/562:568,
1/CA/575:583		Kink-turn related
homologous
IL_4V88_415
NA
IL_4V6I_0241/CA/616:622,
1/CA/1104:1105		No text annotation
homologous
IL_4V88_416
NA
IL_4V6I_0251/CA/624:626,
1/CA/973:975		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_4V6I_0261/CA/627:631,
1/CA/968:972		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_4V6I_2141/CA/648:660,
1/CA/672:683		No text annotation
IL_4V6I_0271/CA/660:663,
1/CA/669:672		Tandem non-canonical cWW pairs
geometric
IL_4WF9_109
NA
IL_4V6I_0281/CA/868:869,
1/CA/958:960		Major groove platform
geometric
IL_7RQB_090
NA
IL_4V6I_0291/CA/871:874,
1/CA/953:956		tSH-tHW
geometric
IL_5UNE_005
IL_85033.2
IL_4V6I_0301/CA/874:878,
1/CA/950:953		Tandem non-canonical cWW pairs
homologous
IL_4V88_431
NA
IL_4V6I_2151/CA/881:884,
1/CA/928:947		No text annotation
IL_4V6I_0311/CA/885:888,
1/CA/924:927		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_4V6I_2161/CA/893:899,
1/CA/910:919		No text annotation
homologous
IL_8P9A_422
IL_57741.1
IL_4V6I_0331/CA/985:990,
1/CA/1014:1016		Other IL
homologous
IL_4V88_435
NA
IL_4V6I_0341/CA/990:994,
1/CA/1010:1014		tSH-tHW-tHS
geometric
IL_4LFB_033
IL_17136.7
IL_4V6I_2181/CA/1034:1036,
1/CA/1095:1101		No text annotation
IL_4V6I_0351/CA/1041:1045,
1/CA/1073:1077		No text annotation
geometric
IL_5TBW_121
NA
IL_4V6I_0361/CA/1051:1053,
1/CA/1066:1067		Single stack bend
geometric
IL_4C7O_002
IL_90729.1
IL_4V6I_2191/CA/1053:1055,
1/CA/1065:1066		Single stack bend
geometric
IL_4LFB_041
IL_90729.1
IL_4V6I_2201/CA/1055:1057,
1/CA/1062:1065		No text annotation
IL_4V6I_0381/CA/1111:1118,
1/CA/1129:1134		No text annotation
IL_4V6I_2561/CA/1146:1147,
1/CA/1630:1632		Single bulged A
homologous
IL_8CRE_443
IL_31462.6
IL_4V6I_2221/CA/1149:1151,
1/CA/1627:1628		Single bulged G
homologous
IL_8P9A_430
IL_00225.13
IL_4V6I_0411/CA/1173:1175,
1/CA/1464:1466		Isolated non-canonical cWW pair
homologous
IL_4V88_444
NA
IL_4V6I_0421/CA/1178:1179,
1/CA/1459:1461		Minor groove platform
homologous
IL_4V88_445
NA
IL_4V6I_0431/CA/1268:1270,
1/CA/1440:1441		Single bulged U
homologous
IL_4V88_449
NA
IL_4V6I_2241/CA/1272:1275,
1/CA/1437:1438		Multiple bulged bases
geometric
IL_1FUF_002
IL_82107.4
IL_4V6I_2251/CA/1276:1278,
1/CA/1430:1436		No text annotation
IL_4V6I_0461/CA/1280:1281,
1/CA/1426:1428		Single bulged A
homologous
IL_4V88_452
NA
IL_4V6I_2261/CA/1290:1292,
1/CA/1323:1325		Isolated non-canonical cWW pair
homologous
IL_8C3A_459
NA
IL_4V6I_2271/CA/1293:1294,
1/CA/1303:1322		No text annotation
IL_4V6I_0481/CA/1333:1334,
1/CA/1417:1419		Multiple bulged bases
geometric
IL_8SP9_001
IL_82107.4
IL_4V6I_0491/CA/1335:1337,
1/CA/1415:1416		Single stack bend
geometric
IL_5VSU_003
IL_26793.1
IL_4V6I_0501/CA/1340:1342,
1/CA/1383:1384		No text annotation
IL_4V6I_0511/CA/1345:1348,
1/CA/1377:1380		No text annotation
IL_4V6I_2281/CA/1351:1354,
1/CA/1369:1374		No text annotation
