RNA 3D Hub //

9N6X Hairpin, Internal, and multi-helix Junction Loop Motifs

Download loops

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
HL_9N6X_0011/L0/4:9GNRA related
geometric
HL_8G9Z_003
HL_37569.4
HL_9N6X_0041/L0/251:257No text annotation
HL_9N6X_0051/L0/301:305Mini UNCG
geometric
HL_4V9F_021
HL_90436.6
HL_9N6X_0081/L1/70:81No text annotation
HL_9N6X_0091/L1/154:160No text annotation
homologous
HL_9PN5_079
HL_34789.7
HL_9N6X_0111/L1/243:250No text annotation
homologous
HL_9PN5_082
HL_67772.4
HL_9N6X_0121/L1/276:279No text annotation
geometric
HL_6U8D_003
HL_01957.2
HL_9N6X_0131/L1/330:338No text annotation
homologous
HL_9PN5_084
HL_87268.5
HL_9N6X_0141/L1/394:403No text annotation
HL_9N6X_0151/L1/414:419No text annotation
homologous
HL_9H3G_087
HL_61337.7
HL_9N6X_0161/L1/450:456No text annotation
homologous
HL_9PN5_088
HL_25795.2
HL_9N6X_0171/L1/491:496No text annotation
geometric
HL_9AXU_061
HL_34789.7
HL_9N6X_0181/L1/520:532No text annotation
homologous
HL_9PN5_090
HL_68749.4
HL_9N6X_0191/L1/561:566No text annotation
HL_9N6X_0201/L1/764:772No text annotation
homologous
HL_9PN5_092
HL_11974.5
HL_9N6X_0211/L1/901:908GNRA with tandem sheared
geometric
HL_3HHN_010
HL_98423.6
HL_9N6X_0221/L1/937:942No text annotation
homologous
HL_9PN5_096
HL_34789.7
HL_9N6X_0231/L1/1055:1064No text annotation
HL_9N6X_0241/L1/1129:1139No text annotation
HL_9N6X_0251/L1/1501:1506No text annotation
homologous
HL_9H3G_105
HL_34789.7
HL_9N6X_0261/L1/1594:1602No text annotation

