RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6ZQC_0011/D2/4:9UNCG variation
geometric
HL_2CZJ_007
NA
HL_6ZQC_0051/D2/251:257Mini UNCG with extended bulge
geometric
HL_7A0S_017
HL_90436.2
HL_6ZQC_0061/D2/301:305Mini UNCG
geometric
HL_5F9R_002
HL_90436.2
HL_6ZQC_0071/D2/360:365GNRA
geometric
HL_3AM1_003
HL_34789.2
HL_6ZQC_0081/D2/425:431No text annotation
HL_6ZQC_0091/D3/70:81No text annotation
geometric
HL_5NFV_001
HL_69752.4
HL_6ZQC_0101/D3/154:160GNRA related
homologous
HL_4V88_188
NA
HL_6ZQC_0131/D3/243:250T-loop with 1 bulged base
homologous
HL_4V88_191
NA
HL_6ZQC_0151/D3/330:338GNRA related
homologous
HL_4V88_193
NA
HL_6ZQC_0171/D3/394:403No text annotation
HL_6ZQC_0181/D3/414:419UNCG
homologous
HL_4V88_196
NA
HL_6ZQC_0191/D3/450:456No text annotation
homologous
HL_4V88_197
NA
HL_6ZQC_0201/D3/491:496No text annotation
geometric
HL_5NFV_001
HL_69752.4
HL_6ZQC_0211/D3/520:532No text annotation
geometric
HL_4V88_199
NA
HL_6ZQC_0221/D3/561:566No text annotation
geometric
HL_5TBW_006
NA
HL_6ZQC_0231/D3/764:772Externally structured
geometric
HL_8C3A_022
NA
HL_6ZQC_0261/D3/900:909No text annotation
homologous
HL_4V88_206
NA
HL_6ZQC_0271/D3/937:942GNRA
homologous
HL_4V88_207
NA
HL_6ZQC_0281/D3/1055:1064Mini UNCG
geometric
HL_4YAZ_004
HL_90436.2
HL_6ZQC_0291/D3/1129:1139No text annotation
HL_6ZQC_0321/D3/1501:1506GNRA
homologous
HL_4V88_218
NA
HL_6ZQC_0341/D3/1594:1602No text annotation
geometric
HL_2Y8W_001
HL_40612.1
HL_6ZQC_0351/D3/1629:1636Purine riboswitch
geometric
HL_4LX6_002
HL_46333.1
HL_6ZQC_0371/D3/1778:1783No text annotation
geometric
HL_1WZ2_007
HL_75660.7