IL_4V6I_2291/CA/1479:1499,
1/CA/1508:1528		No text annotation
IL_4V6I_0531/CA/1540:1545,
1/CA/1566:1571		No text annotation
homologous
IL_4V88_462
NA
IL_4V6I_0541/CA/1636:1641,
1/CA/1760:1767		No text annotation
IL_4V6I_0551/CA/1642:1644,
1/CA/1757:1759		Isolated non-canonical cWW pair
homologous
IL_4V88_465
NA
IL_4V6I_0561/CA/1644:1647,
1/CA/1753:1757		No text annotation
geometric
IL_7R9F_001
IL_25872.4
IL_4V6I_0571/CA/1649:1652,
1/CA/1748:1751		No text annotation
IL_4V6I_0581/CA/1653:1656,
1/CA/1744:1747		Double sheared
homologous
IL_4V88_468
NA
IL_4V6I_0591/CA/1656:1658,
1/CA/1743:1744		Single stack bend
geometric
IL_5J7L_032
IL_26793.1
IL_4V6I_2311/CA/1665:1667,
1/CA/1734:1736		Isolated non-canonical cWW pair
homologous
IL_8C3A_477
NA
IL_4V6I_0611/CA/1669:1672,
1/CA/1729:1732		Double sheared
homologous
IL_4V88_471
NA
IL_4V6I_0621/CA/1672:1674,
1/CA/1727:1729		Isolated non-canonical cWW pair
geometric
IL_1YZ9_001
NA
IL_4V6I_0631/CA/1675:1678,
1/CA/1723:1726		Tandem non-canonical cWW pairs
geometric
IL_5TBW_129
NA
IL_4V6I_0641/CA/1678:1682,
1/CA/1719:1723		Triple sheared
homologous
IL_4V88_474
NA
IL_4V6I_0651/CA/1688:1690,
1/CA/1711:1713		Other IL
homologous
IL_4V88_476
NA
IL_4V6I_0661/CA/1693:1695,
1/CA/1706:1708		Isolated non-canonical cWW pair
geometric
IL_5TBW_112
NA
IL_4V6I_0671/DA/7:8,
1/DB/150:152		Single stack bend
geometric
IL_7KGA_006
IL_26793.1
IL_4V6I_0681/DA/13:15,
1/DB/144:145		Single stack bend
geometric
IL_7A0S_054
IL_26793.1
IL_4V6I_0691/DA/27:28,
1/DA/56:58		Single stack bend
geometric
IL_4V9F_005
IL_90729.1
IL_4V6I_0711/DA/32:38,
1/DA/45:52		8x7 Sarcin-Ricin; G-bulge
geometric
IL_4V9F_006
IL_04346.10
IL_4V6I_0721/DA/82:89,
1/DA/97:103		No text annotation
homologous
IL_8C3A_006
NA
IL_4V6I_0731/DA/125:127,
1/DA/141:143		Isolated non-canonical cWW pair
homologous
IL_8C3A_008
NA
IL_4V6I_0741/DA/159:160,
1/DA/260:262		No text annotation
IL_4V6I_0751/DA/161:164,
1/DA/257:259		No text annotation
geometric
IL_4N0T_004
IL_99358.1
IL_4V6I_0761/DA/169:170,
1/DA/248:253		No text annotation
IL_4V6I_2321/DA/177:179,
1/DA/237:241		No text annotation
IL_4V6I_0781/DA/185:186,
1/DA/229:231		No text annotation
IL_4V6I_0791/DA/189:191,
1/DA/204:205		Single bulged U
geometric
IL_4V9F_013
IL_89505.4
IL_4V6I_0801/DA/328:332,
1/DB/31:33		Major groove platform with extra cWW
geometric
IL_4V9F_003
IL_51387.2
IL_4V6I_2331/DA/337:339,
1/DB/25:26		Single bulged A
homologous
IL_8C3A_014
NA
IL_4V6I_0821/DA/376:379,
1/DA/390:403		No text annotation
homologous
IL_5TBW_014
NA
IL_4V6I_0831/DA/404:410,
1/DB/13:19		Triple sheared with non-canonical cWW
homologous
IL_5TBW_015
NA
IL_4V6I_0841/DA/429:431,
1/DA/628:630		Isolated non-canonical cWW pair
homologous
IL_5TBW_016
NA
IL_4V6I_2341/DA/445:449,
1/DA/485:489		No text annotation
IL_4V6I_0861/DA/460:462,
1/DA/469:470		Single stack bend
geometric
IL_4WF9_007
IL_90729.1
IL_4V6I_0871/DA/511:512,
