RNA 3D Hub //

4W23 Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4W23_0011/2/7:17No text annotation
geometric
HL_8CRE_191
HL_73535.1
HL_4W23_0021/2/69:80No text annotation
HL_4W23_0031/2/152:166No text annotation
HL_4W23_0041/2/197:202GNRA
geometric
HL_5J7L_007
NA
HL_4W23_0351/2/223:298No text annotation
HL_4W23_0051/2/288:295No text annotation
geometric
HL_5U3G_001
HL_75660.7
HL_4W23_0061/2/322:329No text annotation
HL_4W23_0361/2/375:389No text annotation
HL_4W23_0071/2/376:388No text annotation
HL_4W23_0081/2/415:423No text annotation
HL_4W23_0091/2/441:452No text annotation
geometric
HL_4V88_195
NA
HL_4W23_0101/2/462:467UNCG
geometric
HL_1UN6_003
HL_61337.2
HL_4W23_0371/2/495:508No text annotation
HL_4W23_0111/2/496:506No text annotation
geometric
HL_5NFV_001
HL_69752.4
HL_4W23_0121/2/539:544GNRA
geometric
HL_5J7L_007
NA
HL_4W23_0131/2/566:584No text annotation
HL_4W23_0381/2/601:621No text annotation
HL_4W23_0141/2/617:624No text annotation
geometric
HL_6D12_001
HL_89167.2
HL_4W23_0151/2/698:732No text annotation
HL_4W23_0171/2/833:841No text annotation
HL_4W23_0181/2/885:901tRNA D-loop
geometric
HL_6UFM_001
HL_04642.3
HL_4W23_0191/2/956:967No text annotation
HL_4W23_0201/2/1054:1064No text annotation
geometric
HL_5J7L_017
NA
HL_4W23_0211/2/1108:1124No text annotation
HL_4W23_0221/2/1141:1146GNRA
geometric
HL_6UFH_005
HL_34789.2
HL_4W23_0231/2/1178:1183UNCG variation
geometric
HL_2CZJ_007
NA
HL_4W23_0241/2/1244:1255tRNA D-loop
geometric
HL_4TUE_033
NA
HL_4W23_0251/2/1280:1317No text annotation
HL_4W23_0261/2/1353:1358GNRA
geometric
HL_4V9F_065
HL_34789.2
HL_4W23_0271/2/1366:1373T-loop related
geometric
HL_8CRE_219
HL_63894.2
HL_4W23_0391/2/1420:1427GNRA with extra cWH
geometric
HL_7QR8_003
NA
HL_4W23_0281/2/1421:1426No text annotation
HL_4W23_0291/2/1460:1466No text annotation
geometric
HL_1F1T_001
NA
HL_4W23_0301/2/1565:1570UNCG variation
geometric
HL_2CZJ_007
NA
HL_4W23_0311/2/1614:1625No text annotation
geometric
HL_4V88_219
NA
HL_4W23_0401/2/1657:1667No text annotation
HL_4W23_0321/2/1658:1666No text annotation
HL_4W23_0411/2/1761:1771No text annotation
HL_4W23_0341/2/1847:1852No text annotation
geometric
HL_2Y9H_003
HL_75660.7

