RNA 3D Hub //

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

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_6ZQB_0011/D2/4:9GNRA related
geometric
HL_3OXE_002
HL_04783.2
HL_6ZQB_0021/D2/120:125UNCG variation
geometric
HL_2CZJ_007
HL_23696.2
HL_6ZQB_0031/D2/196:201GNRA
geometric
HL_6AZ4_001
HL_37824.5
HL_6ZQB_0041/D2/251:257Mini UNCG
geometric
HL_4V9F_041
HL_46878.1
HL_6ZQB_0051/D2/301:305Mini UNCG
geometric
HL_5U30_001
NA
HL_6ZQB_0061/D2/360:365GNRA
geometric
HL_5TBW_017
NA
HL_6ZQB_0071/D2/424:433No text annotation
HL_6ZQB_0081/D2/514:521No text annotation
geometric
HL_7RQB_022
NA
HL_6ZQB_0101/D3/70:81No text annotation
homologous
HL_8C3A_193
HL_21248.1
HL_6ZQB_0111/D3/154:160GNRA related
homologous
HL_4V88_188
NA
HL_6ZQB_0391/D3/190:195No text annotation
homologous
HL_8P9A_193
HL_53890.1
HL_6ZQB_0131/D3/230:235UNCG
geometric
HL_3U4M_001
HL_34617.3
HL_6ZQB_0141/D3/275:279No text annotation
HL_6ZQB_0371/D3/275:281Other HL
geometric
HL_5J7L_200
HL_45127.1
HL_6ZQB_0151/D3/330:338GNRA related
homologous
HL_4V88_193
NA
HL_6ZQB_0161/D3/368:377No text annotation
geometric
HL_4V88_198
NA
HL_6ZQB_0171/D3/393:404No text annotation
homologous
HL_4V88_195
NA
HL_6ZQB_0181/D3/414:419UNCG
homologous
HL_4V88_196
NA
HL_6ZQB_0191/D3/450:456No text annotation
homologous
HL_4V88_197
NA
HL_6ZQB_0201/D3/491:496GNRA variation
geometric
HL_1L9A_001
HL_37824.5
HL_6ZQB_0211/D3/520:532No text annotation
homologous
HL_4V88_199
NA
HL_6ZQB_0221/D3/561:566No text annotation
geometric
HL_5TBW_006
NA
HL_6ZQB_0241/D3/900:909No text annotation
homologous
HL_4V88_206
NA
HL_6ZQB_0251/D3/937:942GNRA
homologous
HL_4V88_207
NA
HL_6ZQB_0261/D3/1055:1064Mini UNCG
geometric
HL_4LFB_005
HL_46878.1
HL_6ZQB_0271/D3/1129:1139No text annotation
HL_6ZQB_0301/D3/1501:1506GNRA
homologous
HL_4V88_218
NA
HL_6ZQB_0311/D3/1594:1602Mini UNCG
geometric
HL_4OOG_001
HL_56334.1
HL_6ZQB_0321/D3/1629:1636No text annotation
geometric
HL_2Y8W_001
HL_81100.2
HL_6ZQB_0331/D3/1698:1703GNRA
geometric
HL_1M5K_003
NA
HL_6ZQB_0341/D3/1778:1783No text annotation
HL_6ZQB_0401/D4/203:246No text annotation
HL_6ZQB_0361/D4/266:305No text annotation

