RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6ZQE_0011/D2/4:9UNCG variation
geometric
HL_2CZJ_007
NA
HL_6ZQE_0021/D2/23:57No text annotation
geometric
HL_1KH6_003
HL_27483.1
HL_6ZQE_0031/D3/7:17No text annotation
homologous
HL_4V88_186
NA
HL_6ZQE_0041/D3/70:81No text annotation
homologous
HL_4V88_187
NA
HL_6ZQE_0051/D3/154:160GNRA related
homologous
HL_4V88_188
NA
HL_6ZQE_0061/D3/190:195No text annotation
homologous
HL_4V88_189
NA
HL_6ZQE_0071/D3/230:235UNCG
geometric
HL_6CK5_001
HL_34617.5
HL_6ZQE_0081/D3/243:250T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_6ZQE_0091/D3/276:279Mini UNCG
homologous
HL_8P9A_196
HL_48778.2
HL_6ZQE_0101/D3/330:338GNRA related
homologous
HL_4V88_193
NA
HL_6ZQE_0111/D3/368:373GNRA
geometric
HL_5D5L_001
HL_37824.7
HL_6ZQE_0121/D3/393:404No text annotation
homologous
HL_4V88_195
NA
HL_6ZQE_0131/D3/414:419UNCG
homologous
HL_4V88_196
NA
HL_6ZQE_0141/D3/450:456No text annotation
homologous
HL_4V88_197
NA
HL_6ZQE_0151/D3/491:496No text annotation
geometric
HL_2Y9H_003
HL_75660.5
HL_6ZQE_0161/D3/520:532No text annotation
homologous
HL_4V88_199
NA
HL_6ZQE_0171/D3/561:566No text annotation
geometric
HL_2Y9H_003
HL_75660.5
HL_6ZQE_0181/D3/717:722No text annotation
HL_6ZQE_0191/D3/764:772No text annotation
homologous
HL_4V88_203
NA
HL_6ZQE_0201/D3/777:783No text annotation
HL_6ZQE_0211/D3/829:843Pseudoknot geometry
homologous
HL_4V88_205
NA
HL_6ZQE_0221/D3/900:909No text annotation
homologous
HL_4V88_206
NA
HL_6ZQE_0231/D3/937:942GNRA
homologous
HL_4V88_207
NA
HL_6ZQE_0241/D3/997:1007No text annotation
geometric
HL_4WF9_011
HL_75660.5
HL_6ZQE_0251/D3/1055:1064Mini UNCG
geometric
HL_4YAZ_004
HL_48778.2
HL_6ZQE_0261/D3/1084:1089GNRA
homologous
HL_4V88_210
NA
HL_6ZQE_0281/D3/1501:1506GNRA
homologous
HL_4V88_218
NA
HL_6ZQE_0291/D3/1550:1561No text annotation
homologous
HL_4V88_219
NA
HL_6ZQE_0301/D3/1594:1602Mini UNCG
geometric
HL_4OOG_001
HL_56334.1
HL_6ZQE_0311/D3/1629:1636No text annotation
geometric
HL_4LX6_002
HL_31585.4
HL_6ZQE_0381/D3/1629:1637No text annotation
HL_6ZQE_0321/D3/1698:1703GNRA
geometric
HL_7RQB_063
NA
HL_6ZQE_0331/D3/1778:1783No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_6ZQE_0341/D4/153:160No text annotation
HL_6ZQE_0351/D4/180:185No text annotation

