RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_4KZY_0021/i/69:80No text annotation
HL_4KZY_0031/i/156:162GNRA related
homologous
HL_4V88_188
NA
HL_4KZY_0041/i/194:201No text annotation
geometric
HL_2Y9H_005
HL_51020.1
HL_4KZY_0061/i/279:286T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_4KZY_0071/i/312:319No text annotation
geometric
HL_5TBW_012
NA
HL_4KZY_0081/i/367:377No text annotation
geometric
HL_3SKL_006
NA
HL_4KZY_0091/i/406:411No text annotation
homologous
HL_4V88_194
NA
HL_4KZY_0101/i/431:442No text annotation
homologous
HL_4V88_195
NA
HL_4KZY_0111/i/452:457UNCG
homologous
HL_4V88_196
NA
HL_4KZY_0121/i/488:494No text annotation
homologous
HL_4V88_197
NA
HL_4KZY_0131/i/529:534GNRA
geometric
HL_4FRG_002
HL_34789.1
HL_4KZY_0141/i/559:571No text annotation
geometric
HL_4V88_199
NA
HL_4KZY_0151/i/608:613GNRA variation
homologous
HL_4V88_200
NA
HL_4KZY_0351/i/754:782No text annotation
HL_4KZY_0161/i/816:824No text annotation
homologous
HL_4V88_203
NA
HL_4KZY_0171/i/829:837No text annotation
homologous
HL_8P9A_207
HL_89167.1
HL_4KZY_0181/i/881:897Pseudoknot geometry
homologous
HL_4V88_205
NA
HL_4KZY_0191/i/953:962No text annotation
homologous
HL_4V88_206
NA
HL_4KZY_0201/i/990:995GNRA
homologous
HL_4V88_207
NA
HL_4KZY_0211/i/1050:1060No text annotation
homologous
HL_4V88_208
NA
HL_4KZY_0221/i/1108:1117No text annotation
HL_4KZY_0231/i/1137:1142GNRA
homologous
HL_4V88_210
NA
HL_4KZY_0251/i/1241:1250No text annotation
homologous
HL_4V88_212
NA
HL_4KZY_0261/i/1291:1300Anticodon loop related
homologous
HL_4V88_213
NA
HL_4KZY_0281/i/1362:1369No text annotation
homologous
HL_4V88_215
NA
HL_4KZY_0291/i/1417:1422GNRA
geometric
HL_3SUX_002
HL_34789.1
HL_4KZY_0301/i/1456:1462GNRA
homologous
HL_4V88_217
NA
HL_4KZY_0311/i/1560:1565GNRA
homologous
HL_4V88_218
NA
HL_4KZY_0321/i/1609:1620No text annotation
homologous
HL_4V88_219
NA
HL_4KZY_0331/i/1653:1661No text annotation
homologous
HL_4V88_220
NA
HL_4KZY_0341/i/1841:1846GNRA variation
homologous
HL_4V88_222
NA

Problematic loops

#loop idProblemSequence
HL_4KZY_001No text annotation
HL_4KZY_005No text annotation
HL_4KZY_024GNRA
HL_4KZY_027GNRA
HL_4KZY_036No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_4KZY_0011/i/23:25,
1/i/639:641		Isolated non-canonical cWW pair
geometric
IL_5TBW_021
NA
IL_4KZY_0021/i/34:36,
1/i/509:511		Isolated non-canonical cWW pair
homologous
IL_4V88_385
NA
IL_4KZY_0031/i/37:40,
1/i/504:508		Double sheared
geometric
IL_4WF9_016
IL_58355.1
IL_4KZY_0041/i/41:47,
1/i/469:471		No text annotation
homologous
IL_4V88_387
NA
IL_4KZY_0051/i/49:51,
1/i/466:467		Minor groove platform
homologous
IL_4V88_388
NA
IL_4KZY_0061/i/57:62,
1/i/86:88		No text annotation
homologous
IL_4V88_389
NA
IL_4KZY_0071/i/63:68,
1/i/81:85		No text annotation
homologous
IL_4V88_390
NA
IL_4KZY_0081/i/108:110,