1/DA/578:580		No text annotation
IL_4V6I_2351/DA/517:524,
1/DA/568:573		No text annotation
IL_4V6I_0891/DA/531:534,
1/DA/559:561		No text annotation
IL_4V6I_0901/DA/537:538,
1/DA/553:556		No text annotation
IL_4V6I_0911/DA/594:597,
1/DA/606:608		No text annotation
IL_4V6I_0921/DA/668:670,
1/DA/792:794		Isolated non-canonical cWW pair
homologous
IL_8C3A_023
NA
IL_4V6I_0931/DA/679:683,
1/DA/697:701		No text annotation
IL_4V6I_0941/DA/725:726,
1/DA/743:745		Single stack bend
geometric
IL_7KGA_006
IL_26793.1
IL_4V6I_2361/DA/725:728,
1/DA/741:745		No text annotation
IL_4V6I_0951/DA/726:728,
1/DA/741:743		Isolated non-canonical cWW pair
geometric
IL_5UNE_006
IL_87907.2
IL_4V6I_2371/DA/755:756,
1/DA/775:777		Single stack bend
geometric
IL_8C3A_076
NA
IL_4V6I_2381/DA/758:762,
1/DA/769:773		Triple sheared
geometric
IL_4V9F_085
IL_17948.2
IL_4V6I_0981/DA/803:805,
1/DA/938:940		Isolated non-canonical cWW pair
geometric
IL_4E59_001
IL_87907.2
IL_4V6I_0991/DA/805:809,
1/DA/931:938		tHW-tHW cross-strand stack
homologous
IL_5TBW_028
NA
IL_4V6I_1001/DA/833:834,
1/DA/859:861		Single bulged G
geometric
IL_5J7L_262
IL_00225.13
IL_4V6I_1011/DA/834:839,
1/DA/854:859		Triple sheared with non-canonical cWW
geometric
IL_7A0S_018
IL_06136.2
IL_4V6I_1021/DA/869:872,
1/DA/888:890		No text annotation
homologous
IL_8P9A_259
IL_51387.2
IL_4V6I_1031/DA/873:875,
1/DA/886:887		Single bulged U
homologous
IL_8C3A_035
NA
IL_4V6I_1041/DA/907:909,
1/DA/919:923		No text annotation
homologous
IL_8C3A_036
NA
IL_4V6I_1051/DA/954:956,
1/DA/965:967		Isolated non-canonical cWW pair
homologous
IL_8C3A_037
NA
IL_4V6I_1061/DA/969:970,
1/DA/1111:1113		No text annotation
homologous
IL_8C3A_038
NA
IL_4V6I_1081/DA/982:984,
1/DA/1100:1104		No text annotation
IL_4V6I_1091/DA/988:990,
1/DA/1061:1063		Stack and bulge
geometric
IL_2ET8_001
IL_31737.3
IL_4V6I_1101/DA/991:998,
1/DA/1052:1060		No text annotation
IL_4V6I_1111/DA/999:1001,
1/DA/1050:1051		Single stack bend
geometric
IL_5TBW_375
NA
IL_4V6I_1121/DA/1001:1010,
1/DA/1042:1050		No text annotation
IL_4V6I_1131/DA/1010:1013,
1/DA/1039:1042		Double sheared
geometric
IL_4ZNP_002
IL_09705.15
IL_4V6I_1141/DA/1013:1020,
1/DA/1034:1039		No text annotation
IL_4V6I_1151/DA/1067:1071,
1/DA/1089:1093		No text annotation
geometric
IL_5TBW_121
NA
IL_4V6I_1161/DA/1072:1076,
1/DA/1083:1088		No text annotation
IL_4V6I_1171/DA/1120:1122,
1/DA/1136:1138		Isolated non-canonical cWW pair
homologous
IL_8C3A_049
NA
IL_4V6I_1181/DA/1167:1171,
1/DA/1328:1332		UAA/GAN
homologous
IL_8C3A_051
NA
IL_4V6I_1191/DA/1173:1180,
1/DA/1325:1326		SSU/LSU pseudoknot
geometric
IL_4V9F_038
IL_41203.4
IL_4V6I_1201/DA/1180:1182,
1/DA/1324:1325		Single bulged U
homologous
IL_8C3A_053
NA
IL_4V6I_1211/DA/1187:1206,
1/DA/1298:1319		No text annotation
IL_4V6I_2391/DA/1187:1210,
1/DA/1295:1319		No text annotation
IL_4V6I_1221/DA/1207:1210,
