RNA 3D Hub //

4V92 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4V92_0011/A2/7:17No text annotation
homologous
HL_4V88_186
NA
HL_4V92_0021/A2/70:81No text annotation
homologous
HL_4V88_187
NA
HL_4V92_0031/A2/154:160GNRA related
homologous
HL_4V88_188
NA
HL_4V92_0501/A2/186:199No text annotation
HL_4V92_0041/A2/190:195No text annotation
geometric
HL_5TBW_002
NA
HL_4V92_0051/A2/230:235No text annotation
homologous
HL_8C3A_196
NA
HL_4V92_0061/A2/243:250T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_4V92_0071/A2/275:281Single bulged U
homologous
IL_4V88_401
NA
HL_4V92_0081/A2/330:338GNRA related
homologous
HL_4V88_193
NA
HL_4V92_0091/A2/367:374No text annotation
geometric
HL_8C3A_054
NA
HL_4V92_0101/A2/393:404No text annotation
homologous
HL_4V88_195
NA
HL_4V92_0111/A2/414:419UNCG
homologous
HL_4V88_196
NA
HL_4V92_0121/A2/450:456No text annotation
homologous
HL_4V88_197
NA
HL_4V92_0431/A2/485:502No text annotation
HL_4V92_0131/A2/486:501No text annotation
HL_4V92_0141/A2/520:532No text annotation
homologous
HL_4V88_199
NA
HL_4V92_0151/A2/569:574GNRA variation
homologous
HL_4V88_200
NA
HL_4V92_0161/A2/651:683No text annotation
HL_4V92_0171/A2/703:735No text annotation
HL_4V92_0181/A2/764:772No text annotation
homologous
HL_4V88_203
NA
HL_4V92_0191/A2/777:783No text annotation
geometric
HL_4V9F_003
HL_75660.5
HL_4V92_0201/A2/829:843Pseudoknot geometry
homologous
HL_4V88_205
NA
HL_4V92_0511/A2/900:909No text annotation
homologous
HL_8P9A_209
HL_75293.5
HL_4V92_0221/A2/937:942GNRA
homologous
HL_4V88_207
NA
HL_4V92_0231/A2/997:1007No text annotation
homologous
HL_4V88_208
NA
HL_4V92_0241/A2/1055:1064No text annotation
HL_4V92_0251/A2/1084:1089GNRA
homologous
HL_4V88_210
NA
HL_4V92_0261/A2/1121:1126GNRA
homologous
HL_4V88_211
NA
HL_4V92_0271/A2/1188:1197No text annotation
homologous
HL_4V88_212
NA
HL_4V92_0521/A2/1238:1247No text annotation
homologous
HL_8P9A_216
HL_81538.2
HL_4V92_0291/A2/1295:1302No text annotation
geometric
HL_5ID6_001
HL_69752.2
HL_4V92_0301/A2/1309:1316No text annotation
homologous
HL_4V88_215
NA
HL_4V92_0311/A2/1359:1364No text annotation
homologous
HL_4V88_216
NA
HL_4V92_0321/A2/1396:1402GNRA
homologous
HL_4V88_217
NA
HL_4V92_0331/A2/1501:1506GNRA
homologous
HL_4V88_218
NA
HL_4V92_0491/A2/1550:1561No text annotation
homologous
HL_8C3A_224
NA
HL_4V92_0531/A2/1594:1602No text annotation
homologous
HL_8P9A_223
NA
HL_4V92_0361/A2/1690:1711No text annotation
geometric
HL_5NFV_001
HL_69752.2
HL_4V92_0371/A2/1778:1783GNRA variation
homologous
HL_4V88_222
NA
HL_4V92_0541/AZ/6045:6072No text annotation
HL_4V92_0391/AZ/6105:6110No text annotation
HL_4V92_0401/AZ/6135:6143No text annotation
HL_4V92_0411/AZ/6180:6196No text annotation

Problematic loops

#loop idProblemSequence
HL_4V92_042No text annotation
HL_4V92_021No text annotation
HL_4V92_044No text annotation
HL_4V92_045GNRA with near cWW
HL_4V92_046No text annotation
HL_4V92_047No text annotation