1/i/341:343		Isolated non-canonical cWW pair
geometric
IL_1ZX7_004
NA
IL_4KZY_0091/i/110:112,
1/i/339:341		Isolated non-canonical cWW pair
geometric
IL_4V9K_064
IL_01003.1
IL_4KZY_0101/i/112:115,
1/i/338:339		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_4KZY_0111/i/116:121,
1/i/333:337		No text annotation
homologous
IL_4V88_393
NA
IL_4KZY_0121/i/145:151,
1/i/167:174		tWH-tWH-tHW-tHW
homologous
IL_4V88_394
NA
IL_4KZY_0131/i/152:154,
1/i/164:166		No text annotation
geometric
IL_2ZNI_001
NA
IL_4KZY_0141/i/186:191,
1/i/204:209		Double sheared; A in syn; two near cWW pairs
geometric
IL_4N0T_001
IL_82292.2
IL_4KZY_1101/i/187:194,
1/i/201:208		No text annotation
IL_4KZY_0151/i/192:194,
1/i/201:203		Isolated non-canonical cWW pair
geometric
IL_1ZZ5_002
IL_01003.1
IL_4KZY_0161/i/213:216,
1/i/293:300		Tandem non-canonical cWW pairs
geometric
IL_1GID_008
NA
IL_4KZY_0181/i/237:239,
1/i/271:272		No text annotation
IL_4KZY_0191/i/303:305,
1/i/326:327		No text annotation
IL_4KZY_0211/i/308:310,
1/i/321:323		Isolated non-canonical cWW pair
geometric
IL_7A0S_038
IL_30229.1
IL_4KZY_0221/i/349:354,
1/i/386:393		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_4KZY_0231/i/356:361,
1/i/383:384		No text annotation
geometric
IL_5Y58_001
IL_45649.1
IL_4KZY_0241/i/401:403,
1/i/414:419		No text annotation
homologous
IL_4V88_404
NA
IL_4KZY_0251/i/427:429,
1/i/444:446		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_4KZY_0261/i/449:451,
1/i/458:460		Isolated near basepair
homologous
IL_4V88_406
NA
IL_4KZY_0271/i/477:479,
1/i/501:502		Single bulged U
homologous
IL_4V88_407
NA
IL_4KZY_1281/i/481:485,
1/i/498:499		C-loop
homologous
IL_8P9A_397
IL_26900.1
IL_4KZY_1291/i/485:486,
1/i/496:498		Single bulged G
homologous
IL_8P9A_398
IL_28408.1
IL_4KZY_0291/i/519:521,
1/i/543:546		No text annotation
IL_4KZY_0301/i/524:525,
1/i/538:540		Single stack bend
geometric
IL_5J7L_044
NA
IL_4KZY_0311/i/525:527,
1/i/536:538		No text annotation
geometric
IL_4WF9_055
NA
IL_4KZY_0321/i/556:559,
1/i/571:574		Double sheared
geometric
IL_4LFB_060
IL_58355.1
IL_4KZY_1301/i/589:598,
1/i/625:627		No text annotation
IL_4KZY_0341/i/601:607,
1/i/614:622		Kink-turn related
homologous
IL_4V88_415
NA
IL_4KZY_0361/i/655:661,
1/i/1157:1158		No text annotation
homologous
IL_4V88_416
NA
IL_4KZY_0381/i/666:670,
1/i/1021:1025		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_4KZY_0421/i/741:743,
1/i/790:792		Isolated non-canonical cWW pair
geometric
IL_5TBW_079
NA
IL_4KZY_0431/i/743:748,
1/i/787:790		No text annotation
IL_4KZY_0441/i/748:750,
1/i/786:787		Minor groove platform
geometric
IL_1U6B_007
IL_34520.1
IL_4KZY_0451/i/798:799,
1/i/856:859		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_4KZY_0461/i/800:803,
1/i/852:855		Tandem non-canonical cWW pairs
geometric
IL_7A0S_040