Problematic loops

#loop idProblemSequence
HL_4W23_016No text annotation
HL_4W23_033No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4W23_0011/2/23:29,
1/2/645:651		No text annotation
IL_4W23_0021/2/34:36,
1/2/519:521		Isolated non-canonical cWW pair
geometric
IL_6IA2_002
IL_01003.2
IL_4W23_0031/2/37:40,
1/2/514:518		Double sheared
geometric
IL_4WF9_016
IL_58355.2
IL_4W23_0041/2/41:47,
1/2/479:481		No text annotation
geometric
IL_4V88_387
NA
IL_4W23_0051/2/57:62,
1/2/86:88		No text annotation
geometric
IL_4V88_389
NA
IL_4W23_0861/2/62:68,
1/2/81:86		No text annotation
IL_4W23_0061/2/63:68,
1/2/81:85		No text annotation
IL_4W23_0071/2/108:110,
1/2/351:353		Isolated non-canonical cWW pair
geometric
IL_1T0E_002
IL_71625.2
IL_4W23_0081/2/110:112,
1/2/349:351		Isolated non-canonical cWW pair
geometric
IL_5TBW_110
NA
IL_4W23_0871/2/110:115,
1/2/348:351		Tandem non-canonical cWW pairs
geometric
IL_3WBM_002
IL_15225.2
IL_4W23_0091/2/112:115,
1/2/348:349		Single bulged A
geometric
IL_4WF9_098
IL_14190.2
IL_4W23_0101/2/116:121,
1/2/343:347		No text annotation
geometric
IL_4V88_393
NA
IL_4W23_0111/2/123:124,
1/2/339:341		Single stack bend
geometric
IL_5TBW_035
NA
IL_4W23_0121/2/145:151,
1/2/167:174		No text annotation
geometric
IL_8CRE_400
IL_24485.1
IL_4W23_0131/2/188:192,
1/2/207:211		Double sheared with non-canonical cWW
geometric
IL_4WFL_001
IL_87767.2
IL_4W23_0141/2/218:220,
1/2/301:302		Single stack bend
geometric
IL_4LFB_041
IL_15011.2
IL_4W23_0881/2/218:223,
1/2/298:302		No text annotation
IL_4W23_0151/2/223:288,
1/2/295:298		No text annotation
IL_4W23_0161/2/317:320,
1/2/331:333		No text annotation
geometric
IL_4V88_400
NA
IL_4W23_0171/2/359:364,
1/2/396:403		Kink-turn with non-sequential stacking
geometric
IL_5J7L_014
NA
IL_4W23_0181/2/366:371,
1/2/393:394		No text annotation
geometric
IL_5Y58_001
IL_37738.1
IL_4W23_0191/2/411:413,
1/2/424:429		No text annotation
IL_4W23_0201/2/413:415,
1/2/423:424		Single stack bend
geometric
IL_5TBW_070
NA
IL_4W23_0211/2/437:439,
1/2/454:456		Isolated non-canonical cWW pair
geometric
IL_7A0S_020
IL_01003.2
IL_4W23_0221/2/487:489,
1/2/511:512		Single bulged U
geometric
IL_4LFB_014
IL_97561.2
IL_4W23_0231/2/491:495,
1/2/508:509		C-loop
geometric
IL_4LFB_015
IL_26900.1
IL_4W23_0241/2/495:496,
1/2/506:508		Single bulged G
geometric
IL_5J7L_019
NA
IL_4W23_0251/2/528:530,
1/2/554:557		No text annotation
IL_4W23_0891/2/531:537,
1/2/546:553		No text annotation
IL_4W23_0271/2/596:597,
1/2/639:641		Single stack bend
geometric
IL_7A0S_054
IL_15011.2
IL_4W23_0281/2/599:609,
1/2/634:637		No text annotation
IL_4W23_0901/2/599:600,
1/2/622:637		No text annotation
IL_4W23_0291/2/609:617,
1/2/624:634		No text annotation
IL_4W23_0301/2/663:665,
1/2/1162:1164		Isolated non-canonical cWW pair
geometric
IL_1Y27_001
IL_01003.2
IL_4W23_0311/2/665:671,
1/2/1161:1162		Major groove intercalation
geometric
IL_1NBS_009
IL_71421.2
IL_4W23_0321/2/673:675,
1/2/1030:1032		No text annotation
IL_4W23_0911/2/673:680,
1/2/1025:1032		No text annotation
IL_4W23_0331/2/676:680,
1/2/1025:1029		No text annotation
IL_4W23_0341/2/694:696,
1/2/734:736		No text annotation
IL_4W23_0351/2/802:803,
1/2/860:863		Major groove minor groove platform; mini C-loop
geometric
IL_1S03_003
IL_73108.2
IL_4W23_0361/2/804:807,
1/2/856:859		Tandem non-canonical cWW pairs
geometric
IL_7A0S_040
IL_71194.2
IL_4W23_0371/2/807:815,
1/2/849:856		No text annotation
geometric
IL_4V88_425
NA
IL_4W23_0381/2/815:831,
1/2/843:849		No text annotation
IL_4W23_0391/2/873:879,
1/2/907:912		Tandem non-canonical cWW pairs with near WC pairs
geometric
IL_4EYA_005
IL_82292.2
IL_4W23_0421/2/922:923,
1/2/1019:1022		Major groove platform; stack outside cWW
geometric
IL_4V88_428
NA
IL_4W23_0431/2/924:927,