Problematic loops

#loop idProblemSequence
HL_6ZQB_009No text annotation
HL_6ZQB_012No text annotation
HL_6ZQB_023No text annotation
HL_6ZQB_028No text annotation
HL_6ZQB_029No text annotation
HL_6ZQB_035No text annotation
HL_6ZQB_038No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_6ZQB_0011/D2/17:18,
1/D2/62:64		Single bulged G
geometric
IL_5TBW_037
NA
IL_6ZQB_1101/D2/94:95,
1/D2/149:156		No text annotation
IL_6ZQB_0031/D2/97:99,
1/D2/145:147		Isolated cWH basepair
geometric
IL_3SJ2_002
IL_10167.3
IL_6ZQB_0041/D2/100:105,
1/D2/139:144		No text annotation
IL_6ZQB_0051/D2/107:110,
1/D2/136:137		Single stack bend
geometric
IL_5J7L_249
IL_06586.2
IL_6ZQB_0061/D2/116:117,
1/D2/128:130		No text annotation
IL_6ZQB_0071/D2/167:172,
1/D2/224:228		No text annotation
IL_6ZQB_1111/D2/175:178,
1/D2/219:221		No text annotation
IL_6ZQB_0091/D2/187:189,
1/D2/208:210		Isolated non-canonical cWW pair
geometric
IL_4V88_467
NA
IL_6ZQB_0101/D2/238:240,
1/D2/273:274		No text annotation
IL_6ZQB_1121/D2/245:247,
1/D2/265:268		No text annotation
IL_6ZQB_0121/D2/250:251,
1/D2/257:262		Multiple bulged bases
geometric
IL_1R3E_002
IL_82107.2
IL_6ZQB_0131/D2/337:340,
1/D2/386:387		Major groove minor groove platform; mini C-loop
geometric
IL_4V9F_068
IL_68140.2
IL_6ZQB_0141/D2/340:341,
1/D2/384:386		Single bulged A
geometric
IL_1JZV_002
IL_31462.3
IL_6ZQB_0901/D2/340:343,
1/D2/381:386		No text annotation
geometric
IL_1GID_008
IL_68538.1
IL_6ZQB_0151/D2/341:343,
1/D2/381:384		Isolated non-canonical cWW pair
geometric
IL_4E59_001
IL_10289.2
IL_6ZQB_0161/D2/346:349,
1/D2/375:378		Tandem non-canonical cWW pairs
geometric
IL_4UYK_003
IL_54697.2
IL_6ZQB_0171/D2/352:355,
1/D2/371:372		No text annotation
IL_6ZQB_1131/D2/352:356,
1/D2/369:372		No text annotation
IL_6ZQB_0181/D2/355:356,
1/D2/369:371		Stack outside cWW
geometric
IL_1NTA_001
IL_66635.4
IL_6ZQB_1141/D2/402:407,
1/D2/449:455		No text annotation
IL_6ZQB_0201/D2/413:414,
1/D2/441:443		Single stack bend
geometric
IL_5J7L_032
IL_06586.2
IL_6ZQB_1151/D2/414:415,
1/D2/439:441		No text annotation
IL_6ZQB_1161/D2/466:470,
1/D4/48:50		No text annotation
IL_6ZQB_0941/D2/497:498,
1/D2/540:542		Major groove intercalation
geometric
IL_1U9S_003
IL_82107.2
IL_6ZQB_0241/D2/501:503,
1/D2/533:537		No text annotation
geometric
IL_4V9F_072
IL_55516.1
IL_6ZQB_0251/D2/505:507,
1/D2/529:531		Isolated non-canonical cWW pair
geometric
IL_5MSF_001
IL_10289.2
IL_6ZQB_0961/D2/510:511,
1/D2/524:526		Single bulged U
geometric
IL_6UFH_004
NA
IL_6ZQB_0271/D2/550:552,
1/D2/585:587		Isolated non-canonical cWW contact
geometric
IL_5UNE_001
IL_63702.3
IL_6ZQB_0971/D3/50:53,
1/D3/427:429		No text annotation
geometric
IL_4N0T_004
IL_47767.1
IL_6ZQB_0281/D3/58:63,
1/D3/87:89		No text annotation
homologous
IL_4V88_389
NA
IL_6ZQB_0981/D3/64:69,
1/D3/82:86		No text annotation
homologous
IL_8C3A_398
IL_34063.1
IL_6ZQB_0301/D3/109:112,
1/D3/302:305		Tandem non-canonical cWW pairs
homologous
IL_4V88_391
NA
IL_6ZQB_1171/D3/113:116,
1/D3/300:301		No text annotation
homologous
IL_8CRE_398
NA
IL_6ZQB_0321/D3/117:122,
1/D3/295:299		No text annotation
homologous
IL_4V88_393
NA
IL_6ZQB_0331/D3/150:152,
1/D3/162:164		Isolated non-canonical cWW contact
homologous
IL_4V88_395
NA
IL_6ZQB_0341/D3/186:189,
1/D3/196:199		Double sheared
homologous
IL_4V88_396
NA
IL_6ZQB_0351/D3/204:206,
1/D3/259:263		No text annotation
IL_6ZQB_0361/D3/206:208,
1/D3/257:259		Isolated non-canonical cWW pair
homologous
IL_4V88_398
NA
IL_6ZQB_0381/D3/226:229,
1/D3/236:241		No text annotation
IL_6ZQB_0391/D3/265:267,
1/D3/288:289		Single bulged A
homologous
IL_4V88_399
NA
IL_6ZQB_0401/D3/270:273,
1/D3/283:285		No text annotation
homologous
IL_4V88_400
NA
IL_6ZQB_0411/D3/274:275,
1/D3/279:282		Single stack bend
geometric
IL_4LFB_041
IL_06586.2
IL_6ZQB_0421/D3/311:316,