1/DA/1295:1297		Isolated non-canonical cWW pair
geometric
IL_3TD0_002
IL_57744.1
IL_4V6I_1231/DA/1218:1226,
1/DA/1283:1287		Kink-turn
homologous
IL_5TBW_054
NA
IL_4V6I_1241/DA/1234:1238,
1/DA/1250:1254		No text annotation
IL_4V6I_1251/DA/1262:1266,
1/DA/1275:1277		Major groove platform with extra cWW
homologous
IL_8C3A_059
NA
IL_4V6I_1261/DA/1376:1378,
1/DA/1428:1431		No text annotation
homologous
IL_8C3A_061
NA
IL_4V6I_1271/DA/1388:1394,
1/DA/1415:1419		Kink-turn
homologous
IL_8C3A_063
NA
IL_4V6I_1281/DA/1394:1396,
1/DA/1413:1415		Isolated non-canonical cWW pair
geometric
IL_1MFQ_003
IL_87907.2
IL_4V6I_2401/DA/1444:1450,
1/DA/2354:2359		7x6 Sarcin-Ricin; G-bulge
homologous
IL_8P9A_289
IL_26307.2
IL_4V6I_1321/DA/1492:1495,
1/DA/1835:1836		Major groove platform; stack outside cWW
geometric
IL_7RQB_050
NA
IL_4V6I_1331/DA/1501:1505,
1/DA/1513:1515		C-loop
geometric
IL_7RQB_104
NA
IL_4V6I_1341/DA/1532:1536,
1/DA/1585:1590		UAA/GAN
homologous
IL_5TBW_063
NA
IL_4V6I_1351/DA/1624:1630,
1/DA/1811:1820		No text annotation
IL_4V6I_1361/DA/1645:1649,
1/DA/1806:1810		Triple sheared
homologous
IL_5TBW_067
NA
IL_4V6I_1371/DA/1661:1663,
1/DA/1786:1788		Isolated non-canonical cWW pair
geometric
IL_5ZTM_001
IL_57744.1
IL_4V6I_2571/DA/1667:1671,
1/DA/1776:1782		No text annotation
IL_4V6I_1391/DA/1695:1698,
1/DA/1748:1752		No text annotation
geometric
IL_7RQB_046
NA
IL_4V6I_2421/DA/1695:1707,
1/DA/1739:1752		No text annotation
IL_4V6I_1401/DA/1698:1707,
1/DA/1739:1748		No text annotation
IL_4V6I_2431/DA/1711:1717,
1/DA/1727:1735		No text annotation
IL_4V6I_1431/DA/1883:1889,
1/DA/2346:2349		No text annotation
homologous
IL_5TBW_074
NA
IL_4V6I_1441/DA/1895:1897,
1/DA/2338:2340		No text annotation
homologous
IL_8C3A_081
NA
IL_4V6I_1451/DA/1898:1901,
1/DA/2336:2337		Major groove platform; stack outside cWW
geometric
IL_4WF9_064
IL_50694.7
IL_4V6I_2441/DA/1898:1906,
1/DA/2333:2337		No text annotation
homologous
IL_8C3A_484
NA
IL_4V6I_1461/DA/1901:1906,
1/DA/2333:2336		No text annotation
homologous
IL_8C3A_083
NA
IL_4V6I_1471/DA/1918:1923,
1/DA/1928:1934		tSH-tSH-tHH-tHS
geometric
IL_4V9F_063
IL_47346.2
IL_4V6I_1481/DA/1940:1942,
1/DA/2106:2108		Isolated non-canonical cWW pair
homologous
IL_8C3A_085
NA
IL_4V6I_1491/DA/1947:1948,
1/DA/2098:2101		No text annotation
IL_4V6I_2451/DA/1952:1954,
1/DA/2087:2094		No text annotation
IL_4V6I_1501/DA/1965:1968,
1/DA/2054:2057		No text annotation
IL_4V6I_1511/DA/1971:1976,
1/DA/2046:2051		No text annotation
IL_4V6I_1521/DA/1981:1982,
1/DA/2039:2041		Single stack bend
geometric
IL_4WF9_007
IL_90729.1
IL_4V6I_1531/DA/1988:1991,
1/DA/2030:2033		Tandem non-canonical cWW pairs
geometric
IL_5EW4_001
IL_43644.1
IL_4V6I_1541/DA/1994:1996,
1/DA/2025:2027		Isolated non-canonical cWW pair
geometric
IL_7A0S_107
IL_07785.1
IL_4V6I_2471/DA/2128:2129,
1/DA/2323:2325		Single bulged A
homologous
IL_8P9A_310
IL_31462.6
IL_4V6I_1561/DA/2156:2162,