Problematic loops

#loop idProblemSequence
HL_6ZQC_002No text annotation
HL_6ZQC_003UNCG variation
HL_6ZQC_004GNRA related
HL_6ZQC_011No text annotation
HL_6ZQC_012No text annotation
HL_6ZQC_014Mini UNCG
HL_6ZQC_016No text annotation
HL_6ZQC_024No text annotation
HL_6ZQC_025No text annotation
HL_6ZQC_030No text annotation
HL_6ZQC_031No text annotation
HL_6ZQC_033No text annotation
HL_6ZQC_036No text annotation
HL_6ZQC_038No text annotation
HL_6ZQC_039No text annotation
HL_6ZQC_040No text annotation
HL_6ZQC_041No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6ZQC_0011/D2/17:18,
1/D2/62:64		Single bulged G
geometric
IL_3NDB_004
NA
IL_6ZQC_0021/D2/94:95,
1/D2/149:156		Multiple bulged bases
geometric
IL_1R3E_001
IL_05670.1
IL_6ZQC_0031/D2/97:99,
1/D2/145:147		Isolated cWH basepair
geometric
IL_3W3S_003
IL_10892.2
IL_6ZQC_0041/D2/100:101,
1/D2/142:144		No text annotation
IL_6ZQC_1011/D2/100:104,
1/D2/140:144		No text annotation
IL_6ZQC_0051/D2/101:104,
1/D2/140:142		No text annotation
IL_6ZQC_0061/D2/107:110,
1/D2/136:137		Single stack bend
geometric
IL_5J7L_249
NA
IL_6ZQC_1021/D2/168:171,
1/D2/225:227		No text annotation
IL_6ZQC_0091/D2/175:178,
1/D2/219:221		Isolated non-canonical cWW pair
geometric
IL_5WTI_002
IL_71625.2
IL_6ZQC_0111/D2/238:240,
1/D2/273:274		Single bulged U
geometric
IL_6JDV_003
IL_97561.2
IL_6ZQC_0121/D2/245:246,
1/D2/266:268		No text annotation
geometric
IL_8B0X_146
IL_97561.2
IL_6ZQC_0131/D2/250:251,
1/D2/257:262		Multiple bulged bases
geometric
IL_1R3E_002
IL_05670.1
IL_6ZQC_0141/D2/337:340,
1/D2/386:387		Major groove minor groove platform; mini C-loop
geometric
IL_4V9F_068
IL_73108.2
IL_6ZQC_0151/D2/340:341,
1/D2/384:386		Single bulged A
geometric
IL_5J7L_302
NA
IL_6ZQC_0161/D2/342:343,
1/D2/381:383		Single bulged U
geometric
IL_4V88_439
NA
IL_6ZQC_0171/D2/346:349,
1/D2/375:378		Tandem non-canonical cWW pairs
geometric
IL_6MWN_005
IL_71194.2
IL_6ZQC_0181/D2/352:355,
1/D2/371:372		No text annotation
IL_6ZQC_1031/D2/352:356,
1/D2/369:372		No text annotation
IL_6ZQC_0191/D2/355:356,
1/D2/369:371		Multiple bulged bases
geometric
IL_1R3E_002
IL_05670.1
IL_6ZQC_0201/D2/402:407,
1/D2/449:455		No text annotation
IL_6ZQC_0211/D2/413:414,
1/D2/441:443		Single stack bend
geometric
IL_5J7L_032
NA
IL_6ZQC_0221/D2/414:415,
1/D2/439:441		Single bulged U
geometric
IL_4WF9_038
IL_97561.2
IL_6ZQC_0241/D2/466:470,
1/D4/48:50		Isolated non-canonical cWW with bulges
geometric
IL_5ML7_010
IL_68118.2
IL_6ZQC_0251/D3/24:26,
1/D3/600:601		Single bulged C
geometric
IL_3W3S_001
IL_05642.2
IL_6ZQC_0261/D3/35:37,
1/D3/471:473		Isolated non-canonical cWW pair
geometric
IL_4V88_385
NA
IL_6ZQC_0271/D3/37:41,
1/D3/466:471		Triple sheared related
geometric
IL_4V88_386
NA
IL_6ZQC_0281/D3/50:52,
1/D3/428:429		Minor groove platform
homologous
IL_4V88_388
NA
IL_6ZQC_0291/D3/58:63,
1/D3/87:89		No text annotation
homologous
IL_4V88_389
NA
IL_6ZQC_0301/D3/64:69,
1/D3/82:86		No text annotation
homologous
IL_4V88_390
NA
IL_6ZQC_0311/D3/109:112,
1/D3/302:305		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_6ZQC_0321/D3/113:116,
1/D3/300:301		Multiple bulged bases
homologous
IL_4V88_392
NA
IL_6ZQC_0331/D3/117:122,
1/D3/295:299		No text annotation
homologous
IL_4V88_393
NA
IL_6ZQC_0341/D3/144:149,
1/D3/165:171		tWH-tWH-tHW-tHW
geometric
IL_4LFB_009
IL_00680.1
IL_6ZQC_0351/D3/150:152,
1/D3/162:164		Isolated cWH basepair
geometric
IL_3R1C_018
IL_10892.2
IL_6ZQC_0381/D3/265:267,
1/D3/288:289		Single bulged A
homologous
IL_4V88_399
NA
IL_6ZQC_0391/D3/270:273,
1/D3/283:285		No text annotation
homologous
IL_4V88_400
NA
IL_6ZQC_0431/D3/363:365,