1/D3/348:355		Kink-turn with non-sequential stacking
homologous
IL_4V88_402
NA
IL_6ZQB_0431/D3/318:323,
1/D3/345:346		No text annotation
geometric
IL_5Y58_001
IL_59877.1
IL_6ZQB_0441/D3/364:368,
1/D3/377:380		Tandem non-canonical cWW pairs
geometric
IL_3WBM_002
IL_54697.2
IL_6ZQB_0451/D3/389:391,
1/D3/406:408		Isolated cWH basepair
homologous
IL_4V88_405
NA
IL_6ZQB_0461/D3/411:413,
1/D3/420:422		Isolated near basepair
homologous
IL_4V88_406
NA
IL_6ZQB_0471/D3/443:447,
1/D3/460:461		C-loop
geometric
IL_5J7L_018
IL_03109.1
IL_6ZQB_0481/D3/447:448,
1/D3/458:460		Single bulged G
homologous
IL_8C3A_417
IL_00225.11
IL_6ZQB_0491/D3/482:483,
1/D3/504:506		Single bulged A
homologous
IL_4V88_409
NA
IL_6ZQB_0501/D3/514:516,
1/D3/536:543		No text annotation
IL_6ZQB_0511/D3/517:520,
1/D3/532:535		Tandem non-canonical cWW pairs
geometric
IL_5C5W_003
NA
IL_6ZQB_0521/D3/551:552,
1/D3/584:587		Multiple bulged bases
geometric
IL_3IGI_013
IL_42626.1
IL_6ZQB_0531/D3/552:559,
1/D3/568:584		No text annotation
IL_6ZQB_0541/D3/624:626,
1/D3/973:975		Isolated non-canonical cWW pair
homologous
IL_4V88_417
NA
IL_6ZQB_0551/D3/627:631,
1/D3/968:972		tSH-tHW-tHS
homologous
IL_4V88_418
NA
IL_6ZQB_0561/D3/642:645,
1/D3/690:692		No text annotation
IL_6ZQB_0571/D3/645:646,
1/D3/688:690		Single stack bend
geometric
IL_7A0S_054
IL_06586.2
IL_6ZQB_0581/D3/646:648,
1/D3/686:688		Isolated non-canonical cWW pair
homologous
IL_4V88_419
NA
IL_6ZQB_0591/D3/865:866,
1/D3/962:965		Major groove platform; stack outside cWW
geometric
IL_4V88_428
NA
IL_6ZQB_1021/D3/868:869,
1/D3/958:960		Single bulged U
geometric
IL_2OIU_003
IL_89505.2
IL_6ZQB_1181/D3/871:874,
1/D3/953:956		No text annotation
homologous
IL_8CRE_433
NA
IL_6ZQB_0621/D3/874:878,
1/D3/950:953		Tandem non-canonical cWW pairs
geometric
IL_4V88_431
NA
IL_6ZQB_1191/D3/885:888,
1/D3/924:927		No text annotation
homologous
IL_8P9A_421
IL_54697.2
IL_6ZQB_0641/D3/893:899,
1/D3/910:919		Kink-turn related
homologous
IL_8C3A_440
IL_22252.1
IL_6ZQB_1201/D3/1041:1044,
1/D3/1074:1077		No text annotation
homologous
IL_8CRE_440
NA
IL_6ZQB_0661/D3/1051:1053,
1/D3/1066:1067		Single stack bend
geometric
IL_4C7O_002
IL_06586.2
IL_6ZQB_0671/D3/1117:1119,
1/D4/6:7		Single bulged G
geometric
IL_3IGI_004
IL_00225.11
IL_6ZQB_1211/D3/1157:1160,
1/D3/1617:1621		C-loop
homologous
IL_8P9A_431
IL_63596.10
IL_6ZQB_1221/D3/1173:1176,
1/D3/1463:1466		Double sheared
geometric
IL_4ZNP_002
IL_09705.13
IL_6ZQB_1231/D3/1212:1215,
1/D3/1448:1451		No text annotation
geometric
IL_8BH9_001
IL_86374.1
IL_6ZQB_0711/D3/1273:1274,
1/D3/1435:1437		No text annotation
IL_6ZQB_0731/D3/1495:1498,
1/D3/1509:1512		Tandem non-canonical cWW pairs
homologous
IL_4V88_461
NA
IL_6ZQB_0741/D3/1650:1652,
1/D3/1748:1750		Isolated non-canonical cWW pair
homologous
IL_4V88_467
NA
IL_6ZQB_0751/D3/1653:1656,
1/D3/1744:1747		Tandem non-canonical cWW pairs
geometric
IL_5LQO_002
IL_54697.2
IL_6ZQB_1061/D3/1653:1658,
1/D3/1743:1747		No text annotation
IL_6ZQB_0761/D3/1656:1658,
1/D3/1743:1744		Single bulged U
homologous
IL_4V88_469
NA
IL_6ZQB_1071/D3/1665:1667,
1/D3/1734:1736		Isolated non-canonical cWW pair
homologous
IL_8P9A_459
IL_10289.2
IL_6ZQB_0781/D3/1669:1672,
1/D3/1729:1732		Double sheared
geometric
IL_1SAQ_002
IL_09705.13
IL_6ZQB_0791/D3/1672:1674,
1/D3/1727:1729		Isolated non-canonical cWW pair
homologous
IL_4V88_472
NA
IL_6ZQB_0801/D3/1675:1678,
1/D3/1723:1726		Tandem non-canonical cWW pairs
homologous
IL_4V88_473
NA
IL_6ZQB_1081/D3/1688:1690,
1/D3/1711:1713		Isolated tWW contact
homologous
IL_8P9A_464
IL_10167.3
IL_6ZQB_0841/D4/78:85,
1/D4/325:329		No text annotation
IL_6ZQB_1091/D4/85:96,
1/D4/320:325		No text annotation
IL_6ZQB_0851/D4/97:98,
1/D4/317:319		No text annotation
IL_6ZQB_0861/D4/111:115,
1/D4/252:259		No text annotation
IL_6ZQB_0871/D4/115:199,
1/D4/250:252		No text annotation