1/DA/2172:2180		Kink-turn related
geometric
IL_7RQB_070
NA
IL_4V6I_1571/DA/2196:2199,
1/DA/2245:2246		Major groove intercalation
homologous
IL_5TBW_084
NA
IL_4V6I_1581/DA/2200:2201,
1/DA/2241:2244		Major groove intercalation
homologous
IL_5TBW_085
NA
IL_4V6I_1591/DA/2204:2206,
1/DA/2237:2238		Single stack bend
geometric
IL_4V9F_081
IL_26793.1
IL_4V6I_2481/DA/2206:2209,
1/DA/2236:2237		Minor groove platform, major groove intercalation
geometric
IL_1U9S_005
IL_95583.2
IL_4V6I_1611/DA/2211:2217,
1/DA/2228:2234		No text annotation
homologous
IL_5TBW_088
NA
IL_4V6I_1621/DA/2276:2277,
1/DA/2307:2310		Bulged stacked bases
geometric
IL_4V9F_070
IL_22551.4
IL_4V6I_1631/DA/2277:2288,
1/DA/2304:2307		No text annotation
homologous
IL_5TBW_090
NA
IL_4V6I_1641/DA/2391:2394,
1/DA/2986:2988		No text annotation
homologous
IL_8C3A_096
NA
IL_4V6I_1651/DA/2396:2398,
1/DA/2981:2984		Major groove platform with intercalation
homologous
IL_5TBW_092
NA
IL_4V6I_1661/DA/2409:2411,
1/DA/2811:2812		Single bulged U
homologous
IL_8C3A_098
NA
IL_4V6I_1671/DA/2412:2413,
1/DA/2807:2810		Minor groove platform
homologous
IL_8C3A_099
NA
IL_4V6I_1681/DA/2423:2425,
1/DA/2604:2607		Isolated tHS basepair with bulges
homologous
IL_5TBW_095
NA
IL_4V6I_1691/DA/2444:2445,
1/DA/2501:2503		No text annotation
IL_4V6I_1701/DA/2451:2462,
1/DA/2493:2495		No text annotation
IL_4V6I_1711/DA/2466:2469,
1/DA/2476:2489		No text annotation
IL_4V6I_2491/DA/2520:2526,
1/DA/2584:2587		No text annotation
IL_4V6I_1721/DA/2666:2668,
1/DA/2686:2690		Isolated tHS basepair with bulges
homologous
IL_5TBW_099
NA
IL_4V6I_1731/DA/2718:2721,
1/DA/2735:2738		No text annotation
IL_4V6I_1751/DA/2823:2824,
1/DA/2865:2867		Major groove platform
geometric
IL_4V9F_082
IL_48076.6
IL_4V6I_1761/DA/2824:2826,
1/DA/2863:2865		Isolated non-canonical cWW pair
homologous
IL_5TBW_103
NA
IL_4V6I_1771/DA/2826:2828,
1/DA/2862:2863		Major groove platform
geometric
IL_4V9F_083
IL_07039.3
IL_4V6I_2501/DA/2828:2830,
1/DA/2858:2862		Major groove minor groove platform with extra cWW
homologous
IL_8C3A_113
NA
IL_4V6I_1791/DA/2835:2839,
1/DA/2849:2853		Triple sheared
homologous
IL_5TBW_106
NA
IL_4V6I_1801/DA/2876:2877,
1/DA/2949:2951		Major groove platform
homologous
IL_8C3A_115
NA
IL_4V6I_1811/DA/2879:2881,
1/DA/2943:2947		Isolated non-canonical cWW pair
geometric
IL_4V9F_087
IL_07785.1
IL_4V6I_1821/DA/2881:2882,
1/DA/2940:2943		No text annotation
homologous
IL_8C3A_117
NA
IL_4V6I_1841/DA/2891:2892,
1/DA/2909:2912		Major groove platform with intercalation
homologous
IL_5TBW_111
NA
IL_4V6I_1851/DA/2918:2920,
1/DA/2926:2928		Isolated non-canonical cWW pair
homologous
IL_8C3A_120
NA
IL_4V6I_1861/DA/2960:2961,
1/DA/2970:2972		Single bulged A
geometric
IL_5TBW_372
NA
IL_4V6I_1871/DA/3003:3007,
1/DA/3139:3145		No text annotation
IL_4V6I_1881/DA/3012:3014,
1/DA/3040:3042		Isolated non-canonical cWW pair
homologous