1/2/1014:1018		Tandem non-canonical cWW pairs
geometric
IL_4V88_429
NA
IL_4W23_0921/2/928:931,
1/2/1010:1013		Tandem non-canonical cWW pairs
geometric
IL_8P9A_419
IL_15225.2
IL_4W23_0451/2/931:935,
1/2/1007:1010		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_4W23_0461/2/938:941,
1/2/985:1004		No text annotation
IL_4W23_0471/2/943:945,
1/2/981:983		Isolated non-canonical cWW pair
geometric
IL_3HHN_004
IL_01003.2
IL_4W23_0931/2/948:956,
1/2/967:978		No text annotation
IL_4W23_0481/2/951:956,
1/2/967:975		Kink-turn
geometric
IL_4LFB_031
IL_95727.1
IL_4W23_0491/2/1042:1047,
1/2/1071:1073		No text annotation
geometric
IL_8CRE_437
IL_31359.1
IL_4W23_0501/2/1047:1054,
1/2/1064:1071		No text annotation
IL_4W23_0511/2/1098:1103,
1/2/1129:1134		No text annotation
IL_4W23_0521/2/1168:1176,
1/2/1185:1191		9x7 Sarcin-Ricin with inserted C; G-bulge
geometric
IL_6CZR_146
NA
IL_4W23_0531/2/1202:1206,
1/2/1692:1697		No text annotation
IL_4W23_0541/2/1206:1208,
1/2/1691:1692		Single bulged G
geometric
IL_4V88_442
NA
IL_4W23_0551/2/1214:1217,
1/2/1681:1685		C-loop
geometric
IL_1KOG_007
IL_63596.12
IL_4W23_0561/2/1230:1233,
1/2/1525:1528		Tandem non-canonical cWW pairs
geometric
IL_3WBM_002
IL_15225.2
IL_4W23_0571/2/1235:1236,
1/2/1521:1523		Minor groove platform
geometric
IL_4V88_445
NA
IL_4W23_0581/2/1325:1327,
1/2/1502:1503		Single bulged U
geometric
IL_4V88_449
NA
IL_4W23_0591/2/1329:1333,
1/2/1498:1500		No text annotation
IL_4W23_0941/2/1329:1335,
1/2/1492:1500		No text annotation
geometric
IL_8P9A_439
IL_99893.1
IL_4W23_0601/2/1333:1335,
1/2/1492:1498		No text annotation
IL_4W23_0611/2/1337:1338,
1/2/1488:1490		Single bulged A
geometric
IL_4V88_452
NA
IL_4W23_0621/2/1347:1349,
1/2/1380:1382		Isolated non-canonical cWW pair
geometric
IL_5UNE_003
IL_01003.2
IL_4W23_0951/2/1350:1351,
1/2/1360:1379		No text annotation
IL_4W23_0631/2/1363:1366,
1/2/1373:1375		No text annotation
IL_4W23_0641/2/1395:1399,
1/2/1447:1450		Tandem non-canonical cWW pairs
geometric
IL_1MFQ_004
IL_15225.2
IL_4W23_0651/2/1402:1406,
1/2/1440:1444		No text annotation
IL_4W23_0661/2/1406:1413,
1/2/1433:1440		No text annotation
IL_4W23_0671/2/1415:1419,
1/2/1428:1431		No text annotation
IL_4W23_0681/2/1453:1456,
1/2/1470:1475		No text annotation
IL_4W23_0961/2/1541:1550,
1/2/1582:1592		No text annotation
IL_4W23_0691/2/1550:1558,
1/2/1577:1582		No text annotation
IL_4W23_0971/2/1560:1563,
1/2/1572:1575		Isolated cWH basepair with non-canonical cWW
geometric
IL_7LYF_001
IL_71194.2
IL_4W23_0711/2/1604:1610,
1/2/1629:1635		No text annotation
IL_4W23_0721/2/1700:1702,
1/2/1833:1836		No text annotation
geometric
IL_4V88_463
NA
IL_4W23_0731/2/1702:1705,
1/2/1829:1833		No text annotation
geometric
IL_4V88_464
NA
IL_4W23_0741/2/1706:1708,
1/2/1826:1828		Isolated non-canonical cWW pair
geometric
IL_4V88_465
NA
IL_4W23_0981/2/1706:1711,
1/2/1822:1828		No text annotation
IL_4W23_0751/2/1708:1711,
1/2/1822:1826		No text annotation
geometric
IL_6AZ4_001
NA
IL_4W23_0761/2/1714:1716,
1/2/1817:1819		Isolated non-canonical cWW pair
geometric
IL_4V88_467
NA
IL_4W23_0771/2/1717:1720,
1/2/1813:1816		Double sheared
geometric
IL_4V88_468
NA
IL_4W23_0781/2/1720:1722,
1/2/1812:1813		Single bulged U
geometric
IL_4V88_469
NA
IL_4W23_0791/2/1727:1731,
1/2/1803:1807		No text annotation
geometric
IL_4V88_422
NA
IL_4W23_0991/2/1733:1736,
1/2/1798:1801		Double sheared
geometric
IL_8CRE_474
IL_58355.2
IL_4W23_0811/2/1739:1741,
1/2/1793:1795		No text annotation
IL_4W23_1001/2/1739:1746,
1/2/1788:1795		No text annotation
IL_4W23_0821/2/1742:1746,
1/2/1788:1792		Triple sheared
geometric
IL_8CRE_476
IL_15190.2
IL_4W23_1011/2/1748:1752,
1/2/1780:1786		No text annotation
IL_4W23_0851/2/1839:1841,
1/2/1858:1859		Single stack bend
geometric
IL_4LFB_041
IL_15011.2