Problematic loops

#loop idProblemSequence
IL_6ZQB_002No text annotation
IL_6ZQB_088No text annotation
IL_6ZQB_008Tandem non-canonical cWW pairs
IL_6ZQB_011Tandem non-canonical cWW pairs
IL_6ZQB_089Partly complementary
IL_6ZQB_091No text annotation
IL_6ZQB_092No text annotation
IL_6ZQB_093Isolated cWS basepair
IL_6ZQB_019No text annotation
IL_6ZQB_021Tandem non-canonical cWW pairs
IL_6ZQB_022No text annotation
IL_6ZQB_023Isolated non-canonical cWW pair
IL_6ZQB_095Tandem non-canonical cWW pairs
IL_6ZQB_026Single bulged G, near cWW
IL_6ZQB_029No text annotation
IL_6ZQB_099No text annotation
IL_6ZQB_031Multiple bulged bases, near cWW
IL_6ZQB_037No text annotation
IL_6ZQB_100Tandem non-canonical cWW pairs
IL_6ZQB_101No text annotation
IL_6ZQB_060Isolated non-canonical cWW pair
IL_6ZQB_061No text annotation
IL_6ZQB_063No text annotation
IL_6ZQB_103No text annotation
IL_6ZQB_065No text annotation
IL_6ZQB_068No text annotation
IL_6ZQB_069tSH-tHW-tHS-cWW
IL_6ZQB_070No text annotation
IL_6ZQB_072No text annotation
IL_6ZQB_104Triple non-canonical cWW pairs
IL_6ZQB_105Tandem non-canonical cWW pairs
IL_6ZQB_077Tandem non-canonical cWW pairs
IL_6ZQB_081No text annotation
IL_6ZQB_082No text annotation
IL_6ZQB_083No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_6ZQB_0011/D3/633:635,
1/D3/861:865,
1/D3/965:966		No text annotation
homologous
J3_8P9A_071
J3_56052.4
J3_6ZQB_0021/D3/881:884,
1/D3/928:936,
1/D3/943:947		No text annotation
homologous
J3_4V88_033
NA
J3_6ZQB_0031/D3/1150:1151,
1/D3/1627:1629,
1/D3/1636:1640		No text annotation
J3_6ZQB_0061/D3/1161:1164,
1/D3/1581:1587,
1/D3/1609:1616		No text annotation
homologous
J3_8C3A_038
J3_25303.2
J3_6ZQB_0041/D3/1168:1171,
1/D3/1468:1470,
1/D3/1574:1577		No text annotation
homologous
J3_4V88_036
NA
J3_6ZQB_0051/D4/105:111,
1/D4/259:263,
1/D4/308:310		No text annotation
J4_6ZQB_0011/D3/99:107,
1/D3/307:309,
1/D3/357:363,
1/D3/381:384		No text annotation
J5_6ZQB_0031/D2/291:299,
1/D2/307:333,
1/D2/391:397,
1/D2/460:462,
1/D4/54:62		No text annotation
J5_6ZQB_0041/D3/30:35,
1/D3/473:479,
1/D3/509:514,
1/D3/543:546,
1/D3/592:596		No text annotation

Problematic loops

#loop idProblemSequence
J5_6ZQB_001No text annotation
J5_6ZQB_002No text annotation

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