IL_8C3A_124
NA
IL_4V6I_1891/DA/3019:3025,
1/DA/3030:3035		Sarcin-Ricin target in LSU H95; G-bulge
geometric
IL_4V9F_092
IL_26307.2
IL_4V6I_1901/DA/3047:3051,
1/DA/3091:3094		Major groove minor groove platform with tHH
homologous
IL_5TBW_117
NA
IL_4V6I_2511/DA/3054:3058,
1/DA/3085:3088		No text annotation
IL_4V6I_1931/DA/3103:3107,
1/DA/3127:3131		UAA/GAN
homologous
IL_8C3A_129
NA
IL_4V6I_1941/DA/3164:3166,
1/DA/3284:3286		Isolated non-canonical cWW pair
homologous
IL_8C3A_130
NA
IL_4V6I_1951/DA/3211:3214,
1/DA/3219:3224		No text annotation
IL_4V6I_1961/DA/3233:3235,
1/DA/3253:3254		No text annotation
IL_4V6I_1971/DA/3236:3238,
1/DA/3249:3252		No text annotation
geometric
IL_4N0T_004
IL_99358.1
IL_4V6I_1981/DA/3300:3303,
1/DA/3311:3314		Tandem non-canonical cWW pairs
geometric
IL_1D4R_003
IL_85033.2
IL_4V6I_1991/DA/3324:3325,
1/DA/3381:3383		Single stack bend
geometric
IL_5TBW_035
NA
IL_4V6I_2011/DA/3332:3337,
1/DA/3367:3371		tHS double platform
geometric
IL_4WF9_108
IL_70411.2
IL_4V6I_2021/DA/3340:3345,
1/DA/3360:3364		No text annotation
IL_4V6I_2041/DC/20:27,
1/DC/52:58		No text annotation
IL_4V6I_2541/DC/28:30,
1/DC/47:51		No text annotation
homologous
IL_4WF9_114
NA
IL_4V6I_2061/DC/32:36,
1/DC/41:45		Symmetric double minor groove platform
homologous
IL_4V9F_104
IL_58103.11
IL_4V6I_2071/DC/70:78,
1/DC/97:103		No text annotation

Problematic loops

#loop idProblemSequence
IL_4V6I_003No text annotation
IL_4V6I_208No text annotation
IL_4V6I_009No text annotation
IL_4V6I_011Tandem non-canonical cWW pairs
IL_4V6I_013No text annotation
IL_4V6I_014No text annotation
IL_4V6I_015No text annotation
IL_4V6I_212Tandem non-canonical cWW pairs
IL_4V6I_022Decoding loop related
IL_4V6I_213tSH-tHW-tHS-cWW
IL_4V6I_032No text annotation
IL_4V6I_217No text annotation
IL_4V6I_037No text annotation
IL_4V6I_221Tandem non-canonical cWW pairs
IL_4V6I_039No text annotation
IL_4V6I_040No text annotation
IL_4V6I_223Tandem non-canonical cWW pairs
IL_4V6I_044Isolated non-canonical cWW with bulges
IL_4V6I_045No text annotation
IL_4V6I_047Tandem non-canonical cWW pairs
IL_4V6I_052No text annotation
IL_4V6I_230No text annotation
IL_4V6I_060Tandem non-canonical cWW pairs
IL_4V6I_070Not an internal loop
IL_4V6I_077No text annotation
IL_4V6I_081Isolated non-canonical cWW pair
IL_4V6I_085No text annotation
IL_4V6I_088No text annotation
IL_4V6I_096No text annotation
IL_4V6I_097No text annotation
IL_4V6I_107No text annotation
IL_4V6I_129Isolated non-canonical cWW pair
IL_4V6I_130Isolated cWH basepair
IL_4V6I_1318x7 Sarcin-Ricin with CC bifurcated pair; G-bulge
IL_4V6I_138No text annotation
IL_4V6I_241No text annotation
IL_4V6I_141Tandem non-canonical cWW pairs
IL_4V6I_142No text annotation
IL_4V6I_246Tandem non-canonical cWW pairs
IL_4V6I_155Other IL
IL_4V6I_160No text annotation
IL_4V6I_174Single stack bend with bulge
IL_4V6I_178No text annotation