Problematic loops

#loop idProblemSequence
HL_9N6X_002UNCG variation
HL_9N6X_003GNRA
HL_9N6X_006GNRA
HL_9N6X_007GNRA
HL_9N6X_010No text annotation
HL_9N6X_027No text annotation
HL_9N6X_028No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
IL_9N6X_0011/L0/17:18,
1/L0/62:64		Single bulged G
geometric
IL_8TSV_002
IL_28408.5
IL_9N6X_0021/L0/94:95,
1/L0/149:156		No text annotation
IL_9N6X_0031/L0/97:99,
1/L0/145:147		Isolated cWH basepair
geometric
IL_3R1C_011
IL_10892.5
IL_9N6X_0041/L0/100:104,
1/L0/140:144		No text annotation
IL_9N6X_0051/L0/107:110,
1/L0/136:137		Single stack bend
geometric
IL_4C7O_002
IL_15011.6
IL_9N6X_0071/L0/168:171,
1/L0/225:227		No text annotation
IL_9N6X_0101/L0/238:240,
1/L0/273:274		No text annotation
IL_9N6X_0111/L0/245:246,
1/L0/266:268		Single bulged U
geometric
IL_4O26_001
IL_97561.8
IL_9N6X_0121/L0/250:251,
1/L0/257:262		No text annotation
IL_9N6X_0131/L0/337:340,
1/L0/386:387		Major groove minor groove platform; mini C-loop
geometric
IL_4V9F_068
IL_73108.5
IL_9N6X_0141/L0/340:341,
1/L0/384:386		Single bulged A
geometric
IL_7DLZ_004
IL_14190.5
IL_9N6X_0151/L0/342:343,
1/L0/381:383		Single bulged U
geometric
IL_9E6Q_048
IL_97561.8
IL_9N6X_0161/L0/346:349,
1/L0/375:378		Tandem non-canonical cWW pairs
geometric
IL_6MWN_005
IL_71194.5
IL_9N6X_0171/L0/352:355,
1/L0/371:372		No text annotation
IL_9N6X_0181/L0/352:356,
1/L0/369:372		No text annotation
IL_9N6X_0191/L0/355:356,
1/L0/369:371		Stack outside cWW
geometric
IL_4KZD_006
IL_77710.2
IL_9N6X_0201/L0/402:407,
1/L0/449:455		No text annotation
IL_9N6X_0211/L0/413:414,
1/L0/441:443		Single stack bend
geometric
IL_8OI5_072
IL_15011.6
IL_9N6X_0221/L0/414:415,
1/L0/439:441		Single bulged U
geometric
IL_8F5G_001
IL_97561.8
IL_9N6X_0241/L0/466:470,
1/L2/48:50		No text annotation
geometric
IL_4V9F_053
IL_49140.3
IL_9N6X_0251/L1/24:26,
1/L1/600:601		Single bulged C
homologous
IL_9PN5_142
IL_05642.6
IL_9N6X_0261/L1/35:37,
1/L1/471:473		Isolated non-canonical cWW pair
geometric
IL_8CRE_391
IL_01003.7
IL_9N6X_0271/L1/37:41,
1/L1/466:471		No text annotation
homologous
IL_9PN5_144
IL_35092.2
IL_9N6X_0281/L1/50:52,
1/L1/428:429		Minor groove platform
homologous
IL_9PN5_146
IL_26092.1
IL_9N6X_0291/L1/58:63,
1/L1/87:89		No text annotation
homologous
IL_9PN5_147
IL_61299.9
IL_9N6X_0301/L1/64:69,
1/L1/82:86		No text annotation
homologous
IL_9PN5_148
IL_21667.4
IL_9N6X_0311/L1/109:112,
1/L1/302:305		Tandem non-canonical cWW pairs
homologous
IL_9H3G_162
IL_71194.5
IL_9N6X_0321/L1/113:116,
1/L1/300:301		No text annotation
homologous
IL_9PN5_150
IL_71421.6
IL_9N6X_0331/L1/117:122,
1/L1/295:299		No text annotation
homologous
IL_9PN5_151
IL_31545.4
IL_9N6X_0341/L1/142:149,
1/L1/165:172		No text annotation
homologous
IL_9H3G_165
IL_24485.3
IL_9N6X_0351/L1/150:152,
1/L1/162:164		Isolated cWH basepair
homologous
IL_9PN5_153
IL_10892.5
IL_9N6X_0361/L1/186:189,
1/L1/196:199		No text annotation
homologous
IL_9H3G_167
NA
IL_9N6X_0381/L1/204:206,
1/L1/259:263		Isolated non-canonical cWW pair
geometric
IL_5B2P_002
IL_71625.6
IL_9N6X_0391/L1/206:208,
1/L1/257:259		Isolated non-canonical cWW pair
homologous
IL_9PN5_155
IL_71625.6
IL_9N6X_0401/L1/265:267,
1/L1/288:289		Single bulged A
homologous
IL_9PN5_156
IL_14190.5
IL_9N6X_0411/L1/270:273,
1/L1/283:285		No text annotation
homologous
IL_9PN5_157
IL_77718.1
IL_9N6X_0431/L1/311:316,
1/L1/348:355		Kink-turn with non-sequential stacking
homologous
IL_9PN5_159
IL_46174.7
IL_9N6X_0441/L1/318:323,
1/L1/345:346		No text annotation
geometric
IL_8GLP_211
IL_01372.4
IL_9N6X_0451/L1/389:391,
1/L1/406:408		Isolated non-canonical cWW pair
geometric
IL_8PFQ_001
IL_01003.7
IL_9N6X_0461/L1/411:413,
1/L1/420:422		Isolated non-canonical cWW pair
homologous
IL_9PN5_163
IL_19025.1
IL_9N6X_0471/L1/439:441,
1/L1/463:464		Single bulged U
homologous
IL_9PN5_164
IL_97561.8
IL_9N6X_0481/L1/443:447,
1/L1/460:461		No text annotation
homologous
IL_9PN5_165
IL_26900.4
IL_9N6X_0491/L1/447:448,
1/L1/458:460		Single bulged G
homologous
IL_9PN5_166
IL_28408.5
IL_9N6X_0501/L1/482:483,
1/L1/504:506		Single bulged A
geometric
IL_8OI5_026
IL_14190.5
IL_9N6X_0511/L1/514:516,
1/L1/536:543		No text annotation
homologous
IL_9PN5_168
IL_02511.3
IL_9N6X_0521/L1/517:518,
1/L1/533:535		Minor groove platform
homologous
IL_9H3G_183
IL_26092.1
IL_9N6X_0531/L1/518:520,
1/L1/532:533		Minor groove platform
homologous
IL_9H3G_184
IL_26092.1
IL_9N6X_0541/L1/551:552,
1/L1/584:587		No text annotation
geometric
IL_8B0X_156
IL_44609.5
IL_9N6X_0551/L1/552:559,
1/L1/568:584		No text annotation
IL_9N6X_0561/L1/624:626,
1/L1/973:975		Isolated non-canonical cWW pair
homologous
IL_9H3G_190
IL_01003.7
IL_9N6X_0571/L1/627:631,
1/L1/968:972		No text annotation
homologous
IL_9PN5_176
IL_05821.4
IL_9N6X_0581/L1/746:747,
1/L1/802:805		Minor groove platform
geometric
IL_9DFE_073
IL_26092.1
IL_9N6X_0591/L1/748:750,
1/L1/799:801		Isolated non-canonical cWW pair
homologous
IL_9PN5_179
IL_71625.6
IL_9N6X_0601/L1/865:866,
1/L1/962:965		Major groove platform; stack outside cWW
geometric
IL_8GLP_235
IL_74641.5
IL_9N6X_0611/L1/868:869,
1/L1/958:960		Single bulged U
geometric
IL_9AXU_050
IL_97561.8
IL_9N6X_0621/L1/871:873,
1/L1/954:956		Isolated non-canonical cWW pair
geometric
IL_2R8S_001
IL_01003.7
IL_9N6X_0631/L1/874:878,
1/L1/950:953		Tandem non-canonical cWW pairs
homologous
IL_9PN5_185
IL_15225.5
IL_9N6X_0641/L1/885:888,
1/L1/924:927		Tandem non-canonical cWW pairs
homologous
IL_9PN5_186
IL_15225.5
IL_9N6X_0651/L1/893:899,
1/L1/910:919		No text annotation
homologous
IL_9PN5_187
NA
IL_9N6X_0661/L1/1033:1034,
1/L1/1083:1085		Single bulged A
geometric
IL_8OI5_122
IL_14190.5
IL_9N6X_0671/L1/1035:1039,
1/L1/1079:1082		Tandem non-canonical cWW pairs
geometric
IL_8UIW_002
IL_71194.5
IL_9N6X_0681/L1/1041:1044,
1/L1/1074:1077		Tandem non-canonical cWW pairs
homologous
IL_9H3G_206
IL_15225.5
IL_9N6X_0691/L1/1051:1053,
1/L1/1066:1067		Single stack bend
homologous
IL_9H3G_207
IL_15011.6
IL_9N6X_0701/L1/1117:1119,
1/L2/6:7		Single bulged G
geometric
IL_3IGI_004
IL_28408.5
IL_9N6X_0711/L1/1157:1160,
1/L1/1617:1621		No text annotation
homologous
IL_9H3G_212
IL_63596.15
IL_9N6X_0721/L1/1173:1174,
1/L1/1464:1466		No text annotation
geometric
IL_8GLP_141
IL_57267.1
IL_9N6X_0731/L1/1174:1176,
1/L1/1463:1464		Minor groove platform
geometric
IL_8CRE_457
IL_37129.1
IL_9N6X_0771/L1/1495:1498,
1/L1/1509:1512		No text annotation
homologous
IL_9PN5_218
IL_39691.1
IL_9N6X_0781/L1/1650:1652,
1/L1/1748:1750		Isolated non-canonical cWW pair
homologous
IL_9PN5_224
IL_01003.7
IL_9N6X_0791/L1/1653:1656,
1/L1/1744:1747		Tandem non-canonical cWW pairs
geometric
IL_5LQO_002
IL_15225.5
IL_9N6X_0801/L1/1656:1658,
1/L1/1743:1744		Single bulged U
homologous
IL_9PN5_226
IL_97561.8
IL_9N6X_0881/L2/78:85,
1/L2/325:329		No text annotation
IL_9N6X_0891/L2/85:96,
1/L2/320:325		No text annotation
IL_9N6X_0911/L2/111:115,
1/L2/252:259		No text annotation