HL_4V92_028No text annotation
HL_4V92_048No text annotation
HL_4V92_034No text annotation
HL_4V92_035No text annotation
HL_4V92_038No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4V92_0011/A2/24:26,
1/A2/600:601		Single bulged C
homologous
IL_4V88_384
NA
IL_4V92_0031/A2/35:37,
1/A2/471:473		Isolated non-canonical cWW pair
homologous
IL_4V88_385
NA
IL_4V92_0041/A2/37:41,
1/A2/466:471		Triple sheared related
geometric
IL_4V88_386
NA
IL_4V92_0051/A2/50:53,
1/A2/427:429		Minor groove platform with extra cWW
geometric
IL_7RQB_031
NA
IL_4V92_1231/A2/58:63,
1/A2/87:89		No text annotation
homologous
IL_8CRE_395
IL_61299.4
IL_4V92_0071/A2/64:69,
1/A2/82:86		No text annotation
homologous
IL_8C3A_398
NA
IL_4V92_0081/A2/109:112,
1/A2/302:305		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_4V92_1021/A2/113:116,
1/A2/300:301		Multiple bulged bases
homologous
IL_8P9A_381
IL_82107.4
IL_4V92_0101/A2/117:122,
1/A2/295:299		No text annotation
homologous
IL_4V88_393
NA
IL_4V92_0111/A2/143:149,
1/A2/165:172		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_4V92_1241/A2/150:152,
1/A2/162:164		No text annotation
homologous
IL_8P9A_384
IL_44465.1
IL_4V92_0131/A2/184:190,
1/A2/195:201		No text annotation
IL_4V92_0141/A2/204:206,
1/A2/259:263		Major groove platform with extra cWW
geometric
IL_4V88_397
NA
IL_4V92_1251/A2/204:208,
1/A2/257:263		No text annotation
IL_4V92_0151/A2/206:208,
1/A2/257:259		Isolated non-canonical cWW pair
homologous
IL_4V88_398
NA
IL_4V92_0171/A2/265:267,
1/A2/288:289		Single bulged A
homologous
IL_4V88_399
NA
IL_4V92_0181/A2/270:273,
1/A2/283:285		No text annotation
homologous
IL_4V88_400
NA
IL_4V92_1261/A2/311:316,
1/A2/348:355		Kink-turn with non-sequential stacking
homologous
IL_8P9A_391
IL_46174.3
IL_4V92_1271/A2/318:323,
1/A2/345:346		No text annotation
homologous
IL_8CRE_409
IL_99380.1
IL_4V92_0211/A2/363:365,
1/A2/376:381		No text annotation
homologous
IL_4V88_404
NA
IL_4V92_0221/A2/389:391,
1/A2/406:408		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_4V92_0231/A2/411:413,
1/A2/420:422		Isolated near basepair
homologous
IL_4V88_406
NA
IL_4V92_0241/A2/443:447,
1/A2/460:461		C-loop
geometric
IL_4LFB_015
IL_03109.3
IL_4V92_0251/A2/447:448,
1/A2/458:460		Single bulged G
geometric
IL_5J7L_019
IL_00225.13
IL_4V92_0261/A2/479:483,
1/A2/504:509		No text annotation
IL_4V92_0281/A2/517:518,
1/A2/533:535		Minor groove platform
geometric
IL_4V88_388
NA
IL_4V92_0291/A2/518:520,
1/A2/532:533		Minor groove platform
geometric
IL_4V88_388
NA
IL_4V92_0301/A2/550:557,
1/A2/587:588		SSU/LSU pseudoknot
geometric
IL_4V88_413
NA
IL_4V92_0311/A2/557:559,
1/A2/586:587		Single bulged U
homologous
IL_4V88_414
NA
IL_4V92_0321/A2/562:568,
1/A2/575:583		Kink-turn related
homologous
IL_4V88_415
NA
IL_4V92_0331/A2/616:622,
1/A2/1104:1105		No text annotation
homologous
IL_4V88_416
NA
IL_4V92_0341/A2/624:626,
1/A2/973:975		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_4V92_1061/A2/624:632,