1/D3/376:381		No text annotation
homologous
IL_4V88_404
NA
IL_6ZQC_0441/D3/389:391,
1/D3/406:408		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_6ZQC_0461/D3/439:441,
1/D3/463:464		Single bulged U
homologous
IL_4V88_407
NA
IL_6ZQC_0471/D3/443:447,
1/D3/460:461		C-loop
geometric
IL_5J7L_018
NA
IL_6ZQC_0481/D3/447:448,
1/D3/458:460		Single bulged G
geometric
IL_5J7L_019
NA
IL_6ZQC_0491/D3/482:483,
1/D3/504:506		Single bulged A
homologous
IL_4V88_409
NA
IL_6ZQC_0501/D3/514:516,
1/D3/536:543		Isolated tHS basepair with bulges
geometric
IL_7RQB_082
NA
IL_6ZQC_0511/D3/517:518,
1/D3/533:535		Minor groove platform
geometric
IL_4UYK_001
IL_34520.2
IL_6ZQC_0521/D3/518:520,
1/D3/532:533		Minor groove platform
geometric
IL_4V88_412
NA
IL_6ZQC_0531/D3/551:552,
1/D3/584:587		Multiple bulged bases
geometric
IL_4V9F_088
IL_44609.2
IL_6ZQC_1081/D3/551:559,
1/D3/568:587		No text annotation
IL_6ZQC_0541/D3/552:559,
1/D3/568:584		No text annotation
IL_6ZQC_0551/D3/624:626,
1/D3/973:975		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_6ZQC_1091/D3/627:631,
1/D3/968:972		tSH-tHW-tHS
homologous
IL_8P9A_407
IL_05821.1
IL_6ZQC_0591/D3/746:747,
1/D3/802:805		Minor groove platform
geometric
IL_7RQB_073
NA
IL_6ZQC_0601/D3/748:751,
1/D3/798:801		Tandem non-canonical cWW pairs
geometric
IL_7A0S_040
IL_71194.2
IL_6ZQC_0611/D3/751:758,
1/D3/791:798		No text annotation
IL_6ZQC_0631/D3/865:866,
1/D3/962:965		Major groove platform; stack outside cWW
homologous
IL_4V88_428
NA
IL_6ZQC_0641/D3/868:869,
1/D3/958:960		Single bulged U
geometric
IL_7KVT_002
IL_97561.2
IL_6ZQC_1111/D3/871:873,
1/D3/954:956		Isolated non-canonical cWW pair
geometric
IL_2R8S_001
IL_01003.2
IL_6ZQC_0661/D3/874:878,
1/D3/950:953		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_6ZQC_0671/D3/885:888,
1/D3/924:927		Tandem non-canonical cWW pairs
homologous
IL_4V88_432
NA
IL_6ZQC_0681/D3/893:895,
1/D3/917:919		Isolated non-canonical cWW pair
geometric
IL_2ZKO_001
IL_01003.2
IL_6ZQC_1121/D3/893:899,
1/D3/910:919		No text annotation
homologous
IL_8P9A_422
IL_57741.1
IL_6ZQC_0691/D3/895:899,
1/D3/910:917		Kink-turn
homologous
IL_4V88_434
NA
IL_6ZQC_0701/D3/1035:1039,
1/D3/1079:1082		Tandem non-canonical cWW pairs
geometric
IL_5TBW_041
NA
IL_6ZQC_0711/D3/1041:1044,
1/D3/1074:1077		Tandem non-canonical cWW pairs
homologous
IL_4V88_438
NA
IL_6ZQC_0721/D3/1051:1053,
1/D3/1066:1067		Single stack bend
geometric
IL_4C7O_002
IL_15011.2
IL_6ZQC_0731/D3/1117:1119,
1/D4/6:7		Single bulged G
geometric
IL_3IGI_004
IL_28408.2
IL_6ZQC_0741/D3/1122:1123,
1/D4/1:3		Single stack bend
geometric
IL_5TBW_004
NA
IL_6ZQC_0751/D3/1157:1160,
1/D3/1617:1621		C-loop
homologous
IL_4V88_443
NA
IL_6ZQC_0761/D3/1173:1174,
1/D3/1464:1466		Single stack bend
geometric
IL_7RQB_058
NA
IL_6ZQC_0771/D3/1174:1176,
1/D3/1463:1464		Minor groove platform
geometric
IL_5TBW_039
NA
IL_6ZQC_0811/D3/1495:1498,
1/D3/1509:1512		Tandem non-canonical cWW pairs
homologous
IL_4V88_461
NA
IL_6ZQC_0821/D3/1650:1652,
1/D3/1748:1750		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_6ZQC_0831/D3/1653:1656,
1/D3/1744:1747		Tandem non-canonical cWW pairs
geometric
IL_5LQO_002
IL_15225.2
IL_6ZQC_0841/D3/1656:1658,
1/D3/1743:1744		Single bulged U
geometric
IL_6CZR_156
NA
IL_6ZQC_0941/D4/78:85,
1/D4/325:329		No text annotation
IL_6ZQC_1151/D4/85:96,
1/D4/320:325		No text annotation
IL_6ZQC_0951/D4/97:98,
1/D4/317:319		No text annotation
IL_6ZQC_0961/D4/111:115,
1/D4/252:259		No text annotation
IL_6ZQC_0971/D4/139:142,
1/D4/169:171		No text annotation
IL_6ZQC_0981/D4/144:146,
1/D4/166:167		No text annotation
IL_6ZQC_0991/D4/148:150,
1/D4/163:164		No text annotation