Problematic loops

#loop idProblemSequence
HL_6ZQE_027No text annotation
HL_6ZQE_036No text annotation
HL_6ZQE_037No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6ZQE_0011/D2/17:18,
1/D2/62:64		Single bulged G
geometric
IL_5TBW_037
NA
IL_6ZQE_0821/D2/282:283,
1/D4/70:72		Single stack bend
geometric
IL_8C3A_091
NA
IL_6ZQE_0021/D2/465:468,
1/D4/50:51		No text annotation
geometric
IL_8P9A_309
IL_73355.1
IL_6ZQE_0031/D2/468:470,
1/D4/48:50		Single stack bend
geometric
IL_4V9F_005
IL_90729.1
IL_6ZQE_0041/D3/22:24,
1/D3/601:602		Single stack bend
geometric
IL_4WF9_007
IL_90729.1
IL_6ZQE_0051/D3/24:26,
1/D3/600:601		Single bulged C
homologous
IL_4V88_384
NA
IL_6ZQE_0061/D3/35:37,
1/D3/471:473		Isolated non-canonical cWW pair
homologous
IL_4V88_385
NA
IL_6ZQE_0071/D3/37:41,
1/D3/466:471		No text annotation
IL_6ZQE_0081/D3/50:52,
1/D3/428:429		Minor groove platform
homologous
IL_4V88_388
NA
IL_6ZQE_0091/D3/58:63,
1/D3/87:89		No text annotation
homologous
IL_4V88_389
NA
IL_6ZQE_0101/D3/64:69,
1/D3/82:86		No text annotation
homologous
IL_4V88_390
NA
IL_6ZQE_0111/D3/109:112,
1/D3/302:305		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_6ZQE_0121/D3/113:116,
1/D3/300:301		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_6ZQE_0131/D3/117:122,
1/D3/295:299		No text annotation
homologous
IL_4V88_393
NA
IL_6ZQE_0141/D3/144:149,
1/D3/165:171		tWH-tWH-tHW-tHW
geometric
IL_4LFB_009
IL_12745.1
IL_6ZQE_0151/D3/150:152,
1/D3/162:164		Isolated cWH basepair
geometric
IL_6RA4_002
IL_10167.6
IL_6ZQE_0161/D3/186:189,
1/D3/196:199		Double sheared
homologous
IL_4V88_396
NA
IL_6ZQE_0171/D3/204:206,
1/D3/259:263		Major groove platform with extra cWW
homologous
IL_4V88_397
NA
IL_6ZQE_0181/D3/206:208,
1/D3/257:259		Isolated non-canonical cWW pair
geometric
IL_5TBW_115
NA
IL_6ZQE_0191/D3/265:267,
1/D3/288:289		Single bulged A
homologous
IL_4V88_399
NA
IL_6ZQE_0201/D3/270:273,
1/D3/283:285		No text annotation
homologous
IL_4V88_400
NA
IL_6ZQE_0211/D3/275:276,
1/D3/279:281		Single bulged U
geometric
IL_4V88_401
NA
IL_6ZQE_0221/D3/311:316,
1/D3/348:355		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_6ZQE_0231/D3/318:323,
1/D3/345:346		No text annotation
geometric
IL_5Y58_001
IL_59877.1
IL_6ZQE_0241/D3/363:365,
1/D3/376:381		No text annotation
homologous
IL_4V88_404
NA
IL_6ZQE_0251/D3/389:391,
1/D3/406:408		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_6ZQE_0261/D3/411:413,
1/D3/420:422		Isolated near basepair
homologous
IL_4V88_406
NA
IL_6ZQE_0271/D3/439:441,
1/D3/463:464		Single bulged U
geometric
IL_4V88_407
NA
IL_6ZQE_0281/D3/443:447,
1/D3/460:461		C-loop
geometric
IL_5J7L_018
IL_03109.3
IL_6ZQE_0291/D3/447:448,
1/D3/458:460		Single bulged G
geometric
IL_5J7L_019
IL_00225.13
IL_6ZQE_0301/D3/482:483,
1/D3/504:506		Single bulged A
homologous
IL_4V88_409
NA
IL_6ZQE_0311/D3/517:518,
1/D3/533:535		Minor groove platform
geometric
IL_4UYK_001
IL_51454.3
IL_6ZQE_0321/D3/518:520,
1/D3/532:533		Minor groove platform
geometric
IL_4V88_412
NA
IL_6ZQE_0331/D3/551:552,
1/D3/584:587		Multiple bulged bases
geometric
IL_4V9F_088
IL_42626.2
IL_6ZQE_0341/D3/552:554,
1/D3/571:584		No text annotation
IL_6ZQE_0351/D3/554:559,
1/D3/568:571		No text annotation
IL_6ZQE_0361/D3/616:622,
1/D3/1104:1105		No text annotation
homologous
IL_4V88_416
NA
IL_6ZQE_0371/D3/624:626,
1/D3/973:975		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_6ZQE_0381/D3/627:631,
1/D3/968:972		No text annotation
IL_6ZQE_0391/D3/646:648,
1/D3/686:688		Isolated non-canonical cWW pair
homologous
IL_4V88_419
NA
IL_6ZQE_0841/D3/650:652,
1/D3/683:684		Single stack bend