1/A2/967:975		No text annotation
IL_4V92_0351/A2/627:632,
1/A2/967:972		No text annotation
IL_4V92_0361/A2/646:648,
1/A2/686:688		Isolated non-canonical cWW pair
geometric
IL_5UNE_007
IL_87907.2
IL_4V92_0391/A2/746:747,
1/A2/802:805		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_4V92_0401/A2/748:750,
1/A2/799:801		Isolated non-canonical cWW pair
homologous
IL_4V88_424
NA
IL_4V92_1081/A2/751:759,
1/A2/791:798		No text annotation
homologous
IL_8C3A_503
NA
IL_4V92_0431/A2/865:866,
1/A2/962:965		Major groove platform; stack outside cWW
homologous
IL_4V88_428
NA
IL_4V92_0441/A2/868:870,
1/A2/957:960		Isolated non-canonical cWW pair
geometric
IL_1YZ9_001
NA
IL_4V92_0451/A2/871:874,
1/A2/953:956		Tandem non-canonical cWW pairs
homologous
IL_4V88_430
NA
IL_4V92_0461/A2/874:878,
1/A2/950:953		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_4V92_0471/A2/885:889,
1/A2/923:927		No text annotation
IL_4V92_1101/A2/886:890,
1/A2/922:926		Triple non-canonical cWW pairs
geometric
IL_4LFB_065
IL_49751.4
IL_4V92_1111/A2/892:899,
1/A2/910:920		No text annotation
IL_4V92_0491/A2/985:990,
1/A2/1014:1016		Other IL
geometric
IL_4V88_435
NA
IL_4V92_0501/A2/990:994,
1/A2/1010:1014		tSH-tHW-tHS
homologous
IL_4V88_436
NA
IL_4V92_0511/A2/1034:1036,
1/A2/1095:1101		Not an internal loop
geometric
IL_5VCI_005
NA
IL_4V92_0521/A2/1041:1044,
1/A2/1074:1077		Tandem non-canonical cWW pairs
homologous
IL_4V88_438
NA
IL_4V92_0531/A2/1051:1053,
1/A2/1066:1067		Single bulged U
geometric
IL_4V88_439
NA
IL_4V92_0551/A2/1111:1118,
1/A2/1129:1134		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_4V92_0561/A2/1156:1160,
1/A2/1617:1622		No text annotation
IL_4V92_1121/A2/1173:1175,
1/A2/1464:1466		Isolated non-canonical cWW pair
homologous
IL_8P9A_432
IL_87907.2
IL_4V92_0581/A2/1178:1179,
1/A2/1459:1461		Minor groove platform
homologous
IL_4V88_445
NA
IL_4V92_0601/A2/1224:1230,
1/A2/1257:1259		No text annotation
IL_4V92_1131/A2/1224:1237,
1/A2/1248:1259		No text annotation
IL_4V92_0611/A2/1230:1234,
1/A2/1251:1257		No text annotation
IL_4V92_1141/A2/1230:1237,
1/A2/1248:1257		No text annotation
IL_4V92_0621/A2/1234:1237,
1/A2/1248:1251		No text annotation
IL_4V92_0631/A2/1268:1270,
1/A2/1440:1441		Single bulged U
homologous
IL_4V88_449
NA
IL_4V92_1281/A2/1272:1278,
1/A2/1430:1438		No text annotation
homologous
IL_8P9A_439
IL_86012.1
IL_4V92_0661/A2/1280:1281,
1/A2/1426:1428		Single bulged A
homologous
IL_4V88_452
NA
IL_4V92_0671/A2/1290:1292,
1/A2/1323:1325		Isolated non-canonical cWW pair
geometric
IL_5UNE_007
IL_87907.2
IL_4V92_1291/A2/1293:1308,
1/A2/1317:1322		No text annotation
IL_4V92_0681/A2/1306:1308,
1/A2/1317:1318		Minor groove platform
geometric
IL_6DLR_003
IL_51454.3
IL_4V92_0691/A2/1339:1342,
1/A2/1383:1385		Isolated non-canonical cWW pair
geometric
IL_4V88_455
NA
IL_4V92_1301/A2/1345:1349,
1/A2/1376:1380		No text annotation
homologous
IL_8CRE_459