Problematic loops

#loop idProblemSequence
IL_4W23_026No text annotation
IL_4W23_044No text annotation
IL_4W23_070No text annotation
IL_4W23_080Double sheared with non-canonical cWW
IL_4W23_083No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4W23_0081/2/40:41,
1/2/481:487,
1/2/512:514		No text annotation
geometric
J3_8P9A_068
J3_58657.1
J3_4W23_0091/2/682:685,
1/2/917:922,
1/2/1022:1023		No text annotation
J3_4W23_0101/2/682:685,
1/2/917:923,
1/2/1019:1023		No text annotation
J3_4W23_0011/2/1091:1096,
1/2/1136:1140,
1/2/1147:1158		No text annotation
J3_4W23_0111/2/1091:1103,
1/2/1129:1140,
1/2/1147:1158		No text annotation
J3_4W23_0021/2/1218:1222,
1/2/1644:1651,
1/2/1673:1680		No text annotation
J3_4W23_0031/2/1225:1228,
1/2/1530:1532,
1/2/1638:1641		No text annotation
geometric
J3_8P9A_077
J3_44359.1
J3_4W23_0121/2/1237:1244,
1/2/1255:1266,
1/2/1516:1520		No text annotation
geometric
J3_8P9A_078
J3_88451.1
J3_4W23_0051/2/1270:1277,
1/2/1320:1324,
1/2/1504:1512		No text annotation
J3_4W23_0061/2/1340:1345,
1/2/1384:1389,
1/2/1481:1486		No text annotation
J3_4W23_0071/2/1391:1395,
1/2/1450:1453,
1/2/1475:1479		No text annotation
J3_4W23_0131/2/1391:1399,
1/2/1447:1456,
1/2/1470:1479		No text annotation
J3_4W23_0141/2/1532:1540,
1/2/1593:1610,
1/2/1629:1638		No text annotation
J4_4W23_0011/2/98:106,
1/2/355:357,
1/2/405:409,
1/2/431:432		No text annotation
J4_4W23_0021/2/671:673,
1/2/1032:1037,
1/2/1078:1089,
1/2/1160:1161		No text annotation
J5_4W23_0011/2/30:34,
1/2/521:527,
1/2/558:565,
1/2/585:596,
1/2/641:644		No text annotation
J5_4W23_0021/2/49:57,
1/2/88:96,
1/2/434:436,
1/2/457:462,
1/2/467:477		No text annotation
J5_4W23_0031/2/125:144,
1/2/175:187,
1/2/212:218,
1/2/302:315,
1/2/335:338		No text annotation
J5_4W23_0041/2/685:696,
1/2/734:744,
1/2/797:800,
1/2/865:873,
1/2/912:917		No text annotation

Problematic loops

#loop idProblemSequence
J3_4W23_004No text annotation

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