geometric
IL_8C3A_091
NA
IL_6ZQE_0851/D3/652:658,
1/D3/676:683		No text annotation
IL_6ZQE_0411/D3/703:708,
1/D3/730:735		No text annotation
IL_6ZQE_0421/D3/708:712,
1/D3/726:730		No text annotation
IL_6ZQE_0861/D3/708:714,
1/D3/724:730		No text annotation
IL_6ZQE_0431/D3/714:717,
1/D3/722:724		No text annotation
IL_6ZQE_0441/D3/746:747,
1/D3/802:805		Major groove minor groove platform; mini C-loop
homologous
IL_4V88_423
NA
IL_6ZQE_0451/D3/748:750,
1/D3/799:801		Isolated non-canonical cWW pair
homologous
IL_4V88_424
NA
IL_6ZQE_0461/D3/751:759,
1/D3/791:798		No text annotation
homologous
IL_4V88_425
NA
IL_6ZQE_0921/D3/817:822,
1/D3/850:854		No text annotation
IL_6ZQE_0471/D3/822:824,
1/D3/849:850		Single stack bend
geometric
IL_4WF9_089
IL_26793.1
IL_6ZQE_0481/D3/824:825,
1/D3/847:849		Single stack bend
geometric
IL_7A0S_054
IL_26793.1
IL_6ZQE_0871/D3/824:827,
1/D3/845:849		No text annotation
IL_6ZQE_0491/D3/865:866,
1/D3/962:965		Major groove platform; stack outside cWW
geometric
IL_4WF9_049
IL_50694.7
IL_6ZQE_0501/D3/868:869,
1/D3/958:960		Single bulged U
geometric
IL_3NDB_005
IL_89505.4
IL_6ZQE_0881/D3/871:873,
1/D3/954:956		Isolated non-canonical cWW pair
geometric
IL_3D0U_006
IL_87907.2
IL_6ZQE_0521/D3/874:878,
1/D3/950:953		Tandem non-canonical cWW pairs
homologous
IL_4V88_431
NA
IL_6ZQE_0531/D3/885:888,
1/D3/924:927		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_6ZQE_0541/D3/893:899,
1/D3/910:919		Kink-turn related
homologous
IL_8C3A_440
NA
IL_6ZQE_0551/D3/985:990,
1/D3/1014:1016		Other IL
geometric
IL_4V88_435
NA
IL_6ZQE_0561/D3/990:994,
1/D3/1010:1014		tSH-tHW-tHS
geometric
IL_7A0S_049
IL_17136.7
IL_6ZQE_0571/D3/1034:1036,
1/D3/1095:1101		No text annotation
homologous
IL_4V88_437
NA
IL_6ZQE_0581/D3/1041:1044,
1/D3/1074:1077		Tandem non-canonical cWW pairs
homologous
IL_4V88_438
NA
IL_6ZQE_0591/D3/1051:1053,
1/D3/1066:1067		Single base bend
geometric
IL_5IBB_340
IL_90729.1
IL_6ZQE_0601/D3/1117:1119,
1/D4/6:7		No text annotation
IL_6ZQE_0611/D3/1122:1123,
1/D4/1:3		Single bulged U
geometric
IL_4LFB_046
IL_89505.4
IL_6ZQE_0621/D3/1157:1160,
1/D3/1617:1621		C-loop
homologous
IL_4V88_443
NA
IL_6ZQE_0631/D3/1173:1175,
1/D3/1464:1466		Isolated non-canonical cWW pair
homologous
IL_4V88_444
NA
IL_6ZQE_0641/D3/1495:1498,
1/D3/1509:1512		Tandem non-canonical cWW pairs
homologous
IL_4V88_461
NA
IL_6ZQE_0651/D3/1540:1545,
1/D3/1566:1571		No text annotation
geometric
IL_4V88_462
NA
IL_6ZQE_0661/D3/1650:1652,
1/D3/1748:1750		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_6ZQE_0681/D3/1665:1667,
1/D3/1734:1736		Isolated non-canonical cWW pair
homologous
IL_4V88_470
NA
IL_6ZQE_0691/D3/1669:1672,
1/D3/1729:1732		Double sheared
homologous
IL_4V88_471
NA
IL_6ZQE_0701/D3/1672:1674,
1/D3/1727:1729		Isolated non-canonical cWW pair
geometric
IL_4LFB_061
NA
IL_6ZQE_0711/D3/1675:1678,
1/D3/1723:1726		Tandem non-canonical cWW pairs
homologous
IL_4V88_473
NA
IL_6ZQE_0731/D3/1687:1694,
1/D3/1708:1714		No text annotation
IL_6ZQE_0931/D3/1687:1695,
1/D3/1706:1714		No text annotation
IL_6ZQE_0741/D3/1694:1696,
1/D3/1705:1708		No text annotation
IL_6ZQE_0751/D4/78:85,
1/D4/325:329		No text annotation
IL_6ZQE_0911/D4/85:96,
1/D4/320:325		No text annotation
IL_6ZQE_0761/D4/97:98,
1/D4/317:319		No text annotation
IL_6ZQE_0771/D4/111:115,
1/D4/252:259		No text annotation
IL_6ZQE_0781/D4/139:142,
1/D4/169:171		No text annotation
IL_6ZQE_0791/D4/144:146,
1/D4/166:167		No text annotation
IL_6ZQE_0801/D4/148:150,
1/D4/163:164		No text annotation
IL_6ZQE_0941/D4/177:178,
1/D4/187:189		No text annotation