IL_4V6I_183Not an internal loop
IL_4V6I_191No text annotation
IL_4V6I_192No text annotation
IL_4V6I_200No text annotation
IL_4V6I_203No text annotation
IL_4V6I_252No text annotation
IL_4V6I_253Double sheared
IL_4V6I_205No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4V6I_0011/CA/41:42,
1/CA/433:439,
1/CA/464:466		No text annotation
homologous
J3_8C3A_082
NA
J3_4V6I_0021/CA/881:884,
1/CA/928:937,
1/CA/942:947		No text annotation
homologous
J3_8P9A_074
J3_76375.1
J3_4V6I_0401/CA/1157:1164,
1/CA/1581:1587,
1/CA/1609:1621		No text annotation
J3_4V6I_0041/CA/1161:1164,
1/CA/1581:1587,
1/CA/1609:1616		No text annotation
homologous
J3_8P9A_076
J3_25303.4
J3_4V6I_0051/CA/1168:1171,
1/CA/1468:1470,
1/CA/1574:1577		No text annotation
homologous
J3_4V88_036
NA
J3_4V6I_0411/CA/1283:1288,
1/CA/1327:1333,
1/CA/1419:1424		No text annotation
J3_4V6I_0081/CA/1293:1294,
1/CA/1303:1308,
1/CA/1317:1322		No text annotation
J3_4V6I_0101/CA/1470:1474,
1/CA/1533:1540,
1/CA/1571:1574		No text annotation
homologous
J3_8C3A_044
NA
J3_4V6I_0111/DA/186:189,
1/DA/205:214,
1/DA/226:229		No text annotation
J3_4V6I_0311/DA/340:356,
1/DA/363:368,
1/DB/21:24		No text annotation
homologous
J3_8P9A_045
J3_30040.2
J3_4V6I_0121/DA/369:376,
1/DA/403:404,
1/DB/19:20		No text annotation
homologous
J3_5TBW_002
NA
J3_4V6I_0321/DA/369:379,
1/DA/390:404,
1/DB/19:20		No text annotation
homologous
J3_8C3A_049
NA
J3_4V6I_0331/DA/436:441,
1/DA/493:495,
1/DA/618:623		No text annotation
J3_4V6I_0341/DA/501:503,
1/DA/588:593,
1/DA/609:612		No text annotation
J3_4V6I_0131/DA/814:820,
1/DA/905:907,
1/DA/923:926		No text annotation
homologous
J3_8C3A_003
NA
J3_4V6I_0141/DA/828:831,
1/DA/863:867,
1/DA/892:897		No text annotation
homologous
J3_5TBW_005
NA
J3_4V6I_0351/DA/982:987,
1/DA/1064:1067,
1/DA/1093:1104		No text annotation
J3_4V6I_0161/DA/1230:1232,
1/DA/1256:1262,
1/DA/1277:1279		No text annotation
homologous
J3_8C3A_005
NA
J3_4V6I_0171/DA/1479:1485,
1/DA/1857:1860,
1/DA/1870:1874		No text annotation
geometric
J3_4V9F_005
J3_32852.6
J3_4V6I_0181/DA/1488:1491,
1/DA/1837:1843,
1/DA/1852:1854		No text annotation
J3_4V6I_0191/DA/1526:1531,
1/DA/1591:1595,
1/DA/1612:1613		No text annotation
homologous
J3_5TBW_010
NA
J3_4V6I_0361/DA/1654:1658,
1/DA/1791:1792,
1/DA/1796:1801		No text annotation
homologous
J3_8C3A_055
NA
J3_4V6I_0371/DA/1961:1963,
1/DA/2059:2061,
1/DA/2075:2080		No text annotation
J3_4V6I_0381/DA/2432:2435,
1/DA/2512:2516,
1/DA/2591:2597		No text annotation
geometric
J3_4V9F_007
J3_97609.1
J3_4V6I_0241/DA/2651:2653,
1/DA/2754:2765,
1/DA/2793:2798		No text annotation
homologous
J3_8C3A_056
NA
J3_4V6I_0251/DA/2664:2666,
1/DA/2690:2692,
1/DA/2701:2706		No text annotation
homologous
J3_5TBW_013
NA
J3_4V6I_0261/DA/2886:2889,
1/DA/2914:2916,
1/DA/2930:2936		No text annotation
homologous
J3_5TBW_014
NA
J3_4V6I_0391/DA/3168:3211,
1/DA/3224:3229,
1/DA/3258:3282		No text annotation