IL_71194.1
IL_4KZY_1311/i/803:811,
1/i/845:852		No text annotation
homologous
IL_8CRE_430
IL_59049.2
IL_4KZY_0481/i/870:872,
1/i/906:907		Single stack bend
geometric
IL_7KGA_003
NA
IL_4KZY_0491/i/872:875,
1/i/903:906		No text annotation
IL_4KZY_1321/i/918:919,
1/i/1015:1018		Major groove platform; stack outside cWW
homologous
IL_8P9A_417
IL_74641.1
IL_4KZY_1151/i/921:922,
1/i/1011:1013		Single bulged U
geometric
IL_3NDB_005
NA
IL_4KZY_0531/i/924:927,
1/i/1006:1009		Tandem non-canonical cWW pairs
geometric
IL_4V88_430
NA
IL_4KZY_0541/i/927:931,
1/i/1003:1006		Tandem non-canonical cWW pairs
homologous
IL_4V88_431
NA
IL_4KZY_0551/i/938:941,
1/i/977:980		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_4KZY_0561/i/948:952,
1/i/963:970		Kink-turn
homologous
IL_4V88_434
NA
IL_4KZY_0581/i/1038:1043,
1/i/1067:1069		Other IL
geometric
IL_4V88_435
NA
IL_4KZY_0591/i/1043:1047,
1/i/1063:1067		tSH-tHW-tHS
geometric
IL_4V88_436
NA
IL_4KZY_1161/i/1087:1089,
1/i/1148:1154		No text annotation
homologous
IL_8P9A_425
IL_82706.2
IL_4KZY_0611/i/1094:1097,
1/i/1127:1130		Tandem non-canonical cWW pairs
homologous
IL_4V88_438
NA
IL_4KZY_0621/i/1097:1099,
1/i/1125:1127		Isolated non-canonical cWW pair
geometric
IL_1RPU_001
NA
IL_4KZY_0631/i/1104:1106,
1/i/1119:1120		Single bulged C
geometric
IL_4WF9_035
IL_05642.1
IL_4KZY_0651/i/1164:1171,
1/i/1182:1187		8x6 Sarcin-Ricin with inserted Y; G-bulge
homologous
IL_4V88_440
NA
IL_4KZY_1171/i/1210:1213,
1/i/1676:1680		C-loop
homologous
IL_8C3A_449
NA
IL_4KZY_0691/i/1226:1228,
1/i/1521:1523		Isolated non-canonical cWW pair
homologous
IL_4V88_444
NA
IL_4KZY_1181/i/1231:1232,
1/i/1516:1518		Minor groove platform
homologous
IL_8C3A_451
NA
IL_4KZY_0711/i/1266:1268,
1/i/1506:1507		Single stack bend
geometric
IL_7A0S_022
IL_15011.1
IL_4KZY_0721/i/1277:1283,
1/i/1310:1312		No text annotation
IL_4KZY_1191/i/1277:1286,
1/i/1305:1312		No text annotation
homologous
IL_8P9A_470
IL_28304.1
IL_4KZY_0731/i/1283:1286,
1/i/1305:1310		No text annotation
IL_4KZY_0741/i/1287:1289,
1/i/1302:1304		No text annotation
homologous
IL_4V88_448
NA
IL_4KZY_0751/i/1321:1323,
1/i/1498:1499		Single bulged U
homologous
IL_4V88_449
NA
IL_4KZY_0761/i/1325:1329,
1/i/1494:1496		Isolated cWS basepair
homologous
IL_4V88_450
NA
IL_4KZY_1201/i/1325:1331,
1/i/1488:1496		No text annotation
geometric
IL_4V88_510
NA
IL_4KZY_0771/i/1329:1330,
1/i/1492:1494		No text annotation
geometric
IL_8ZA0_002
IL_28408.1
IL_4KZY_1211/i/1329:1331,
1/i/1488:1494		No text annotation
homologous
IL_8P9A_440
IL_93811.1
IL_4KZY_0781/i/1330:1331,
1/i/1488:1492		Minor groove platform
geometric
IL_5J7L_048
NA
IL_4KZY_0791/i/1333:1334,
1/i/1484:1486		Single bulged A
homologous
IL_4V88_452
NA
IL_4KZY_0801/i/1343:1345,
1/i/1376:1378		Isolated cWH basepair
homologous
IL_4V88_453
NA
IL_4KZY_0821/i/1391:1395,