Problematic loops

#loop idProblemSequence
IL_6ZQE_083Isolated non-canonical cWW pair
IL_6ZQE_040No text annotation
IL_6ZQE_051Tandem non-canonical cWW pairs
IL_6ZQE_089No text annotation
IL_6ZQE_067No text annotation
IL_6ZQE_072No text annotation
IL_6ZQE_090No text annotation
IL_6ZQE_081No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6ZQE_0011/D3/41:48,
1/D3/431:439,
1/D3/464:466		No text annotation
J3_6ZQE_0091/D3/213:228,
1/D3/237:243,
1/D3/250:252		No text annotation
J3_6ZQE_0021/D3/633:635,
1/D3/861:865,
1/D3/965:966		No text annotation
geometric
J3_4V88_080
NA
J3_6ZQE_0101/D3/633:635,
1/D3/861:866,
1/D3/962:966		No text annotation
homologous
J3_8P9A_072
J3_17385.4
J3_6ZQE_0031/D3/760:763,
1/D3/773:775,
1/D3/785:790		No text annotation
homologous
J3_4V88_032
NA
J3_6ZQE_0041/D3/881:884,
1/D3/928:936,
1/D3/943:947		No text annotation
homologous
J3_4V88_033
NA
J3_6ZQE_0051/D3/1037:1039,
1/D3/1079:1083,
1/D3/1090:1094		No text annotation
homologous
J3_4V88_034
NA
J3_6ZQE_0111/D3/1150:1151,
1/D3/1627:1629,
1/D3/1637:1640		No text annotation
J3_6ZQE_0131/D3/1161:1163,
1/D3/1582:1587,
1/D3/1609:1616		No text annotation
J3_6ZQE_0071/D3/1168:1171,
1/D3/1468:1470,
1/D3/1574:1577		No text annotation
homologous
J3_8C3A_039
NA
J3_6ZQE_0081/D3/1470:1474,
1/D3/1533:1540,
1/D3/1571:1574		No text annotation
homologous
J3_4V88_041
NA
J4_6ZQE_0011/D3/99:107,
1/D3/307:309,
1/D3/357:361,
1/D3/383:384		No text annotation
homologous
J4_8P9A_021
J4_15241.1
J4_6ZQE_0031/D3/622:624,
1/D3/975:980,
1/D3/1021:1032,
1/D3/1103:1104		No text annotation
homologous
J4_8P9A_022
J4_61885.6
J5_6ZQE_0011/D3/31:37,
1/D3/471:480,
1/D3/508:516,
1/D3/536:546,
1/D3/592:595		No text annotation
J5_6ZQE_0021/D3/31:41,
1/D3/466:480,
1/D3/508:516,
1/D3/536:546,
1/D3/592:595		No text annotation
J5_6ZQE_0031/D3/54:57,
1/D3/90:97,
1/D3/386:388,
1/D3/409:411,
1/D3/422:426		No text annotation
homologous
J5_8C3A_020
NA
J5_6ZQE_0051/D3/636:641,
1/D3/693:699,
1/D3/739:744,
1/D3/807:817,
1/D3/854:860		No text annotation

Problematic loops

#loop idProblemSequence
J3_6ZQE_006No text annotation
J3_6ZQE_012No text annotation
J4_6ZQE_002No text annotation
J5_6ZQE_004No text annotation

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