J3_4V6I_0271/DA/3299:3300,
1/DA/3314:3320,
1/DA/3387:3389		No text annotation
J3_4V6I_0281/DC/9:14,
1/DC/64:66,
1/DC/107:109		No text annotation
J4_4V6I_0011/CA/31:37,
1/CA/471:479,
1/CA/509:546,
1/CA/592:595		No text annotation
J4_4V6I_0021/CA/31:41,
1/CA/466:479,
1/CA/509:546,
1/CA/592:595		No text annotation
J4_4V6I_0031/CA/99:107,
1/CA/307:309,
1/CA/357:361,
1/CA/383:384		No text annotation
J4_4V6I_0041/CA/622:624,
1/CA/975:980,
1/CA/1021:1032,
1/CA/1103:1104		No text annotation
homologous
J4_8P9A_022
J4_61885.6
J4_4V6I_0051/CB/7:10,
1/CB/25:27,
1/CB/43:48,
1/CB/64:65		No text annotation
homologous
J4_5J8B_014
NA
J4_4V6I_0061/DA/1451:1457,
1/DA/1475:1476,
1/DA/1877:1880,
1/DA/2352:2353		No text annotation
J4_4V6I_0071/DA/1492:1496,
1/DA/1520:1525,
1/DA/1614:1615,
1/DA/1829:1836		No text annotation
J4_4V6I_0081/DA/1495:1496,
1/DA/1520:1525,
1/DA/1614:1615,
1/DA/1829:1835		No text annotation
J4_4V6I_0091/DA/1674:1675,
1/DA/1693:1694,
1/DA/1753:1754,
1/DA/1771:1773		No text annotation
J4_4V6I_0101/DA/2130:2134,
1/DA/2146:2150,
1/DA/2186:2190,
1/DA/2317:2322		No text annotation
homologous
J4_8C3A_006
NA
J4_4V6I_0111/DA/2192:2194,
1/DA/2248:2249,
1/DA/2267:2276,
1/DA/2310:2315		No text annotation
homologous
J4_8P9A_018
J4_93343.1
J4_4V6I_0121/DA/2653:2658,
1/DA/2712:2716,
1/DA/2740:2742,
1/DA/2751:2754		No text annotation
J4_4V6I_0131/DA/3010:3012,
1/DA/3042:3043,
1/DA/3098:3100,
1/DA/3134:3136		No text annotation
homologous
J4_8C3A_009
NA
J5_4V6I_0071/CA/54:57,
1/CA/90:97,
1/CA/386:388,
1/CA/409:413,
1/CA/420:426		No text annotation
J5_4V6I_0021/DA/20:22,
1/DB/35:42,
1/DB/102:107,
1/DB/115:116,
1/DB/137:139		No text annotation
homologous
J5_8P9A_010
J5_01737.2
J5_4V6I_0031/DA/658:663,
1/DA/799:802,
1/DA/941:944,
1/DA/1375:1376,
1/DA/1431:1437		No text annotation
J5_4V6I_0041/DA/1906:1914,
1/DA/1938:1939,
1/DA/2109:2110,
1/DA/2114:2122,
1/DA/2331:2333		No text annotation
J5_4V6I_0051/DA/2399:2406,
1/DA/2815:2823,
1/DA/2867:2875,
1/DA/2952:2957,
1/DA/2975:2980		No text annotation
J5_4V6I_0061/DA/2416:2419,
1/DA/2611:2615,
1/DA/2625:2628,
1/DA/2650:2651,
1/DA/2798:2804		No text annotation
J6_4V6I_0011/DA/23:27,
1/DA/58:68,
1/DA/75:79,
1/DA/106:110,
1/DA/321:328,
1/DB/33:34		No text annotation
J7_4V6I_0021/DA/949:954,
1/DA/967:968,
1/DA/1114:1117,
1/DA/1141:1146,
1/DA/1157:1161,
1/DA/1338:1339,
1/DA/1365:1370		No text annotation

Problematic loops

#loop idProblemSequence
J3_4V6I_003No text annotation
J3_4V6I_029No text annotation
J3_4V6I_006No text annotation
J3_4V6I_007No text annotation
J3_4V6I_030No text annotation
J3_4V6I_009No text annotation
J3_4V6I_015No text annotation
J3_4V6I_020No text annotation
J3_4V6I_021No text annotation
J3_4V6I_022No text annotation
J3_4V6I_023No text annotation
J5_4V6I_001No text annotation
J7_4V6I_001No text annotation

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