1/i/1443:1446		Tandem non-canonical cWW pairs
geometric
IL_4V88_429
NA
IL_4KZY_1221/i/1398:1401,
1/i/1437:1440		No text annotation
homologous
IL_8C3A_462
NA
IL_4KZY_0841/i/1404:1407,
1/i/1431:1434		No text annotation
IL_4KZY_0861/i/1411:1413,
1/i/1425:1427		No text annotation
IL_4KZY_0871/i/1413:1415,
1/i/1424:1425		Major groove platform
geometric
IL_5Y85_005
IL_48076.7
IL_4KZY_0881/i/1449:1452,
1/i/1466:1471		No text annotation
IL_4KZY_1231/i/1532:1534,
1/i/1589:1591		Isolated non-canonical cWW pair
geometric
IL_4KNQ_003
NA
IL_4KZY_1241/i/1536:1553,
1/i/1572:1587		No text annotation
IL_4KZY_0901/i/1545:1553,
1/i/1572:1577		180 degree turn
geometric
IL_6CZR_161
NA
IL_4KZY_0911/i/1555:1557,
1/i/1568:1570		Isolated non-canonical cWW pair
geometric
IL_7A0S_107
IL_71625.1
IL_4KZY_0931/i/1599:1605,
1/i/1624:1630		No text annotation
homologous
IL_8C3A_469
NA
IL_4KZY_0951/i/1697:1700,
1/i/1823:1827		No text annotation
homologous
IL_8C3A_471
NA
IL_4KZY_0961/i/1701:1703,
1/i/1820:1822		Isolated non-canonical cWW pair
homologous
IL_4V88_465
NA
IL_4KZY_0971/i/1703:1706,
1/i/1816:1820		No text annotation
geometric
IL_6AZ4_001
NA
IL_4KZY_0981/i/1709:1711,
1/i/1811:1813		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_4KZY_0991/i/1712:1715,
1/i/1807:1810		Double sheared
homologous
IL_4V88_468
NA
IL_4KZY_1001/i/1715:1717,
1/i/1806:1807		No text annotation
IL_4KZY_1251/i/1724:1726,
1/i/1797:1799		Isolated non-canonical cWW pair
homologous
IL_8C3A_477
NA
IL_4KZY_1021/i/1728:1731,
1/i/1792:1795		Double sheared
homologous
IL_4V88_471
NA
IL_4KZY_1041/i/1734:1737,
1/i/1786:1789		Tandem non-canonical cWW pairs
homologous
IL_4V88_473
NA
IL_4KZY_1051/i/1737:1741,
1/i/1782:1786		Triple sheared
geometric
IL_4V88_474
NA
IL_4KZY_1071/i/1745:1747,
1/i/1774:1778		Other IL
geometric
IL_5TBW_064
NA
IL_4KZY_1271/i/1747:1748,
1/i/1772:1774		Intercalated cWW
geometric
IL_4WF9_047
IL_61702.1

Problematic loops

#loop idProblemSequence
IL_4KZY_017No text annotation
IL_4KZY_020Self complementary
IL_4KZY_111No text annotation
IL_4KZY_028C-loop with extra cWW pair
IL_4KZY_112No text annotation
IL_4KZY_033No text annotation
IL_4KZY_035Isolated non-canonical cWW pair
IL_4KZY_037Isolated non-canonical cWW pair
IL_4KZY_039No text annotation
IL_4KZY_113Triple non-canonical cWW pairs
IL_4KZY_040No text annotation
IL_4KZY_114No text annotation
IL_4KZY_041No text annotation
IL_4KZY_047No text annotation
IL_4KZY_050Isolated non-canonical cWW pair
IL_4KZY_051Isolated cWH basepair
IL_4KZY_052Tandem non-canonical cWW pairs
IL_4KZY_057Isolated non-canonical cWW pair
IL_4KZY_060No text annotation
IL_4KZY_064Isolated non-canonical cWW pair
IL_4KZY_066Single bulged A
IL_4KZY_067Single bulged G
IL_4KZY_068C-loop with extra cWW pair
IL_4KZY_070Isolated non-canonical cWW with bulges