Problematic loops

#loop idProblemSequence
IL_6ZQC_007Single bulged U
IL_6ZQC_008No text annotation
IL_6ZQC_010Isolated non-canonical cWW contact
IL_6ZQC_023No text annotation
IL_6ZQC_104Triple non-canonical cWW pairs
IL_6ZQC_036Double sheared with non-canonical cWW
IL_6ZQC_037Isolated non-canonical cWW pair
IL_6ZQC_105Tandem non-canonical cWW pairs
IL_6ZQC_040Single bulged U
IL_6ZQC_041No text annotation
IL_6ZQC_106Kink-turn with non-sequential stacking
IL_6ZQC_042No text annotation
IL_6ZQC_107No text annotation
IL_6ZQC_045Isolated near basepair
IL_6ZQC_056No text annotation
IL_6ZQC_057Isolated non-canonical cWW pair
IL_6ZQC_110No text annotation
IL_6ZQC_058No text annotation
IL_6ZQC_116No text annotation
IL_6ZQC_062No text annotation
IL_6ZQC_065Tandem non-canonical cWW pairs
IL_6ZQC_078Tandem non-canonical cWW pairs
IL_6ZQC_079No text annotation
IL_6ZQC_080Double sheared
IL_6ZQC_113No text annotation
IL_6ZQC_085Isolated non-canonical cWW pair
IL_6ZQC_086Double sheared
IL_6ZQC_087Isolated non-canonical cWW pair
IL_6ZQC_088Tandem non-canonical cWW pairs
IL_6ZQC_089No text annotation
IL_6ZQC_090No text annotation
IL_6ZQC_091No text annotation
IL_6ZQC_092No text annotation
IL_6ZQC_114No text annotation
IL_6ZQC_093No text annotation
IL_6ZQC_100No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6ZQC_0011/D3/41:48,
1/D3/431:439,
1/D3/464:466		No text annotation
J3_6ZQC_0021/D3/633:635,
1/D3/861:865,
1/D3/965:966		No text annotation
geometric
J3_4V88_080
NA
J3_6ZQC_0091/D3/633:635,
1/D3/861:866,
1/D3/962:966		No text annotation
homologous
J3_8P9A_072
J3_17385.5
J3_6ZQC_0031/D3/881:884,
1/D3/928:936,
1/D3/943:947		No text annotation
homologous
J3_4V88_033
NA
J3_6ZQC_0041/D3/1150:1151,
1/D3/1627:1629,
1/D3/1636:1640		No text annotation
J3_6ZQC_0101/D3/1161:1164,
1/D3/1581:1587,
1/D3/1609:1616		No text annotation
homologous
J3_8C3A_038
NA
J3_6ZQC_0051/D3/1168:1171,
1/D3/1468:1470,
1/D3/1574:1577		No text annotation
homologous
J3_4V88_036
NA
J4_6ZQC_0011/D3/99:107,
1/D3/307:309,
1/D3/357:361,
1/D3/383:384		No text annotation
homologous
J4_8P9A_021
J4_15241.2
J5_6ZQC_0011/D2/291:299,
1/D2/307:333,
1/D2/391:397,
1/D2/460:462,
1/D4/54:62		No text annotation
J5_6ZQC_0021/D3/31:35,
1/D3/473:479,
1/D3/509:514,
1/D3/543:546,
1/D3/592:595		No text annotation
homologous
J5_8C3A_018
NA
J5_6ZQC_0041/D3/54:57,
1/D3/90:97,
1/D3/386:388,
1/D3/409:411,
1/D3/422:426		No text annotation
homologous
J5_8CRE_020
J5_58574.1

Problematic loops

#loop idProblemSequence
J3_6ZQC_006No text annotation
J3_6ZQC_007No text annotation
J3_6ZQC_008No text annotation
J5_6ZQC_003No text annotation

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