NA
IL_4V92_0731/A2/1352:1354,
1/A2/1369:1373		Isolated non-canonical cWW pair
homologous
IL_4V88_457
NA
IL_4V92_0761/A2/1488:1494,
1/A2/1513:1518		180 degree turn
homologous
IL_4V88_460
NA
IL_4V92_1311/A2/1495:1498,
1/A2/1509:1512		No text annotation
homologous
IL_8P9A_450
IL_77658.1
IL_4V92_0781/A2/1540:1546,
1/A2/1565:1571		No text annotation
homologous
IL_8C3A_469
NA
IL_4V92_1321/A2/1540:1547,
1/A2/1564:1571		No text annotation
IL_4V92_0811/A2/1636:1638,
1/A2/1764:1767		No text annotation
homologous
IL_4V88_463
NA
IL_4V92_0821/A2/1638:1641,
1/A2/1760:1764		No text annotation
geometric
IL_4V88_464
NA
IL_4V92_0831/A2/1642:1644,
1/A2/1757:1759		Isolated non-canonical cWW pair
homologous
IL_4V88_465
NA
IL_4V92_1191/A2/1644:1647,
1/A2/1753:1757		No text annotation
homologous
IL_8CRE_469
IL_11399.2
IL_4V92_1201/A2/1650:1652,
1/A2/1748:1750		Isolated non-canonical cWW pair
homologous
IL_8P9A_456
IL_87907.2
IL_4V92_0861/A2/1653:1656,
1/A2/1744:1747		Double sheared
homologous
IL_4V88_468
NA
IL_4V92_0871/A2/1656:1658,
1/A2/1743:1744		Single bulged U
homologous
IL_4V88_469
NA
IL_4V92_0891/A2/1665:1667,
1/A2/1734:1736		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_4V92_0901/A2/1669:1672,
1/A2/1729:1732		Double sheared
geometric
IL_4V88_471
NA
IL_4V92_0911/A2/1672:1674,
1/A2/1727:1729		Isolated non-canonical cWW pair
homologous
IL_4V88_472
NA
IL_4V92_0921/A2/1675:1678,
1/A2/1723:1726		Tandem non-canonical cWW pairs
geometric
IL_4EYA_003
IL_77658.1
IL_4V92_0931/A2/1678:1683,
1/A2/1718:1723		No text annotation
IL_4V92_1211/A2/1678:1684,
1/A2/1717:1723		No text annotation
IL_4V92_0951/A2/1687:1690,
1/A2/1711:1714		No text annotation
IL_4V92_1331/AZ/6028:6042,
1/AZ/6075:6087		No text annotation
IL_4V92_0981/AZ/6100:6102,
1/AZ/6113:6128		No text annotation

Problematic loops

#loop idProblemSequence
IL_4V92_002Isolated non-canonical cWW pair
IL_4V92_100No text annotation
IL_4V92_006No text annotation
IL_4V92_101No text annotation
IL_4V92_009Isolated non-canonical cWW with bulges
IL_4V92_012Tandem non-canonical cWW pairs
IL_4V92_103No text annotation
IL_4V92_016Isolated non-canonical cWW pair
IL_4V92_019No text annotation
IL_4V92_020No text annotation
IL_4V92_104No text annotation
IL_4V92_027No text annotation
IL_4V92_105No text annotation
IL_4V92_107No text annotation
IL_4V92_037Isolated cWH basepair
IL_4V92_038Isolated non-canonical cWW pair
IL_4V92_041No text annotation
IL_4V92_042Isolated cWH basepair
IL_4V92_109No text annotation
IL_4V92_048No text annotation
IL_4V92_054Isolated non-canonical cWW pair
IL_4V92_057Tandem non-canonical cWW pairs
IL_4V92_059Isolated non-canonical cWW pair
IL_4V92_115No text annotation
IL_4V92_064No text annotation
IL_4V92_065Isolated non-canonical cWW pair
IL_4V92_116No text annotation
IL_4V92_070Isolated non-canonical cWW pair
IL_4V92_117No text annotation
IL_4V92_071No text annotation
IL_4V92_072No text annotation
IL_4V92_074No text annotation