IL_4KZY_081Minor groove platform
IL_4KZY_083No text annotation
IL_4KZY_085No text annotation
IL_4KZY_089No text annotation
IL_4KZY_092Isolated non-canonical cWW pair
IL_4KZY_094No text annotation
IL_4KZY_101Tandem non-canonical cWW pairs
IL_4KZY_103No text annotation
IL_4KZY_106No text annotation
IL_4KZY_126No text annotation
IL_4KZY_108No text annotation
IL_4KZY_109Tandem non-canonical cWW pairs

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_4KZY_0111/i/40:41,
1/i/471:477,
1/i/502:504		No text annotation
geometric
J3_4V88_078
NA
J3_4KZY_0131/i/40:47,
1/i/469:477,
1/i/502:504		No text annotation
homologous
J3_8P9A_069
J3_63856.1
J3_4KZY_0141/i/220:235,
1/i/274:279,
1/i/286:289		No text annotation
J3_4KZY_0191/i/672:674,
1/i/914:918,
1/i/1018:1019		No text annotation
homologous
J3_8P9A_071
J3_01633.1
J3_4KZY_0011/i/672:674,
1/i/914:919,
1/i/1015:1019		No text annotation
homologous
J3_8C3A_034
NA
J3_4KZY_0151/i/812:815,
1/i/825:827,
1/i/839:844		No text annotation
homologous
J3_8P9A_073
J3_97642.2
J3_4KZY_0021/i/934:937,
1/i/981:989,
1/i/996:1000		No text annotation
homologous
J3_4V88_033
NA
J3_4KZY_0161/i/1090:1092,
1/i/1132:1136,
1/i/1143:1147		No text annotation
J3_4KZY_0041/i/1214:1217,
1/i/1640:1646,
1/i/1668:1675		No text annotation
homologous
J3_4V88_035
NA
J3_4KZY_0051/i/1221:1224,
1/i/1525:1527,
1/i/1633:1636		No text annotation
homologous
J3_4V88_036
NA
J3_4KZY_0061/i/1233:1240,
1/i/1251:1262,
1/i/1511:1515		No text annotation
homologous
J3_8P9A_078
J3_88451.1
J3_4KZY_0071/i/1268:1273,
1/i/1316:1320,
1/i/1500:1506		No text annotation
homologous
J3_8C3A_041
NA
J3_4KZY_0081/i/1336:1341,
1/i/1380:1385,
1/i/1477:1482		No text annotation
J3_4KZY_0121/i/1346:1347,
1/i/1356:1359,
1/i/1371:1375		No text annotation
homologous
J3_8C3A_085
NA
J3_4KZY_0091/i/1387:1391,
1/i/1446:1449,
1/i/1471:1475		No text annotation
J3_4KZY_0181/i/1387:1391,
1/i/1446:1452,
1/i/1466:1475		No text annotation
J3_4KZY_0101/i/1527:1531,
1/i/1592:1599,
1/i/1630:1633		No text annotation
homologous
J3_8C3A_044
NA
J4_4KZY_0011/i/98:106,
1/i/345:347,
1/i/395:399,
1/i/421:422		No text annotation
homologous
J4_8C3A_021
NA
J4_4KZY_0021/i/661:663,
1/i/1028:1033,
1/i/1074:1085,
1/i/1156:1157		No text annotation
homologous
J4_8P9A_022
J4_14595.1
J5_4KZY_0011/i/30:34,
1/i/511:517,
1/i/548:555,
1/i/575:585,
1/i/631:634		No text annotation
J5_4KZY_0021/i/53:56,
1/i/89:96,
1/i/424:426,
1/i/447:449,
1/i/460:464		No text annotation
homologous
J5_8C3A_020
NA
J5_4KZY_0031/i/123:144,
1/i/175:186,
1/i/209:212,
1/i/301:303,
1/i/327:331		No text annotation
J5_4KZY_0041/i/123:144,
1/i/175:186,
1/i/209:212,
1/i/301:305,
1/i/326:331		No text annotation

Problematic loops

#loop idProblemSequence
J3_4KZY_003No text annotation
J3_4KZY_017No text annotation

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