Problematic loops

#loop idProblemSequence
IL_9N6X_006No text annotation
IL_9N6X_008Isolated non-canonical cWW pair
IL_9N6X_009Isolated non-canonical cWW pair
IL_9N6X_023No text annotation
IL_9N6X_037No text annotation
IL_9N6X_042Single bulged U
IL_9N6X_074Isolated non-canonical cWW pair
IL_9N6X_075Single bulged U
IL_9N6X_076Single bulged A
IL_9N6X_081No text annotation
IL_9N6X_082Double sheared
IL_9N6X_083Isolated non-canonical cWW pair
IL_9N6X_084Tandem non-canonical cWW pairs
IL_9N6X_085No text annotation
IL_9N6X_086Isolated cWH basepair
IL_9N6X_087Isolated cWH basepair
IL_9N6X_090No text annotation

Valid loops

3DLoop idLocationAnnotation; motif groupMapped info
J3_9N6X_0011/L1/633:635,
1/L1/861:865,
1/L1/965:966		No text annotation
geometric
J3_9H3G_030
J3_01633.3
J3_9N6X_0021/L1/633:635,
1/L1/861:866,
1/L1/962:966		No text annotation
homologous
J3_9H3G_031
J3_17385.8
J3_9N6X_0031/L1/881:884,
1/L1/928:936,
1/L1/943:947		No text annotation
homologous
J3_9PN5_033
NA
J3_9N6X_0041/L1/1161:1164,
1/L1/1581:1587,
1/L1/1609:1616		No text annotation
homologous
J3_9PN5_035
J3_85722.4
J3_9N6X_0051/L1/1168:1171,
1/L1/1468:1470,
1/L1/1574:1577		No text annotation
homologous
J3_9PN5_036
J3_44359.4
J5_9N6X_0011/L0/291:299,
1/L0/307:333,
1/L0/391:397,
1/L0/460:462,
1/L2/54:62		No text annotation
J5_9N6X_0021/L1/31:35,
1/L1/473:479,
1/L1/509:514,
1/L1/543:546,
1/L1/592:595		No text annotation
homologous
J5_9PN5_007
J5_04786.3
J5_9N6X_0031/L1/31:35,
1/L1/473:479,
1/L1/509:516,
1/L1/536:546,
1/L1/592:595		No text annotation
J5_9N6X_0041/L1/54:57,
1/L1/90:97,
1/L1/386:388,
1/L1/409:411,
1/L1/422:426		No text annotation
homologous
J5_9PN5_009
J5_58574.4

Problematic loops

No problematic loops


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