IL_4V92_075Isolated non-canonical cWW pair
IL_4V92_077No text annotation
IL_4V92_118No text annotation
IL_4V92_079Isolated non-canonical cWW pair
IL_4V92_080Isolated non-canonical cWW pair
IL_4V92_084No text annotation
IL_4V92_085Tandem non-canonical cWW pairs
IL_4V92_088Tandem non-canonical cWW pairs
IL_4V92_094No text annotation
IL_4V92_122No text annotation
IL_4V92_096No text annotation
IL_4V92_097No text annotation
IL_4V92_099No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4V92_0091/A2/41:48,
1/A2/431:441,
1/A2/463:466		No text annotation
J3_4V92_0191/A2/213:228,
1/A2/237:243,
1/A2/250:252		No text annotation
J3_4V92_0111/A2/633:635,
1/A2/861:865,
1/A2/965:966		No text annotation
geometric
J3_4V88_080
NA
J3_4V92_0121/A2/633:635,
1/A2/861:866,
1/A2/962:966		No text annotation
homologous
J3_8P9A_072
J3_17385.4
J3_4V92_0021/A2/760:763,
1/A2/773:775,
1/A2/785:790		No text annotation
homologous
J3_4V88_032
NA
J3_4V92_0031/A2/881:884,
1/A2/928:936,
1/A2/943:947		No text annotation
homologous
J3_4V88_033
NA
J3_4V92_0131/A2/1037:1039,
1/A2/1079:1083,
1/A2/1090:1094		No text annotation
homologous
J3_8P9A_075
J3_94999.1
J3_4V92_0201/A2/1157:1164,
1/A2/1581:1587,
1/A2/1609:1621		No text annotation
J3_4V92_0211/A2/1168:1171,
1/A2/1468:1470,
1/A2/1574:1577		No text annotation
homologous
J3_8P9A_077
J3_52655.4
J3_4V92_0051/A2/1180:1187,
1/A2/1198:1209,
1/A2/1454:1458		No text annotation
geometric
J3_8C3A_040
NA
J3_4V92_0221/A2/1211:1220,
1/A2/1263:1267,
1/A2/1442:1452		No text annotation
J3_4V92_0061/A2/1283:1288,
1/A2/1327:1332,
1/A2/1419:1424		No text annotation
homologous
J3_4V88_039
NA
J3_4V92_0071/A2/1292:1295,
1/A2/1302:1306,
1/A2/1318:1323		No text annotation
J3_4V92_0181/A2/1470:1474,
1/A2/1533:1540,
1/A2/1571:1574		No text annotation
homologous
J3_8P9A_084
J3_37047.6
J4_4V92_0031/A2/99:107,
1/A2/307:309,
1/A2/357:361,
1/A2/383:384		No text annotation
homologous
J4_8P9A_021
J4_15241.1
J4_4V92_0021/A2/622:624,
1/A2/975:980,
1/A2/1021:1032,
1/A2/1103:1104		No text annotation
homologous
J4_8C3A_022
NA
J5_4V92_0051/A2/31:37,
1/A2/471:483,
1/A2/504:516,
1/A2/536:546,
1/A2/592:595		No text annotation
J5_4V92_0061/A2/31:41,
1/A2/466:483,
1/A2/504:516,
1/A2/536:546,
1/A2/592:595		No text annotation
J5_4V92_0031/A2/54:57,
1/A2/90:97,
1/A2/386:388,
1/A2/409:411,
1/A2/422:426		No text annotation
homologous
J5_8C3A_020
NA
J5_4V92_0071/A2/124:143,
1/A2/172:182,
1/A2/203:204,
1/A2/263:268,
1/A2/287:293		No text annotation

Problematic loops

#loop idProblemSequence
J3_4V92_001No text annotation
J3_4V92_010No text annotation
J3_4V92_004No text annotation
J3_4V92_014No text annotation
J3_4V92_015No text annotation
J3_4V92_016No text annotation
J3_4V92_017No text annotation
J3_4V92_008No text annotation
J4_4V92_001No text annotation
J5_4V92_001No text annotation
J5_4V92_002No text annotation
J5_4V92_004No text annotation

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